Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 83 of 297
Found at i:29881044 original size:19 final size:19
Alignment explanation
Indices: 29881004--29881044 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
29880994 GTTAAATTGT
*
29881004 TATATATTTTATTTGTAAA
1 TATATAATTTATTTGTAAA
*
29881023 TATATAATTTGTTT-T-AA
1 TATATAATTTATTTGTAAA
29881040 TATAT
1 TATAT
29881045 GCTGAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATATAATTTATTTGTAAA
Found at i:29883264 original size:37 final size:37
Alignment explanation
Indices: 29883221--29883328 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
29883211 GCTCGGACGT
* *
29883221 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
29883258 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
29883295 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29883329 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:29883543 original size:47 final size:47
Alignment explanation
Indices: 29883491--29883629 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 47
29883481 TTTCACACTA
* * * * * *
29883491 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
29883538 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
29883585 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
29883630 AAAATCCTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:29891806 original size:48 final size:48
Alignment explanation
Indices: 29891737--29891967 Score: 242
Period size: 48 Copynumber: 4.9 Consensus size: 48
29891727 TAAGGTTATG
*
29891737 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCGATA
* *
29891785 TGTGATCCCATGTAAGACCATGTTTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCGATA
* * * *
29891833 TTTGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCGATA
* * * * * * * *
29891881 TGAGA-CATCGTGTAATACCATAG-CTGGGCTAT--C---GGCTTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTAGGATATGGCATTGGCATCGATA
* *
29891924 TGTGATCCCATGTAAGACCATATCTAGGATATAGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATC
29891968 TTACTATGTG
Statistics
Matches: 150, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
43 30 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 116 0.77
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCGATA
Found at i:29894642 original size:38 final size:38
Alignment explanation
Indices: 29894599--29894760 Score: 162
Period size: 38 Copynumber: 4.0 Consensus size: 38
29894589 TTTCAAATTA
* *
29894599 ACATGTATAACCATGACATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
29894637 ACATGTTTAATCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
29894678 GAATCAATGTATGTAACCGTGGCATATCCACTTAGCACCACATT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
29894722 ACATGTTTAACCGTGGTATATCCACTTAGCTCCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
29894760 A
1 A
29894761 ATGAATCAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
38 60 0.59
39 1 0.01
40 4 0.04
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 4 0.04
46 1 0.01
47 26 0.25
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:29894707 original size:85 final size:85
Alignment explanation
Indices: 29894606--29894807 Score: 322
Period size: 85 Copynumber: 2.4 Consensus size: 85
29894596 TTAACATGTA
* * *
29894606 TAACCATGACATATCCACTTAGCACCACGTTACATGTTTAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
29894671 CGTTAATGAATCAATGTATG
66 CGTTAATGAATCAATATATG
* *
29894691 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCTCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
29894756 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
29894776 TAACCGTGGCATAT---C-TAGCACCACGTTACATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATG
29894808 CATCAATATG
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 16 0.15
82 1 0.01
85 93 0.85
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:29894717 original size:47 final size:47
Alignment explanation
Indices: 29894648--29894847 Score: 201
Period size: 47 Copynumber: 4.5 Consensus size: 47
29894638 CATGTTTAAT
*
29894648 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATGTATGTAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
* * *
29894695 CGTGGCATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-TAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
*
29894733 CGTGGTATATCCACTTAGCTCCACGTTAATGAATCAATATATGTAAC
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
* * * *
29894780 CGTGGCATAT---C-TAGCACCACGTTACATGCATCAATATGTGTAAT
1 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAC
* *
29894824 CATGGTATATCCACTTAGAACCAC
1 CGTGGTATATCCACTTAGCACCAC
29894848 ATTACACGTA
Statistics
Matches: 125, Mismatches: 14, Indels: 27
0.75 0.08 0.16
Matches are distributed among these distances:
38 26 0.21
39 1 0.01
40 4 0.03
41 1 0.01
42 3 0.02
43 15 0.12
44 26 0.21
45 3 0.02
46 1 0.01
47 37 0.30
48 8 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAC
Found at i:29894834 original size:44 final size:43
Alignment explanation
Indices: 29894748--29894834 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
29894738 TATATCCACT
* *
29894748 TAGCTCCACGTTAATGAATCAATATATGTAACCGTGGCATATC
1 TAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATC
* * * *
29894791 TAGCACCACGTTACATGCATCAATATGTGTAATCATGGTATATC
1 TAGCACCACGTTA-ATGAATCAATATATGTAACCATGGCATATC
29894835 CACTTAGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 12 0.32
44 25 0.68
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (43 bp):
TAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATC
Found at i:29903704 original size:42 final size:44
Alignment explanation
Indices: 29903621--29903758 Score: 147
Period size: 42 Copynumber: 3.2 Consensus size: 44
29903611 TCCCGAACGT
* * * * * *
29903621 GGTCTTACATGTAATTCAG-TATCGATGCCTCTATCCTAGACAG
1 GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
*
29903664 GGTCTTACACG-AAATCAGATAT-GATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
** * * *
29903706 GGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
29903750 GGTCTTACA
1 GGTCTTACA
29903759 TGATATCTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
42 33 0.41
43 21 0.26
44 26 0.32
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
Found at i:29903748 original size:44 final size:42
Alignment explanation
Indices: 29903658--29903758 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 42
29903648 CCTCTATCCT
* * * *
29903658 AGACAGGGTCTTACACGAAATCAGATATGATGCCTATGTCCC
1 AGACACGGTCTTACACGAAATCACAAATGAGGCCTATGTCCC
* * *
29903700 AGACATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCC
1 AGACACGGTCTTACACG-AAATCACAAAT-GAGGCCTATGTCCC
29903744 AGACACGGTCTTACA
1 AGACACGGTCTTACA
29903759 TGATATCTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 16 0.32
43 8 0.16
44 26 0.52
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
AGACACGGTCTTACACGAAATCACAAATGAGGCCTATGTCCC
Found at i:29918205 original size:40 final size:39
Alignment explanation
Indices: 29918125--29918232 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 39
29918115 CAACCAAGTA
* * *
29918125 CCTTCGGGATTTAGCCGGACATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCACACAAATG
*
29918164 CCTTCGGGACTTAGCTCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGC-CGGATATAGTAACTCACACAAATG
29918204 CCTTCGGGACTTAGCCCGGATATAGTAAC
1 CCTTCGGGACTTAG-CCGGATATAGTAAC
29918233 AATATTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 15 0.25
40 45 0.74
41 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCACACAAATG
Found at i:29918460 original size:146 final size:146
Alignment explanation
Indices: 29918196--29918472 Score: 504
Period size: 146 Copynumber: 1.9 Consensus size: 146
29918186 TAGTAACTCA
29918196 CACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACAATATTCATGCACATATCCATAAATCAT
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACAATATTCATGCACATATCCATAAATCAT
29918261 GACACATCTATATTTCATTTTCATAATTAGAATTTAAACACAAGTCACTTATCAAGCATTACCAT
66 GACACATCTATATTTCATTTTCATAATTAGAATTTAAACACAAGTCACTTATCAAGCATTACCAT
29918326 TAGAATTAGTCACTAG
131 TAGAATTAGTCACTAG
* *
29918342 CACAAATGCCTTCGGGACTTAGCCCGGTTATCA-T-CCGAATATTCATGCACATATCCATAAATC
1 CACAAATGCCTTCGGGACTTAGCCCGGATAT-AGTAAC-AATATTCATGCACATATCCATAAATC
29918405 ATGACACATCTATATTTCATTTTCATAATTAGAATTTAAACACAAGTCACTTATCAAGCATTACC
64 ATGACACATCTATATTTCATTTTCATAATTAGAATTTAAACACAAGTCACTTATCAAGCATTACC
29918470 ATT
129 ATT
29918473 TTTGGCTCAA
Statistics
Matches: 127, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
145 1 0.01
146 125 0.98
147 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (146 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACAATATTCATGCACATATCCATAAATCAT
GACACATCTATATTTCATTTTCATAATTAGAATTTAAACACAAGTCACTTATCAAGCATTACCAT
TAGAATTAGTCACTAG
Found at i:29926112 original size:19 final size:17
Alignment explanation
Indices: 29926088--29926130 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
29926078 TGGGCCATTT
*
29926088 TGGGCCGAACAAGGCCGTG
1 TGGGCCCAA-AAGGCC-TG
*
29926107 TGGGCCCAATAGGCCTG
1 TGGGCCCAAAAGGCCTG
29926124 TGGGCCC
1 TGGGCCC
29926131 CACACGGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 8 0.36
ACGTcount: A:0.16, C:0.30, G:0.40, T:0.14
Consensus pattern (17 bp):
TGGGCCCAAAAGGCCTG
Found at i:29929770 original size:68 final size:68
Alignment explanation
Indices: 29929661--29929798 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
29929651 TTGTGTACTT
29929661 ATGCAAGAAGGCAAGGTGATAGCTTATGCCTCGAGCAAGTTGAAGCCACATGAGAAAAATTATCA
1 ATGCAAGAAGGCAAGGTGATAGCTTATGCCTCGAGCAAGTTGAAGCCACATGAGAAAAATTATCA
29929726 AAC
66 AAC
* *
29929729 ATGCAAGAAGGCAAGGTGATAGCTTATGCCTCGAGCCAGTTGAAGCTACATGAGAAAAATTATCA
1 ATGCAAGAAGGCAAGGTGATAGCTTATGCCTCGAGCAAGTTGAAGCCACATGAGAAAAATTATCA
*
29929794 GAC
66 AAC
29929797 AT
1 AT
29929799 AGGATTTGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (68 bp):
ATGCAAGAAGGCAAGGTGATAGCTTATGCCTCGAGCAAGTTGAAGCCACATGAGAAAAATTATCA
AAC
Found at i:29935057 original size:6 final size:6
Alignment explanation
Indices: 29935046--29935075 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
29935036 TTGCTCCTTA
*
29935046 AGCGGG AGCGGG AGCGGG AGCGAG AGCGGG
1 AGCGGG AGCGGG AGCGGG AGCGGG AGCGGG
29935076 CGCATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.63, T:0.00
Consensus pattern (6 bp):
AGCGGG
Found at i:29941150 original size:28 final size:28
Alignment explanation
Indices: 29941118--29941187 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
29941108 ATAGTAAGTC
29941118 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
29941146 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
29941174 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29941188 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:29945171 original size:212 final size:212
Alignment explanation
Indices: 29944804--29945440 Score: 1265
Period size: 212 Copynumber: 3.0 Consensus size: 212
29944794 TTGTAAAATG
*
29944804 ACCATTTTGCCCCTATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
1 ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
29944869 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
66 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
29944934 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
131 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
29944999 CTATCACCTTTCACAAA
196 CTATCACCTTTCACAAA
29945016 ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
1 ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
29945081 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
66 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
29945146 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
131 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
29945211 CTATCACCTTTCACAAA
196 CTATCACCTTTCACAAA
29945228 ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
1 ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
29945293 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
66 TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
29945358 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
131 CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
29945423 CTATCACCTTTCACAAA
196 CTATCACCTTTCACAAA
29945440 A
1 A
29945441 GTTGTTTCTA
Statistics
Matches: 424, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 424 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (212 bp):
ACCATTTTGCCCATATACTTTGACAAAATGACCATTTTACCCCTAGGCTTGAAAATCGATTTTTA
TCGAATTTCTTCGCATCTTAAGCAAGCCAAACCCTTTTTAATCTTATAGAAACTCCAAAATCCTA
CTATTTCACACATTTTTCATCTATTTTACAACTTATGCAAAATGGTCTCTTTAGGTGTTTTCATG
CTATCACCTTTCACAAA
Found at i:29950466 original size:16 final size:16
Alignment explanation
Indices: 29950445--29950475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29950435 CTATGCATGC
*
29950445 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
29950461 AAAATACAAAAGACA
1 AAAATACAAAAGACA
29950476 TAATAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:29953764 original size:51 final size:49
Alignment explanation
Indices: 29953695--29953811 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 49
29953685 CGATGGCCCG
* * *
29953695 CACATAGTACCATC-CTTGTAGTCAAAGCTACCT-TTTTCACAAAGTGGCCTT
1 CACATAGTACCA-CACTTGT-GACAAAGCTAACTCTTCTCAC--AGTGGCCTT
*
29953746 CACATAGTACCACACTTGTGACCAAGCTAACTCTTCTCACAGTGGCCTT
1 CACATAGTACCACACTTGTGACAAAGCTAACTCTTCTCACAGTGGCCTT
29953795 CACATAGTACCACACTT
1 CACATAGTACCACACTT
29953812 ACTAGTGACA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
49 26 0.43
50 11 0.18
51 23 0.38
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (49 bp):
CACATAGTACCACACTTGTGACAAAGCTAACTCTTCTCACAGTGGCCTT
Found at i:29958058 original size:24 final size:24
Alignment explanation
Indices: 29958026--29958100 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
29958016 CTGGGCTAAA
29958026 CAGGAAACTCATAAGAGTTTTAAT
1 CAGGAAACTCATAAGAGTTTTAAT
*
29958050 CAGGAAACTCAT-AGAG-CTTAA-
1 CAGGAAACTCATAAGAGTTTTAAT
* ** *
29958071 CAGGTAACTCCGAAGAGTTTTTAT
1 CAGGAAACTCATAAGAGTTTTAAT
29958095 CAGGAA
1 CAGGAA
29958101 GCACCGAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 9 0.22
22 8 0.20
23 7 0.17
24 17 0.41
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (24 bp):
CAGGAAACTCATAAGAGTTTTAAT
Found at i:29963304 original size:20 final size:20
Alignment explanation
Indices: 29963281--29963318 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29963271 ATCAACTTAC
*
29963281 TTGAGCTTATTTCAGCTTGT
1 TTGAGCTCATTTCAGCTTGT
29963301 TTGAGCTCATTTCAGCTT
1 TTGAGCTCATTTCAGCTT
29963319 CATTTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGAGCTCATTTCAGCTTGT
Found at i:29963644 original size:16 final size:16
Alignment explanation
Indices: 29963623--29963670 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
29963613 ATTAATGCAA
29963623 GGTGCATGCATGGTTG
1 GGTGCATGCATGGTTG
29963639 GGTGCAATGCATAGG-TG
1 GGTGC-ATGCAT-GGTTG
* *
29963656 GATTCATGCATGGTT
1 GGTGCATGCATGGTT
29963671 AGCTACAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.07
16 12 0.44
17 11 0.41
18 2 0.07
ACGTcount: A:0.19, C:0.12, G:0.38, T:0.31
Consensus pattern (16 bp):
GGTGCATGCATGGTTG
Found at i:29970249 original size:4 final size:4
Alignment explanation
Indices: 29970242--29970266 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29970232 ATTTGTTCTC
29970242 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
29970267 GTATAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:29975376 original size:27 final size:27
Alignment explanation
Indices: 29975346--29975437 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
29975336 ATTACCAAAG
* *
29975346 TACCCTAGATTTATAGAATCACTGTTT
1 TACCCTAGATTTACAGAATTACTGTTT
* *
29975373 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTAGATTTACAGAATTACTGTTT
* *
29975400 TACCCTCA-ATTTACAAAATTACCGTTT
1 TACCCT-AGATTTACAGAATTACTGTTT
*
29975427 TACCCTTGATT
1 TACCCTAGATT
29975438 GTGAAATTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTAGATTTACAGAATTACTGTTT
Found at i:29975510 original size:54 final size:53
Alignment explanation
Indices: 29975450--29975568 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 53
29975440 GAAATTATTG
29975450 AAATACCCCTATAGGGT-AGAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAT-GGGTGA-AATTACCAAAATACCCCTAGTTTGTAAAATTACCA
* * ** * * * *
29975504 AAATACCACTGGTTTGTGAAATTACCGAAATACCCTTATTTTGTAAAATTACTA
1 AAATACCCCT-ATGGGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
29975558 AAATACCCCTA
1 AAATACCCCTA
29975569 ATTTACAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
AAATACCCCTATGGGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
Found at i:29975580 original size:54 final size:54
Alignment explanation
Indices: 29975469--29975650 Score: 188
Period size: 54 Copynumber: 3.3 Consensus size: 54
29975459 TATAGGGTAG
* * * * ***
29975469 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTATTTTGTAAAATTACTAAAATACCACTGGTTTACAA
* **
29975523 AATTACCGAAATACCCTTATTTTGTAAAATTACTAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTATTTTGTAAAATTACTAAAATACCACTGGTTTACAA
** *
29975577 AATTATAGAAATACCCTTGACTTTT-TAAAAATTA-TAAAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTT-A-TTTTGT-AAAATTACT-AAAATACCACTGGTTTACAA
*
29975633 AATTACTGAAATACCCTT
1 AATTACCGAAATACCCTT
29975651 GGTTTGTAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
54 60 0.57
55 3 0.03
56 43 0.41
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (54 bp):
AATTACCGAAATACCCTTATTTTGTAAAATTACTAAAATACCACTGGTTTACAA
Found at i:29975581 original size:27 final size:27
Alignment explanation
Indices: 29975469--29975568 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
29975459 TATAGGGTAG
29975469 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
29975496 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
29975523 AATTACCGAAATACCCTTATTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
29975550 AATTACTAAAATACCCCTA
1 AATTACCAAAATACCCCTA
29975569 ATTTACAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:29975652 original size:27 final size:27
Alignment explanation
Indices: 29975522--29975655 Score: 94
Period size: 27 Copynumber: 4.9 Consensus size: 27
29975512 CTGGTTTGTG
* ** **
29975522 AAATTACCGAAATACCCTTATTTTGTA
1 AAATTACTGAAATACCCTTGGTTTACA
* * **
29975549 AAATTACTAAAATACCCCTAATTTACA
1 AAATTACTGAAATACCCTTGGTTTACA
*
29975576 AAATTA-TAGAAATACCCTTGACTTTTTA-A
1 AAATTACT-GAAATACCCTTG---GTTTACA
* *
29975605 AAATTA-TAAAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGGTTTACA
29975632 AAATTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
29975656 GTAGATTTAC
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.06
27 57 0.66
28 1 0.01
29 19 0.22
30 4 0.05
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGGTTTACA
Found at i:29975740 original size:27 final size:27
Alignment explanation
Indices: 29975696--29975769 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
29975686 AAATGACTAA
*
29975696 AATACCCTTAATA-GGTAAAAAGACCGT
1 AATACCCCT-ATAGGGTAAAAAGACCGT
***
29975723 AA-AGCCCCTATAGGGTAAAGTTACCGT
1 AATA-CCCCTATAGGGTAAAAAGACCGT
*
29975750 AATACCCCTATATGGTAAAA
1 AATACCCCTATAGGGTAAAA
29975770 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.11
27 33 0.87
28 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAAAGACCGT
Found at i:29976129 original size:20 final size:22
Alignment explanation
Indices: 29976090--29976131 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
29976080 GTGCACGATG
*
29976090 GTAAGTTGGGCCTCAATGGGCT
1 GTAAGTTGGGCCTAAATGGGCT
29976112 GTAA-TTGGGCC-AAATGGGCT
1 GTAAGTTGGGCCTAAATGGGCT
29976132 TTTGGGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (22 bp):
GTAAGTTGGGCCTAAATGGGCT
Found at i:29976624 original size:25 final size:24
Alignment explanation
Indices: 29976586--29976668 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
29976576 AGGAAGTGCT
* *
29976586 AAAAGGGCTCTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TC
29976611 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
29976635 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
29976659 AAAAGAGGCT
1 AAAAG-GGCT
29976669 AGGCCTTCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 38 0.72
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:29976862 original size:42 final size:42
Alignment explanation
Indices: 29976803--29976894 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
29976793 TAGTCTCCCC
*
29976803 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
29976845 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
29976887 AAATGGGC
1 AAATGGGC
29976895 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:29976967 original size:31 final size:31
Alignment explanation
Indices: 29976918--29977031 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
29976908 CGTTTACAGT
29976918 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
29976948 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
29976979 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
29977010 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
29977032 TCAAGACTAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 16 0.20
31 63 0.80
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:29979463 original size:17 final size:17
Alignment explanation
Indices: 29979441--29979473 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29979431 TGTTTGTTCG
29979441 ATAATCCATATGATGTC
1 ATAATCCATATGATGTC
29979458 ATAATCCATATGATGT
1 ATAATCCATATGATGT
29979474 TATGTGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (17 bp):
ATAATCCATATGATGTC
Found at i:29987241 original size:25 final size:25
Alignment explanation
Indices: 29987213--29987338 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
29987203 CGAATGGCCA
29987213 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* ** *
29987238 ATGTGAT-AAGGCCAA-ATGGC-CA-
1 ATGTGATGAATGTGAACAT-GCATAT
29987260 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
29987285 ATATGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
29987307 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
29987332 ATGTGAT
1 ATGTGAT
29987339 AAGGCCGAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
22 14 0.19
23 18 0.25
24 19 0.26
25 21 0.29
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:29987267 original size:94 final size:94
Alignment explanation
Indices: 29987166--29987406 Score: 367
Period size: 94 Copynumber: 2.6 Consensus size: 94
29987156 TTAGGATTTT
** *
29987166 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
29987231 TGCATATATGTGATAAGGCCAAATGGCCA
66 TGCATATATGTGATAAGGCCAAATGGCCA
*
29987260 ATGTGATGAATGTGAACATGCATATAT-ATGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 ATGTGATGAATGTGAACATGCATATATGA-GATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
*
29987324 ATGCATATATGTGATAAGGCCGAATGGCCA
65 ATGCATATATGTGATAAGGCCAAATGGCCA
* * * * * *
29987354 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGA
29987407 AATGTGTATG
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
93 1 0.01
94 133 0.99
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCAAATGGCCA
Found at i:29987439 original size:48 final size:48
Alignment explanation
Indices: 29987376--29988328 Score: 1818
Period size: 48 Copynumber: 19.8 Consensus size: 48
29987366 TGAACATGCA
29987376 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987424 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987472 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987520 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987568 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987616 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987664 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987712 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987760 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987808 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987856 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987904 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29987952 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29988000 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29988048 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29988096 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
29988144 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
*
29988192 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
* * *
29988240 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATGTGTATGAGATATG
* *
29988290 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTA
29988329 GGCGATGTGC
Statistics
Matches: 895, Mismatches: 6, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 1 0.00
48 848 0.95
49 4 0.00
50 41 0.05
51 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
Found at i:29988582 original size:37 final size:37
Alignment explanation
Indices: 29988474--29988582 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
29988464 GGAAATATAT
*
29988474 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
29988511 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29988548 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29988583 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:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29991731 original size:48 final size:48
Alignment explanation
Indices: 29991660--29991836 Score: 153
Period size: 48 Copynumber: 3.7 Consensus size: 48
29991650 AGGGTATACA
** *
29991660 TTGATTTGGCTTTGGGCCATGATATTGGCACTTTGGGTGCAAGTTACT
1 TTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCAAGTTACT
* * ** *
29991708 TTGATTTGGCTTTAGGCCATGATATCGGCACTTCGGGAACGAGCTTCAC-
1 TTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCAAG-TT-ACT
* * * * * * *
29991757 -TGATTTGGATACGGGCCCTGATATTAGCACTTCGAGTGCAAGATA-T
1 TTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCAAGTTACT
* *
29991803 ATTGAGTTGGCTTCAGACCATGATATTGGCACTT
1 -TTGATTTGGCTTCAGGCCATGATATTGGCACTT
29991837 AGTGTGTGAG
Statistics
Matches: 99, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 93 0.94
49 2 0.02
50 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (48 bp):
TTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCAAGTTACT
Found at i:29997726 original size:120 final size:120
Alignment explanation
Indices: 29997507--29997747 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
29997497 TGTTTAGTGG
*
29997507 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCTTTGCTGTTAGAGCTATAGGTGTACTA
1 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
*
29997572 ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAATAGCTGAGGTAGGT
66 ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
*
29997627 GTGTTCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
1 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
* *
29997692 ACATGCGTCTTTATTTGTTTCTCCATACTGTTTTAAGATAAAAGCTGAGGTAGGT
66 ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
29997747 G
1 G
29997748 GATTCTTTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (120 bp):
GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
Found at i:30000715 original size:22 final size:22
Alignment explanation
Indices: 30000680--30000722 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30000670 CATCTTTTCC
** *
30000680 TTTTATTTTTCAAGATATTTAA
1 TTTTATTTCCCAAGACATTTAA
30000702 TTTTATTTCCCAAGACATTTA
1 TTTTATTTCCCAAGACATTTA
30000723 GACAAAAGGG
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:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTATTTCCCAAGACATTTAA
Found at i:30004062 original size:23 final size:23
Alignment explanation
Indices: 30004036--30004083 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30004026 TATTTGTATG
*
30004036 ATTTATTAAT-GCATGATGATATC
1 ATTTATTAATGGCATGA-AATATC
*
30004059 ATTTATTATTGGCATGAAATATC
1 ATTTATTAATGGCATGAAATATC
30004082 AT
1 AT
30004084 AGAAATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (23 bp):
ATTTATTAATGGCATGAAATATC
Found at i:30007270 original size:62 final size:61
Alignment explanation
Indices: 30007172--30007310 Score: 154
Period size: 62 Copynumber: 2.3 Consensus size: 61
30007162 GATCAACCAA
* * * * *
30007172 CTCGCACACTCAATGCTAAATCTTTGTAACGTATCGCACAGTTAGTGCCGTTACCTTAACAT
1 CTCGCACACTTAGTGCTAAATCTTTGTAACGTATCGCACACTTAGTGCCGTCACCTTAAC-C
* * * * * *
30007234 GTCGCACACTTAGTGCTAAAATC-TTGTGATGTATCGCACACTTAGTTCCGTCACTTTATCC
1 CTCGCACACTTAGTGCT-AAATCTTTGTAACGTATCGCACACTTAGTGCCGTCACCTTAACC
30007295 CTCGCACACTTAGTGC
1 CTCGCACACTTAGTGC
30007311 CATATTTCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 15 0.23
62 44 0.69
63 5 0.08
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (61 bp):
CTCGCACACTTAGTGCTAAATCTTTGTAACGTATCGCACACTTAGTGCCGTCACCTTAACC
Found at i:30010427 original size:32 final size:32
Alignment explanation
Indices: 30010386--30010452 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
30010376 TAGTTTAACA
30010386 TAAACATTAAACATCACTTGATCATCTATACT
1 TAAACATTAAACATCACTTGATCATCTATACT
30010418 TAAACATTAAACATCACTTGATCATCTATACT
1 TAAACATTAAACATCACTTGATCATCTATACT
30010450 TAA
1 TAA
30010453 CATATATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAACATTAAACATCACTTGATCATCTATACT
Found at i:30016399 original size:48 final size:46
Alignment explanation
Indices: 30016326--30016551 Score: 233
Period size: 45 Copynumber: 4.9 Consensus size: 46
30016316 AGGGTGAATT
* * * * *
30016326 GCCGATGCCATGTCCCAAACGTGGTCTTGCACTAGCTCACATGTCGAG
1 GCCGATGCCATGT-CC-AACATGGTCTTACACTGGCTCACATATCAAG
* * *
30016374 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTC-AG
1 GCCGATGCCATGT-CC-AACATGGTCTTACACTGGCTCACATATCAAG
* * *
30016421 TGCCAAAGCCATGTCCAACATGGTCTTACACTGGCTCACA-ATCAAT
1 -GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
30016467 GCCAATTCCATGTCCAACATGGTTTTACACTGGCTCACA-ATCAAC
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
* *
30016512 GCCGATGCCATGTCCAACATGGTCATACATTGGCTCACAT
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAT
30016552 GTCACCCAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
45 77 0.49
46 23 0.15
47 4 0.03
48 52 0.33
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:30029802 original size:20 final size:21
Alignment explanation
Indices: 30029777--30029815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30029767 CCCTTGAAAC
*
30029777 AGGGT-ACACGCCCGTGTGGA
1 AGGGTAACACGCCCATGTGGA
30029797 AGGGTAACACGCCCATGTG
1 AGGGTAACACGCCCATGTG
30029816 TTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.26, G:0.36, T:0.15
Consensus pattern (21 bp):
AGGGTAACACGCCCATGTGGA
Found at i:30031033 original size:47 final size:47
Alignment explanation
Indices: 30030964--30031283 Score: 254
Period size: 47 Copynumber: 6.8 Consensus size: 47
30030954 ATGGTATAAT
*
30030964 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCACGCTAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGCTAA
* * *
30031011 GTCGACGCCATGTCGCAGACATGGTCTTACACTGGCTCTCACGTTAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGCTAA
* *
30031058 GTCGATGCCATGTCCCAGACATGGTCTTA-ACTGACTCTCACG-TATCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGCTA--A
* * * * *
30031105 GTGCCGATGCCATGTCCCAGGCATGGTCTTATACT-GATACATTATG-T-A
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-C-TCACGCTAA
* * *
30031153 GCCGATG-CATGTCCCAGACAT-GTCTTACACAGGCT-T-ACATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAC-GCT-AA
* *
30031198 GGCCGATG-CATATCCCAGACAT-GTCTTACACTAGG-TCT--CGTCTTAA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCTCACG-C-TAA
** *
30031244 TGAGGATGCCATGTCCCAGACATGGTCCTACACTGGCTCT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
30031284 TGTAATGTGG
Statistics
Matches: 224, Mismatches: 29, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 1 0.00
44 8 0.04
45 18 0.08
46 56 0.25
47 91 0.41
48 13 0.06
49 27 0.12
50 4 0.02
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGCTAA
Found at i:30031192 original size:46 final size:46
Alignment explanation
Indices: 30031152--30031322 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
30031142 TACATTATGT
30031152 AGCCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTCAA-G
1 AGCCGATGCATGTCCCAGACATGTCTTACACAGGCTT-CATCT-AATG
* *
30031199 -GCCGATGCATATCCCAGACATGTCTTACACTAGG-TCTCGTCTTAATG
1 AGCCGATGCATGTCCCAGACATGTCTTACAC-AGGCT-TCATC-TAATG
* * * *
30031246 AG--GATGCCATGTCCCAGACATGGTCCTACACTGGC-TCTTGTAATG
1 AGCCGATG-CATGTCCCAGACAT-GTCTTACACAGGCTTCATCTAATG
* *
30031291 TGGCCGATGCATGTCCTAGACATGTCTTACAC
1 -AGCCGATGCATGTCCCAGACATGTCTTACAC
30031323 TAGCACACAG
Statistics
Matches: 103, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
45 5 0.05
46 51 0.50
47 34 0.33
48 13 0.13
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAGACATGTCTTACACAGGCTTCATCTAATG
Found at i:30032174 original size:29 final size:29
Alignment explanation
Indices: 30032141--30032199 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
30032131 TTATTTCTTT
30032141 TTAGTCAATTTAGCCAACAAATTTTCACC
1 TTAGTCAATTTAGCCAACAAATTTTCACC
* *
30032170 TTAGTCAATTTAGCCACCAAATTTTTACC
1 TTAGTCAATTTAGCCAACAAATTTTCACC
30032199 T
1 T
30032200 AACATTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (29 bp):
TTAGTCAATTTAGCCAACAAATTTTCACC
Found at i:30034391 original size:26 final size:26
Alignment explanation
Indices: 30034355--30034406 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30034345 ACTTTAGGAC
30034355 ATAGTGTCAGATTTCTAAATTACTCT
1 ATAGTGTCAGATTTCTAAATTACTCT
30034381 ATAGTGTCAGATTTCTAAATTACTCT
1 ATAGTGTCAGATTTCTAAATTACTCT
30034407 TTCAGGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (26 bp):
ATAGTGTCAGATTTCTAAATTACTCT
Found at i:30038397 original size:53 final size:53
Alignment explanation
Indices: 30038203--30038409 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
30038193 ATTAGGGTTT
* * *
30038203 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * *
30038257 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * * *
30038312 AAAGATCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTCATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
30038365 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
30038410 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 44 0.37
54 35 0.29
55 41 0.34
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:30045789 original size:53 final size:53
Alignment explanation
Indices: 30045609--30045812 Score: 176
Period size: 55 Copynumber: 3.8 Consensus size: 53
30045599 GCGTTTAAGA
* * * * * *
30045609 ATACCAAGTAAAGACCATGCCAAGGCATGACATTGGTAAGTTTTATAAGGCAAGA
1 ATACCAAGT-AAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGAAAGG
* * * * * * * *
30045664 AAATCATGTAAGACCATGCCAAGACATGGCATTGATAAACTACTATAA-GACAAAG
1 ATACCAAGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGA-AAGG
* * * *
30045719 ATCCCATGTAAGACCATGCCAAGTCATGGCAATGGTGAGTTCATAAGGAAAGG
1 ATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAGG
* *
30045772 ATACCAAGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
30045813 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 28, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
53 42 0.36
54 31 0.26
55 44 0.38
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (53 bp):
ATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAGG
Found at i:30047180 original size:48 final size:48
Alignment explanation
Indices: 30047101--30047196 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
30047091 TAAGGGGTGC
* * *
30047101 CACATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 CACATATTGATACCAATGCCATATCCCAGACATGATCTTACATGGGAT
*
30047149 CACATATTGATACCAATGCCATATCCTAGACATGATCTTACATGGGAT
1 CACATATTGATACCAATGCCATATCCCAGACATGATCTTACATGGGAT
30047197 AACAATGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
CACATATTGATACCAATGCCATATCCCAGACATGATCTTACATGGGAT
Found at i:30047225 original size:37 final size:37
Alignment explanation
Indices: 30047157--30047299 Score: 99
Period size: 37 Copynumber: 3.9 Consensus size: 37
30047147 ATCACATATT
* * * *
30047157 GATACCAATGCCATATCCTAGAC-ATGATCTTACATGG
1 GATAACAATGCCATAGCCCA-ACTATGGTCTTACATGG
*
30047194 GATAACAATGCCATAGCCCAACTATGGTCTTACATGT
1 GATAACAATGCCATAGCCCAACTATGGTCTTACATGG
* * ** * * ** *
30047231 CATTATGATGTCATAGCCTAGTTATGGTCTTACACGG
1 GATAACAATGCCATAGCCCAACTATGGTCTTACATGG
* * * * *
30047268 TATTACGATGCGATAGCCCAGCTATGGTCTTA
1 GATAACAATGCCATAGCCCAACTATGGTCTTA
30047300 TACGTACTCA
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
36 2 0.02
37 82 0.98
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (37 bp):
GATAACAATGCCATAGCCCAACTATGGTCTTACATGG
Found at i:30054856 original size:27 final size:27
Alignment explanation
Indices: 30054826--30054878 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
30054816 CTGCCAGAAA
30054826 CAGTAAATGTGGCAAAGCCACCAGTAT
1 CAGTAAATGTGGCAAAGCCACCAGTAT
* *
30054853 CAGTAATTGTGGCATAGCCACCAGTA
1 CAGTAAATGTGGCAAAGCCACCAGTA
30054879 CAGAACTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTAAATGTGGCAAAGCCACCAGTAT
Found at i:30055048 original size:27 final size:27
Alignment explanation
Indices: 30055018--30055141 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
30055008 GGGCATAATT
*
30055018 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* *
30055045 GTCACTTTACCCTACAGGGGTTTTATG
1 GTCATTTTACCCTACAGGGGTATTATG
** *
30055072 GTCATTTTACCCTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * * *
30055099 GTCTTTTTA-CCTATTAGGGGTATTTTA
1 GTCATTTTACCCTA-CAGGGGTATTATG
*
30055126 GTCATTTCACCCTACA
1 GTCATTTTACCCTACA
30055142 AGGGCGTTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 4 0.05
27 69 0.90
28 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATG
Found at i:30055256 original size:27 final size:27
Alignment explanation
Indices: 30055226--30055473 Score: 168
Period size: 27 Copynumber: 9.2 Consensus size: 27
30055216 GAAAGTCAAT
* **
30055226 GGTATTTTTGTAATTTTGTAAATCAGG
1 GGTATTTTGGTAATTTTCCAAATCAGG
30055253 GGTATTTCT-GTAATTTTCCAAATCTA-G
1 GGTATTT-TGGTAATTTTCCAAATC-AGG
* *
30055280 GGTATTTCGGTAATTTTCCAAATAAGG
1 GGTATTTTGGTAATTTTCCAAATCAGG
* *
30055307 GGTATTTTGGTAACTTTACAAATC-GAG
1 GGTATTTTGGTAATTTTCCAAATCAG-G
** * **
30055334 GGTATTTTGGTAATTTTATAAGTTGGG
1 GGTATTTTGGTAATTTTCCAAATCAGG
* * * **
30055361 GGTATTTCGATAATTTTACAGGTC-GAG
1 GGTATTTTGGTAATTTTCCAAATCAG-G
* * *
30055388 GGTGTTTTGATAA-TTTCACAAATTAGG
1 GGTATTTTGGTAATTTTC-CAAATCAGG
* *
30055415 GGTATTTTGGTAATTTTACAAAT-TGAG
1 GGTATTTTGGTAATTTTCCAAATCAG-G
* * *
30055442 GGTATTTCGGTAATTTTACAAACCA-G
1 GGTATTTTGGTAATTTTCCAAATCAGG
30055468 GGTATT
1 GGTATT
30055474 CAGTAATTTT
Statistics
Matches: 179, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
26 14 0.08
27 158 0.88
28 7 0.04
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTCCAAATCAGG
Found at i:30055308 original size:54 final size:54
Alignment explanation
Indices: 30055169--30055512 Score: 252
Period size: 54 Copynumber: 6.4 Consensus size: 54
30055159 CTACAAACTA
** * * * * *
30055169 AGGGTATTTTAGTAATTTTACAAA-CCGGTGGTATTTCTATAAAATTTGA-AAGTCA
1 AGGGTATTTCGGTAATTTTACAAATCAGG-GGTATTTCTGT--AATTTTACAAATCG
* ** ** * *
30055224 ATGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTCTGTAATTTTCCAAATCT
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTTTACAAATCG
* * *
30055278 AGGGTATTTCGGTAATTTTCCAAATAAGGGGTATTT-TGGTAACTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCT-GTAATTTTACAAATCG
* * * ** **
30055332 AGGGTATTTTGGTAATTTTATAAGTTGGGGGTATTTC-GATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTG-TAATTTTACAAATCG
* * * * * *
30055386 AGGGTGTTTTGATAATTTCACAAATTAGGGGTATTT-TGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCT-GTAATTTTACAAATCG
* * ** * *
30055440 AGGGTATTTCGGTAATTTTACAAACCA-GGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTTTACAAATCG
*
30055492 AGGGTATTTCAGTAATTTTAC
1 AGGGTATTTCGGTAATTTTAC
30055513 CCTACAGGAG
Statistics
Matches: 231, Mismatches: 50, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
52 33 0.14
53 12 0.05
54 152 0.66
55 31 0.13
56 3 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTTTACAAATCG
Found at i:30055347 original size:81 final size:80
Alignment explanation
Indices: 30055226--30055463 Score: 250
Period size: 81 Copynumber: 2.9 Consensus size: 80
30055216 GAAAGTCAAT
* ** *
30055226 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTCT-GTAATTTTCCAAATCT-AGGGTATTTCG
1 GGTATTTTGGTAA-TTTACAAATCAGGGGTATTT-TGGTAATTTTACAAAT-TGAGGGTATTTCG
*
30055289 GTAATTTTCCAAATA-AGG
63 GTAATTTTACAAATAGA-G
* * * *
30055307 GGTATTTTGGTAACTTTACAAATC-GAGGGTATTTTGGTAATTTTATAAGTTGGGGGTATTTCGA
1 GGTATTTTGGTAA-TTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
** *
30055371 TAATTTTACAGGTCGAG
64 TAATTTTACAAATAGAG
* * *
30055388 GGTGTTTTGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTT-ACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
30055453 AATTTTACAAA
65 AATTTTACAAA
30055464 CCAGGGTATT
Statistics
Matches: 129, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
80 6 0.05
81 121 0.94
82 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (80 bp):
GGTATTTTGGTAATTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTA
ATTTTACAAATAGAG
Found at i:30055489 original size:25 final size:27
Alignment explanation
Indices: 30055160--30055512 Score: 128
Period size: 27 Copynumber: 13.1 Consensus size: 27
30055150 TTGGTAAATC
* *
30055160 TACAAACTAAGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
30055187 TACAAACC-GGTGGTATTTCTA-TAAAATTT
1 TACAAACCAAG-GGTATTTC-AGT--AATTT
* ** * **
30055216 GA-AAGTCAATGGTATTTTTGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * * *
30055242 TGTAAATCAGGGGTATTTCTGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * * *
30055269 TCCAAATCTAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * ** *
30055296 TCCAAA-TAAGGGGTATTTTGGTAACTT
1 TACAAACCAA-GGGTATTTCAGTAATTT
* * **
30055323 TACAAATCGAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *****
30055350 TATAAGTTGGGGGTATTTC-GATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
*** * * *
30055377 TACAGGTCGAGGGTGTTT-TGATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
* ** * **
30055404 CACAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
30055431 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
30055458 TACAAACC-AGGGTA-TTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
**
30055483 TGTAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
30055510 TAC
1 TAC
30055513 CCTACAGGAG
Statistics
Matches: 254, Mismatches: 58, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
25 16 0.06
26 20 0.08
27 198 0.78
28 14 0.06
29 6 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:30061862 original size:29 final size:29
Alignment explanation
Indices: 30061823--30061901 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30061813 CTTAATAATC
*
30061823 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30061853 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30061882 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30061902 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30063919 original size:42 final size:43
Alignment explanation
Indices: 30063862--30063980 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
30063852 ATAATCAAAT
* * *
30063862 ATCGATGCCACTGTCCCAGATA-GAGTCCTATACA-AAATTAGA
1 ATCGATGCCAATGTCCCAGATATG-GTCCTACACACAAAATAGA
* *
30063904 CA-CGATGCCAATGTCCTAGATATGGTCTTACACACAAAATAGA
1 -ATCGATGCCAATGTCCCAGATATGGTCCTACACACAAAATAGA
* * *
30063947 ATTCGATGCCAACGTCCCAGATGTGGTCTTACAC
1 A-TCGATGCCAATGTCCCAGATATGGTCCTACAC
30063981 GATAACACAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 27 0.42
43 9 0.14
44 28 0.44
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGATATGGTCCTACACACAAAATAGA
Found at i:30072594 original size:26 final size:24
Alignment explanation
Indices: 30072564--30072613 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
30072554 AAATAAAAAA
* *
30072564 ATTTAAAGATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
30072590 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
30072614 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:30072633 original size:21 final size:21
Alignment explanation
Indices: 30072584--30072642 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
30072574 ATAATAAATC
*
30072584 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
30072604 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
30072626 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
30072643 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:30073617 original size:46 final size:46
Alignment explanation
Indices: 30073567--30073736 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
30073557 TTGAGCATCT
* *
30073567 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * *
30073613 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * **
30073660 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
*
30073706 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30073737 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:30073720 original size:93 final size:93
Alignment explanation
Indices: 30073561--30073731 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
30073551 GGATGGTTGA
* * ***
30073561 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
30073626 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30073654 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
30073719 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30073732 ACTTAGGGGC
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):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30078395 original size:28 final size:28
Alignment explanation
Indices: 30078363--30078461 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
30078353 ATAGTAAGTC
*
30078363 CGCACACTTAGTGTTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30078391 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
30078419 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCTA--CATAATCAAACT
30078448 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30078462 CAATCTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 41 0.67
29 19 0.31
30 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:30081329 original size:26 final size:27
Alignment explanation
Indices: 30081300--30081423 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
30081290 TTAGTTTACC
*
30081300 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACTCAAATACCCCCAGTTTGTA
*
30081326 AAATTAC-CAAAGTACCCCCAGTTTATA
1 AAATTACTCAAA-TACCCCCAGTTTGTA
* * *
30081353 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACTCAAATACCCCCAG-TTTGTA
* *
30081380 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACTC-AAATACCCCCAGTTTGTA
*
30081407 AAATTACTAAAATACCC
1 AAATTACTCAAATACCC
30081424 TCGACATGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 55 0.67
28 6 0.07
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACTCAAATACCCCCAGTTTGTA
Found at i:30081344 original size:27 final size:25
Alignment explanation
Indices: 30081300--30081450 Score: 95
Period size: 27 Copynumber: 5.6 Consensus size: 25
30081290 TTAGTTTACC
*
30081300 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
*
30081326 AAATTACCAAAGTACCCCCAGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTGTA
* * *
30081353 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
* * *
30081380 AAATTATCGAAATACCCTCAGTTTGCA
1 AAATTA-CCAAATACCCCCAG-TTGTA
* * **
30081407 AAATTACTAAAATACCCTCGACATGTA
1 AAATTAC-CAAATACCC-CCAGTTGTA
*
30081434 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
30081451 TCGAATTATA
Statistics
Matches: 96, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
25 3 0.03
26 23 0.24
27 60 0.62
28 10 0.10
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:30081402 original size:54 final size:54
Alignment explanation
Indices: 30081292--30081452 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
30081282 AGAATACTTT
* ** * * * *
30081292 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * * *
30081345 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTATC-AAAGTACCCTC
* * *
30081399 AGTTTGCAAAATTACTAAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
30081453 GAATTATAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
53 23 0.26
54 63 0.71
55 3 0.03
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACCAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:30081462 original size:27 final size:26
Alignment explanation
Indices: 30081324--30081468 Score: 82
Period size: 27 Copynumber: 5.3 Consensus size: 26
30081314 CCCCCAGTTG
* *
30081324 TAAAATTACCAAAGTACCC-CCAGTTTA
1 TAAAATTACCAAA-TACCCTCGA-ATTA
* * *
30081351 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGAATTA
* *
30081378 TAAAATTATCGAAATACCCTC-AGTT-
1 TAAAATTA-CCAAATACCCTCGAATTA
* *
30081403 TGCAAAATTACTAAAATACCCTCGACA-TG
1 T--AAAATTAC-CAAATACCCTCGA-ATTA
*
30081432 TAAAATTATCAAAGTACCCTCGAATTA
1 TAAAATTACCAAA-TACCCTCGAATTA
30081459 TAAAAATTAC
1 T-AAAATTAC
30081469 TGTTTTACCC
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
25 1 0.01
26 8 0.09
27 68 0.72
28 16 0.17
29 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGAATTA
Found at i:30081500 original size:27 final size:27
Alignment explanation
Indices: 30081446--30081694 Score: 279
Period size: 27 Copynumber: 9.2 Consensus size: 27
30081436 ATTATCAAAG
*
30081446 TACCCTCGAATTATA-AAAATTACTGTTT
1 TACCCTCG-ATT-TACAGAATTACTGTTT
30081474 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
30081501 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
30081528 TACCATCGATTTACAAAATTACT-ATT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30081554 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30081581 TACCCTTGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
30081608 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
30081635 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
30081662 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
30081689 TACCCT
1 TACCCT
30081695 TAGGGTGTTA
Statistics
Matches: 191, Mismatches: 26, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
26 25 0.13
27 157 0.82
28 9 0.05
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:30081571 original size:80 final size:79
Alignment explanation
Indices: 30081461--30081692 Score: 320
Period size: 80 Copynumber: 2.9 Consensus size: 79
30081451 TCGAATTATA
* *
30081461 AAAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTGACAGAATTACTAT
1 AAAATTACT-ATTTACCCTCAATTTACAGAATTA-CGTTTTACCCTCGATTGACAGAATTACTAT
30081526 TTTACCATCGATTTAC
64 TTTACCATCGATTTAC
* *
30081542 AAAATTACTATTTACCCTCAATTTACAGAATTACTGTTTTACCCTTGATTGACAGAATTACTGTT
1 AAAATTACTATTTACCCTCAATTTACAGAATTAC-GTTTTACCCTCGATTGACAGAATTACTATT
* *
30081607 TTACCCTCGATTTAT
65 TTACCATCGATTTAC
* * * * *
30081622 AAAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAT
1 AAAATTACTA-TTTACCCTCAATTTACAGAATTA-CGTTTTACCCTCGATTGACAGAATTACTAT
30081687 TTTACC
64 TTTACC
30081693 CTTAGGGTGT
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 73 0.54
81 60 0.44
82 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (79 bp):
AAAATTACTATTTACCCTCAATTTACAGAATTACGTTTTACCCTCGATTGACAGAATTACTATTT
TACCATCGATTTAC
Found at i:30082072 original size:27 final size:26
Alignment explanation
Indices: 30082020--30082079 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
30082010 CCACATATAT
*
30082020 ATATCTGTTCTGGTGGCTTAGCCACA
1 ATATCTGTTCTGGTGACTTAGCCACA
* *
30082046 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACTTAGCCACA
30082073 ATATCTG
1 ATATCTG
30082080 GTAGCCTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTAGCCACA
Found at i:30082236 original size:31 final size:31
Alignment explanation
Indices: 30082210--30082276 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
30082200 TCTGATATTC
* *
30082210 ATTCTGTTACTTGATATTGATTCTGATTCTA
1 ATTCTGTCACCTGATATTGATTCTGATTCTA
* * *
30082241 ATTCTGTCACCTGATTTTGATTCTAATTCTG
1 ATTCTGTCACCTGATATTGATTCTGATTCTA
30082272 ATTCT
1 ATTCT
30082277 AGTTCTGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (31 bp):
ATTCTGTCACCTGATATTGATTCTGATTCTA
Found at i:30082244 original size:12 final size:12
Alignment explanation
Indices: 30082229--30082285 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
30082219 CTTGATATTG
30082229 ATTCTGATTCTA
1 ATTCTGATTCTA
* *
30082241 ATTCTG-TCACCTG
1 ATTCTGAT--TCTA
*
30082254 ATTTTGATTCTA
1 ATTCTGATTCTA
30082266 ATTCTGATTCTA
1 ATTCTGATTCTA
*
30082278 GTTCTGAT
1 ATTCTGAT
30082286 AATGTTTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 1 0.03
12 26 0.74
13 7 0.20
14 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:30084263 original size:26 final size:26
Alignment explanation
Indices: 30084234--30084358 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 26
30084224 TTTAGTTTAC
* *
30084234 AAAATTACTGAAATACCCCCAGTTGT
1 AAAATTACCGAAATACCCCAAGTTGT
* *
30084260 AAAATTACC-AAAGTACCTCCAATTTAT
1 AAAATTACCGAAA-TACC-CCAAGTTGT
* * * * *
30084287 AAAATTACCCAAATATCCTCGATTTTT
1 AAAATTACCGAAATA-CCCCAAGTTGT
* *
30084314 AAAATTACCGAAATACCCTAAGTTTGC
1 AAAATTACCGAAATACCCCAAG-TTGT
*
30084341 AAAATTACTGAAATACCC
1 AAAATTACCGAAATACCC
30084359 TCGACATGTA
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
25 3 0.04
26 15 0.19
27 56 0.71
28 5 0.06
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (26 bp):
AAAATTACCGAAATACCCCAAGTTGT
Found at i:30084371 original size:27 final size:25
Alignment explanation
Indices: 30084341--30084396 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
30084331 CTAAGTTTGC
*
30084341 AAAATTACTGAAA-TACCCTCGACATGT
1 AAAATTA-TCAAAGTACCCTCGA-AT-T
30084368 AAAATTATCAAAGTACCCTCGAATT
1 AAAATTATCAAAGTACCCTCGAATT
30084393 AAAA
1 AAAA
30084397 AAATTATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 16 0.59
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (25 bp):
AAAATTATCAAAGTACCCTCGAATT
Found at i:30084385 original size:54 final size:54
Alignment explanation
Indices: 30084227--30084386 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
30084217 AGAATACTTT
* * *
30084227 AGTTTACAAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCTCCA
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACC-CTA
* ** * * *
30084281 A-TTTATAAAATTACCCAAATATCCTCGATTTTTAAAATTACCGAAA-TACCCTA
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTA
* * *
30084334 AGTTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCT
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCT
30084387 CGAATTAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
53 25 0.29
54 57 0.67
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTA
Found at i:30085051 original size:27 final size:27
Alignment explanation
Indices: 30084381--30085061 Score: 833
Period size: 27 Copynumber: 25.2 Consensus size: 27
30084371 ATTATCAAAG
* * * *
30084381 TACCCTCGAATTAAAAAAATTATTGTTT
1 TACCCTCG-ATTTACAAAATTACTATTT
** * **
30084409 TACCCTTAATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084436 TACCCTTGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084463 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-TTT
*
30084490 TACCCTAGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084517 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084544 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084571 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084598 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084625 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084652 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084679 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084706 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084733 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084760 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084787 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084814 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084841 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084868 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084895 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
30084922 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
30084949 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
30084976 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
30085003 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
30085030 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
30085057 TACCC
1 TACCC
30085062 CTAGGGTGTT
Statistics
Matches: 558, Mismatches: 93, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
27 551 0.99
28 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:30085061 original size:81 final size:81
Alignment explanation
Indices: 30084398--30085050 Score: 1135
Period size: 81 Copynumber: 8.1 Consensus size: 81
30084388 GAATTAAAAA
** * ** * * * ***
30084398 AATTATTGTTTTACCCTTAATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTATTGTTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
* *
30084463 TACCCTCGATTTACAG
66 TACCCTCGATTGATAG
** *
30084479 AATTACAGTTTTACCCTAGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084544 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
30084560 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084625 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
30084641 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084706 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
30084722 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084787 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
30084803 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084868 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
30084884 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
30084949 TACCCTCGATTGATAG
66 TACCCTCGATTGATAG
*
30084965 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
1 AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
* *
30085030 TACCCTCGATTTATAA
66 TACCCTCGATTGATAG
30085046 AATTA
1 AATTA
30085051 CCATTTTACC
Statistics
Matches: 551, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 551 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (81 bp):
AATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
TACCCTCGATTGATAG
Found at i:30085342 original size:27 final size:26
Alignment explanation
Indices: 30085298--30085349 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30085288 CTCGCTGCAA
*
30085298 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
30085325 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30085350 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30085597 original size:6 final size:6
Alignment explanation
Indices: 30085566--30085638 Score: 62
Period size: 6 Copynumber: 11.8 Consensus size: 6
30085556 TTGCATTCAC
* *
30085566 ATTCTG ATAT-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG AT-TCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
30085616 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
30085639 AGTTCTAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
5 4 0.07
6 42 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:30085597 original size:25 final size:25
Alignment explanation
Indices: 30085576--30085633 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
30085566 ATTCTGATAT
*
30085576 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTCACCTGATACTGATTC
*
30085601 TGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGTCACCTGATACTGATTC
30085626 TGATTCTG
1 TGATTCTG
30085634 ATTCTAGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (25 bp):
TGATTCTGTCACCTGATACTGATTC
Found at i:30087714 original size:25 final size:26
Alignment explanation
Indices: 30087685--30087829 Score: 206
Period size: 26 Copynumber: 5.7 Consensus size: 26
30087675 TTTTAATAAT
*
30087685 TGGGGCA-AAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
* *
30087710 TGGGGCA-AAGTCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
* *
30087735 TGGGGCATAAGCCCTTTTTGATGAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
30087761 TGGGGCA-AAGCCCTTTTCGATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
* *
30087786 TGGGGCATAAACCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
30087812 TGGGGCATAAGCCCTTTT
1 TGGGGCATAAGCCCTTTT
30087830 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
25 52 0.49
26 54 0.51
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCGATAAAC
Found at i:30087749 original size:51 final size:51
Alignment explanation
Indices: 30087669--30087829 Score: 211
Period size: 51 Copynumber: 3.2 Consensus size: 51
30087659 CTGGAGGCCT
* *
30087669 AGCCTCTTTT-AAT-AATTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAA
* * *
30087718 AGTCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTGATGAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAA
* * *
30087769 AGCCCTTTTCGATAAACTGGGGCATAAACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCA-A
30087821 AGCCCTTTT
1 AGCCCTTTT
30087830 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
48 5 0.05
49 6 0.06
50 9 0.09
51 67 0.69
52 10 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAA
Found at i:30087910 original size:11 final size:11
Alignment explanation
Indices: 30087879--30087933 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
30087869 TTATGAATAC
30087879 ATCATGTGCAT
1 ATCATGTGCAT
* *
30087890 TTCA--TACAT
1 ATCATGTGCAT
30087899 ATCATGTGCAT
1 ATCATGTGCAT
30087910 ATCA--T-CAT
1 ATCATGTGCAT
30087918 ATCATGTGCAT
1 ATCATGTGCAT
30087929 ATCAT
1 ATCAT
30087934 ATCAATCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 7 0.20
9 8 0.23
10 1 0.03
11 19 0.54
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:30087920 original size:19 final size:20
Alignment explanation
Indices: 30087879--30087952 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
30087869 TTATGAATAC
*
30087879 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
30087899 ATCATGTGCATATCAT-CAT
1 ATCATGTGCATATCATACAT
30087918 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
30087938 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
30087953 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.16
19 19 0.37
20 22 0.43
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30087922 original size:39 final size:37
Alignment explanation
Indices: 30087879--30087951 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
30087869 TTATGAATAC
*
30087879 ATCATGTGCATTTCATA-CATATCATGTGCATATCATCAT
1 ATCATGTGCATATCATATCA-ATCATGT--ATATCATCAT
30087918 ATCATGTGCATATCATATCAATCATGTATATCAT
1 ATCATGTGCATATCATATCAATCATGTATATCAT
30087952 ATCCCACGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 7 0.22
39 23 0.72
40 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATGTGCATATCATATCAATCATGTATATCATCAT
Found at i:30091785 original size:40 final size:40
Alignment explanation
Indices: 30091701--30092002 Score: 441
Period size: 40 Copynumber: 7.6 Consensus size: 40
30091691 TTGAATGATG
* * * * *
30091701 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
30091741 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
30091781 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30091820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30091861 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30091900 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30091940 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30091980 TCCGGGTTAAGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCAT
30092003 GCATTCGTGC
Statistics
Matches: 243, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
39 36 0.15
40 197 0.81
41 10 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30094244 original size:45 final size:45
Alignment explanation
Indices: 30094182--30094348 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 45
30094172 TAGGATTCTG
** *
30094182 ATATGTGATTTTGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCGAT
* * *
30094227 ATATGTGATTTCATGTAAGACCATGTCTAGGACGTTAGCATCGAT
1 ATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCGAT
* * *
30094272 ATATGTGATTTCGTGTAAGTCCATGTCTGGGATGTTGGCATCCAT
1 ATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCGAT
* * *
30094317 ATATATG-GTTAAGTGTAAGACCATGTCTGGGA
1 ATATGTGATTTCA-TGTAAGACCATGTCTGGGA
30094349 CATCGACATT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
44 2 0.02
45 102 0.98
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (45 bp):
ATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCATCGAT
Found at i:30094335 original size:90 final size:90
Alignment explanation
Indices: 30094182--30094349 Score: 248
Period size: 90 Copynumber: 1.9 Consensus size: 90
30094172 TAGGATTCTG
* * * * *
30094182 ATATGTGATTTTGTGTAAGACCACGTCTGGGATGTTGGCATCGATATATGTGATTTCATGTAAGA
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCCATATATATGAGTTAATGTAAGA
30094247 CCATGTCTAGGACGTTAGCATCGAT
66 CCATGTCTAGGACGTTAGCATCGAT
* *
30094272 ATATGTGATTTCGTGTAAGTCCATGTCTGGGATGTTGGCATCCATATATATG-GTTAAGTGTAAG
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCCATATATATGAGTTAA-TGTAAG
*
30094336 ACCATGTCTGGGAC
65 ACCATGTCTAGGAC
30094350 ATCGACATTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 3 0.04
90 66 0.96
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (90 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCCATATATATGAGTTAATGTAAGA
CCATGTCTAGGACGTTAGCATCGAT
Found at i:30097761 original size:27 final size:22
Alignment explanation
Indices: 30097706--30097754 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
30097696 TTACGGTGCC
30097706 AGAATGATGAGATTATTCGGAT
1 AGAATGATGAGATTATTCGGAT
30097728 AGAATGATGAGATTATTCGGAT
1 AGAATGATGAGATTATTCGGAT
*
30097750 TGAAT
1 AGAAT
30097755 CTAATGATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (22 bp):
AGAATGATGAGATTATTCGGAT
Found at i:30100858 original size:14 final size:16
Alignment explanation
Indices: 30100834--30100866 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30100824 ATTTTCTGTG
30100834 TTTATTATGTGT-AAA
1 TTTATTATGTGTGAAA
30100849 TTTA-TATGTGTGAAA
1 TTTATTATGTGTGAAA
30100864 TTT
1 TTT
30100867 TCGTGCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGAAA
Found at i:30102063 original size:45 final size:45
Alignment explanation
Indices: 30101931--30102052 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
30101921 TAGGATTTCG
*
30101931 ATATGTGATTTCGTGTAAGACCACATCTGGGATGTTGGCATCTAT
1 ATATGTGATTTCGTGTAAGACCACATCTGGGATGTTGGCATCGAT
* ** *
30101976 ATATGTGATTTTGTGTAAGACCATGTTTGGGATGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACATCTGGGATGTTGGCATCGAT
* *
30102021 ATATTTGATTTCATGTAAGACCACATCTGGGA
1 ATATGTGATTTCGTGTAAGACCACATCTGGGA
30102053 CATCGACATC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCACATCTGGGATGTTGGCATCGAT
Found at i:30104642 original size:23 final size:23
Alignment explanation
Indices: 30104615--30104718 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
30104605 ACGCTTACCG
30104615 CTATTAGCAGCTTTGCTACGTTA
1 CTATTAGCAGCTTTGCTACGTTA
* * * *
30104638 CTATTAGTAACTTTGCTGCATTA
1 CTATTAGCAGCTTTGCTACGTTA
* * * *
30104661 CTGTTAGCAACATTGCTGCGTTA
1 CTATTAGCAGCTTTGCTACGTTA
*
30104684 CTATTAGCAG-TATTGCTATGTTA
1 CTATTAGCAGCT-TTGCTACGTTA
30104707 CTATTAGCAGCT
1 CTATTAGCAGCT
30104719 ACGCTGTGAT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTACGTTA
Found at i:30123412 original size:22 final size:23
Alignment explanation
Indices: 30123381--30123426 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
30123371 TTAGATAGTG
30123381 TTCTAATTTTA-TTT-ATTTATTT
1 TTCTAATTTTACTTTCA-TTATTT
*
30123403 TTCTAGTTTTACTTTCATTATTT
1 TTCTAATTTTACTTTCATTATTT
30123426 T
1 T
30123427 CCTTTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 10 0.48
24 1 0.05
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (23 bp):
TTCTAATTTTACTTTCATTATTT
Found at i:30126867 original size:34 final size:34
Alignment explanation
Indices: 30126793--30126858 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
30126783 CATTACTGTT
* *
30126793 ACTGATATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGATATTGATACTGTATTGGGCTAAGACCCAC
*
30126827 ACTGATATTGATACTGCTA-TGGGCTACGACCC
1 ACTGATATTGATACTG-TATTGGGCTAAGACCC
30126859 TAATTGATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGATATTGATACTGTATTGGGCTAAGACCCAC
Found at i:30129348 original size:25 final size:25
Alignment explanation
Indices: 30129314--30129362 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
30129304 GCCAAAGGTA
30129314 TAATTCGCCTAGTTTGTTCAAGCAC
1 TAATTCGCCTAGTTTGTTCAAGCAC
*
30129339 TAATTTGCCTAGTTTGTTCAAGCA
1 TAATTCGCCTAGTTTGTTCAAGCA
30129363 ATGTGAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (25 bp):
TAATTCGCCTAGTTTGTTCAAGCAC
Found at i:30132424 original size:43 final size:42
Alignment explanation
Indices: 30132366--30132522 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 42
30132356 ACATATTATA
*
30132366 CAATGCCAATGTCCCAGACGTGGTCTTACATGCAATCACATAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATAT
* * *
30132409 CAATGCCACTATCCCAGACAG-GGTCTTACACGAATCAAATA-
1 CAATGCCAATGTCCCAGAC-GTGGTCTTACACGAATCACATAT
* * * * *
30132450 CGACGCCGATGTCCCAGACATGGTCTTATACGTAATCACATAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATAT
* *
30132493 CGATGCCAATGTCCCAGGCGTGGTCTTACA
1 CAATGCCAATGTCCCAGACGTGGTCTTACA
30132523 GTAGAACACA
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 24 0.26
42 16 0.17
43 52 0.56
44 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATAT
Found at i:30134694 original size:28 final size:28
Alignment explanation
Indices: 30134651--30134797 Score: 188
Period size: 28 Copynumber: 5.3 Consensus size: 28
30134641 TGGGAAGTAG
* *
30134651 TTGGGCCTGATCGGCCATGTAAACGAGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
30134679 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
* * * *
30134707 TTGGGCC-GATGGACCATATGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
* *
30134734 TTGGGCCTGATGGGCCATATGAATGAGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
* * *
30134762 TTGGGCCTAAAGGGCCAAGTGAACGAGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
30134790 TTGGGCCT
1 TTGGGCCT
30134798 AAAAGGGCCA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 23 0.22
28 82 0.78
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.22
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAACGAGA
Found at i:30135153 original size:27 final size:27
Alignment explanation
Indices: 30135130--30135254 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
30135120 CTAAAATACT
* *
30135130 CTCGAATTGTAAAATTATCGAAATACC
1 CTCGATTTGTAAAATTATCGAAACACC
* * *
30135157 CCCGATTTGTGAAATTACCGAAACACC
1 CTCGATTTGTAAAATTATCGAAACACC
*
30135184 CTCAATTTGTAAAATTATCGAAACACC
1 CTCGATTTGTAAAATTATCGAAACACC
*
30135211 CTTGATTTGTAAAATTATCGAAACACC
1 CTCGATTTGTAAAATTATCGAAACACC
30135238 CTCGATTTGTAAAATTA
1 CTCGATTTGTAAAATTA
30135255 CCAAAATACC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
CTCGATTTGTAAAATTATCGAAACACC
Found at i:30135266 original size:54 final size:54
Alignment explanation
Indices: 30135130--30135268 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 54
30135120 CTAAAATACT
* ** *
30135130 CTCGAATTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTACCGAAACACC
1 CTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACACC
* * *
30135184 CTCAATTTGTAAAATTATCGAAACACCCTTGATTTGTAAAATTATCGAAACACC
1 CTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACACC
* *
30135238 CTCGATTTGTAAAATTACCAAAATACCCTTG
1 CTCGATTTGTAAAATTATCGAAATACCCTTG
30135269 TAGTGTAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.29
Consensus pattern (54 bp):
CTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACACC
Found at i:30135275 original size:27 final size:27
Alignment explanation
Indices: 30135245--30135309 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
30135235 ACCCTCGATT
* *
30135245 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTATAG
** *
30135272 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATGACCAAAATACCCTTATAG
*
30135299 GGTAAAATGAC
1 TGTAAAATGAC
30135310 TGTTTTGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCAAAATACCCTTATAG
Found at i:30135293 original size:54 final size:54
Alignment explanation
Indices: 30135175--30135281 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
30135165 GTGAAATTAC
* * * *
30135175 CGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTTGATTTGTAAAATTAT
1 CGAAACACCCTCAATTTGTAAAATTACCAAAACACCCTTGATGTGTAAAATGAT
* *
30135229 CGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTTG-TAGTGTAAAATGA
1 CGAAACACCCTCAATTTGTAAAATTACCAAAACACCCTTGAT-GTGTAAAATGA
30135282 CTGACATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
CGAAACACCCTCAATTTGTAAAATTACCAAAACACCCTTGATGTGTAAAATGAT
Found at i:30135310 original size:27 final size:27
Alignment explanation
Indices: 30135260--30135311 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30135250 AATTACCAAA
* *
30135260 ATACCCTTGTAGTGTAAAATGACTGAC
1 ATACCCTTATAGGGTAAAATGACTGAC
30135287 ATACCCTTATAGGGTAAAATGACTG
1 ATACCCTTATAGGGTAAAATGACTG
30135312 TTTTGCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
ATACCCTTATAGGGTAAAATGACTGAC
Found at i:30149467 original size:40 final size:40
Alignment explanation
Indices: 30149422--30149813 Score: 520
Period size: 40 Copynumber: 9.8 Consensus size: 40
30149412 ATAACCACAA
* * * * *
30149422 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30149462 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30149502 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
30149542 GCACAATTGCCTTCGGGGCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30149582 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30149622 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
30149662 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30149702 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30149742 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
30149782 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
30149814 CATTCAAATG
Statistics
Matches: 307, Mismatches: 40, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
39 7 0.02
40 288 0.94
41 12 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30149619 original size:120 final size:120
Alignment explanation
Indices: 30149402--30149809 Score: 719
Period size: 120 Copynumber: 3.4 Consensus size: 120
30149392 TCTTCGGAAT
* * * *
30149402 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTTGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
30149466 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
30149521 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGGCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
30149586 AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
30149641 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
30149706 AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
30149761 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
30149810 ATATCATTCA
Statistics
Matches: 277, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
119 4 0.01
120 273 0.99
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:30175223 original size:47 final size:47
Alignment explanation
Indices: 30175101--30175497 Score: 695
Period size: 47 Copynumber: 8.4 Consensus size: 47
30175091 CAGCCAAGAC
30175101 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30175148 AGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30175197 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30175244 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30175291 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30175338 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30175385 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
30175432 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30175479 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30175498 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 12, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 290 0.86
49 46 0.14
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:30182522 original size:14 final size:13
Alignment explanation
Indices: 30182495--30182520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30182485 GTTTCGGTTC
30182495 TAAAGATGAAAAA
1 TAAAGATGAAAAA
30182508 TAAAGATGAAAAA
1 TAAAGATGAAAAA
30182521 ATGATGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
TAAAGATGAAAAA
Found at i:30184737 original size:48 final size:48
Alignment explanation
Indices: 30184662--30184789 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 48
30184652 CACACCTAAT
*
30184662 TGCCAATATCAT-GCCGTGAAGCCAACTCAATGAATCTTGCACCCAAAG
1 TGCCAATATCATGGCC-TGAAGCCAACTCAATGAATCTCGCACCCAAAG
* * * **
30184710 TGCCAATACCATGGCCCGAAGTCAACTCAATGAATCTCGCACCTGAAG
1 TGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTCGCACCCAAAG
*
30184758 TGCCAATATCATGGCCTGAAGCCAACTTAATG
1 TGCCAATATCATGGCCTGAAGCCAACTCAATG
30184790 TAACCCCTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 66 0.96
49 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (48 bp):
TGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTCGCACCCAAAG
Found at i:30187817 original size:25 final size:25
Alignment explanation
Indices: 30187788--30187835 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30187778 TTATAACATG
* * *
30187788 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30187813 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30187836 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30187886 original size:9 final size:9
Alignment explanation
Indices: 30187874--30187930 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30187864 TTTGATAAAC
30187874 ATGATATGT
1 ATGATATGT
*
30187883 ATGATATGCAC
1 ATGATATG--T
*
30187894 ATGACATGT
1 ATGATATGT
*
30187903 ATGATATGCAC
1 ATGATATG--T
30187914 ATGATATGT
1 ATGATATGT
30187923 ATGATATG
1 ATGATATG
30187931 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30187897 original size:20 final size:20
Alignment explanation
Indices: 30187872--30187942 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
30187862 ATTTTGATAA
30187872 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30187892 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30187912 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30187932 ACATGAGATGT
1 ACATGATATGT
30187943 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30187919 original size:11 final size:11
Alignment explanation
Indices: 30187883--30187937 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
30187873 CATGATATGT
30187883 ATGATATGCAC
1 ATGATATGCAC
* *
30187894 ATGACATG--T
1 ATGATATGCAC
30187903 ATGATATGCAC
1 ATGATATGCAC
*
30187914 ATGATATG--T
1 ATGATATGCAC
30187923 ATGATATGCAC
1 ATGATATGCAC
30187934 ATGA
1 ATGA
30187938 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30188015 original size:24 final size:24
Alignment explanation
Indices: 30187988--30188107 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
30187978 GAGGAAGTGC
30187988 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30188012 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30188036 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30188060 AAAAGAGG-TTTTGCCCCAGTTATT
1 AAAAG-GGCTTATGCCCCAGTTATT
*
30188084 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30188108 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
24 80 0.89
25 10 0.11
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30188336 original size:31 final size:31
Alignment explanation
Indices: 30188301--30188364 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30188291 CGTTTACAGT
*
30188301 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30188332 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30188363 AA
1 AA
30188365 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:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30197843 original size:20 final size:20
Alignment explanation
Indices: 30197777--30197843 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
30197767 ATTTTGATAA
*
30197777 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30197797 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30197817 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30197837 ACGTGAT
1 ACATGAT
30197844 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30198014 original size:24 final size:23
Alignment explanation
Indices: 30197894--30198012 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
30197884 AGGAAATGAA
30197894 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30197917 AAAGGGCTTGTGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
30197940 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30197963 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30197986 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
30198010 AAA
1 AAA
30198013 AGAGGCTAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 68 0.76
24 21 0.24
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:30198265 original size:31 final size:31
Alignment explanation
Indices: 30198227--30198290 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
30198217 CGTTTACAGT
* *
30198227 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
* **
30198258 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
30198289 AA
1 AA
30198291 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATAATATGAAATATGA
Done.