Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 76 of 199
Found at i:23016797 original size:62 final size:65
Alignment explanation
Indices: 23016692--23017081 Score: 265
Period size: 62 Copynumber: 6.4 Consensus size: 65
23016682 TGTAAGTTTT
** *
23016692 GTATTATGTAAGTTATGTAAGTTATCAAAG-T-AATGTATGTTATGTAAG-T-TGTAAGTTAT-T
1 GTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTA--TTATGTAAGTTATGTAAGTTATCA
*
23016752 AT
64 AA
* *
23016754 GTATTATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAG-T-T----
1 GTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTATCAAA
* * *
23016813 G-----TGTAAGATATTTAAGTTATGTAAGTT--TTGTATTATGTAAGTTATGTAAGTTATCAAA
1 GTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTATCAAA
* *
23016871 GTA--ATGTATGTTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATCAA
1 GTATTATGTAAGTTATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTATGTAAGTTATCAA
23016932 A
65 A
* * **
23016933 GTA--ATGTATGTTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTA
1 GTATTATGTAAGTTATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTATGTAAGTTATCAA
23016994 A
65 A
* * * * *
23016995 GT-TAAATGT-A-TTATGTAGGTTATGTAAGTT--GTGTAAGATATTTAAGTTATGTAAGTT-T-
1 GTAT-TATGTAAGTTATGTAAGTTATGTAAGTTAAATGT-A-TTATGTAAGTTATGTAAGTTATC
*
23017053 --T
63 AAA
* *
23017054 GTATTATGTAAGTTATGTATGCTATGTA
1 GTATTATGTAAGTTATGTAAGTTATGTA
23017082 TTATGTAAGT
Statistics
Matches: 279, Mismatches: 23, Indels: 53
0.79 0.06 0.15
Matches are distributed among these distances:
52 21 0.08
53 1 0.00
54 25 0.09
58 1 0.00
59 15 0.05
60 3 0.01
61 29 0.10
62 138 0.49
63 22 0.08
64 24 0.09
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (65 bp):
GTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTATCAAA
Found at i:23016947 original size:150 final size:146
Alignment explanation
Indices: 23016554--23016993 Score: 664
Period size: 150 Copynumber: 3.0 Consensus size: 146
23016544 CCAGTTGTGC
*
23016554 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTACGTTATGT-AGTTGTAAGTTATTATGTATT
1 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
23016618 ATGTAAGTTATGTAAG-T-T-A--AATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAA
66 ATGTAAGTTATGTAAGTTATAAGTAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAA
23016678 GTTATGTAAGTTTTGT
131 GTTATGTAAGTTTTGT
23016694 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
*
23016759 ATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATAT
66 ATGTAAGTTATGTAAGTTA--TAAG-T-AATGTATTATGTAGGTTATGTAAGTTGTGTAAGATAT
23016824 TTAAGTTATGTAAGTTTTGT
127 TTAAGTTATGTAAGTTTTGT
23016844 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
* * *
23016909 ATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT-TATGTATT
66 ATGTAAGTTATGTAAGTTAT--AAGTAATGTA--TTATGTAGGTTATGTAAGTTGTGTAAG-A-T
* *
23016971 ATGTAAGTTATGTAAGTTATGT
125 ATTTAAGTTATGTAAGTTTTGT
23016993 A
1 A
23016994 AGTTAAATGT
Statistics
Matches: 276, Mismatches: 8, Indels: 23
0.90 0.03 0.07
Matches are distributed among these distances:
140 42 0.15
141 36 0.13
142 1 0.00
145 1 0.00
146 1 0.00
147 3 0.01
148 17 0.06
149 24 0.09
150 151 0.55
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (146 bp):
ATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
ATGTAAGTTATGTAAGTTATAAGTAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAA
GTTATGTAAGTTTTGT
Found at i:23016967 original size:212 final size:212
Alignment explanation
Indices: 23016691--23017072 Score: 755
Period size: 212 Copynumber: 1.8 Consensus size: 212
23016681 ATGTAAGTTT
23016691 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGT
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGT
23016756 ATTATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGA
66 ATTATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGA
23016821 TATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATG
131 TATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATG
23016886 TAAGTTGTAAGTTATTA
196 TAAGTTGTAAGTTATTA
23016903 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGT
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGT
*
23016968 ATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGA
66 ATTATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGA
23017033 TATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTA
131 TATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTA
23017073 TGCTATGTAT
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
212 169 1.00
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (212 bp):
TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGT
ATTATGTAAGTTATATAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGA
TATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATG
TAAGTTGTAAGTTATTA
Found at i:23017226 original size:17 final size:17
Alignment explanation
Indices: 23017204--23017240 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
23017194 TTTTTATAAG
23017204 TTATGTATTATGTAAAT
1 TTATGTATTATGTAAAT
*
23017221 TTATGTATTATGTAAGT
1 TTATGTATTATGTAAAT
23017238 TTA
1 TTA
23017241 CATATAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (17 bp):
TTATGTATTATGTAAAT
Found at i:23017620 original size:33 final size:34
Alignment explanation
Indices: 23017578--23017650 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
23017568 TATTATGTTA
*
23017578 TTATATAAGTTATG-CAAGTT-TATATATTGTATG
1 TTATTTAAGTTATGACAAGTTAT-TATATTGTATG
*
23017611 TTATTTAAGTTATGTATAAGTTATTATATTGTATG
1 TTATTTAAGTTATG-ACAAGTTATTATATTGTATG
23017646 TTATT
1 TTATT
23017651 ATATAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 13 0.37
35 21 0.60
36 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (34 bp):
TTATTTAAGTTATGACAAGTTATTATATTGTATG
Found at i:23017660 original size:12 final size:12
Alignment explanation
Indices: 23017611--23017667 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
23017601 ATATTGTATG
*
23017611 TTATTTAAGTTA
1 TTATATAAGTTA
*
23017623 -TGTATAAGTTA
1 TTATATAAGTTA
*
23017634 TTATATTGTATGTTA
1 TTATA---TAAGTTA
23017649 TTATATAAGTTA
1 TTATATAAGTTA
23017661 TTATATA
1 TTATATA
23017668 TTATTAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 9 0.25
12 16 0.44
15 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (12 bp):
TTATATAAGTTA
Found at i:23017773 original size:17 final size:16
Alignment explanation
Indices: 23017732--23017775 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23017722 TAAATCTTGA
* *
23017732 AAAAATTATAGATTTT
1 AAAAATTATATATATT
23017748 AAAAA-TATATATATT
1 AAAAATTATATATATT
23017763 AAAAATGTATATA
1 AAAAAT-TATATA
23017776 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAAATTATATATATT
Found at i:23018564 original size:7 final size:7
Alignment explanation
Indices: 23018552--23018604 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
23018542 AAAACGGCCT
23018552 AAACCCC
1 AAACCCC
23018559 AAACCCC
1 AAACCCC
**
23018566 AAACCTT
1 AAACCCC
23018573 AAACCCC
1 AAACCCC
* **
23018580 AAATCTT
1 AAACCCC
*
23018587 AAACCCT
1 AAACCCC
23018594 AAACCCC
1 AAACCCC
23018601 AAAC
1 AAAC
23018605 TATATACGAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCCC
Found at i:23018575 original size:21 final size:21
Alignment explanation
Indices: 23018549--23018604 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
23018539 ACTAAAACGG
23018549 CCTAAACCCCAAACCCCAAAC
1 CCTAAACCCCAAACCCCAAAC
* * **
23018570 CTTAAACCCCAAATCTTAAAC
1 CCTAAACCCCAAACCCCAAAC
23018591 CCTAAACCCCAAAC
1 CCTAAACCCCAAAC
23018605 TATATACGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.12
Consensus pattern (21 bp):
CCTAAACCCCAAACCCCAAAC
Found at i:23018576 original size:14 final size:14
Alignment explanation
Indices: 23018559--23018598 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
23018549 CCTAAACCCC
23018559 AAACCCCAAACCTT
1 AAACCCCAAACCTT
*
23018573 AAACCCCAAATCTT
1 AAACCCCAAACCTT
*
23018587 AAACCCTAAACC
1 AAACCCCAAACC
23018599 CCAAACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCCAAACCTT
Found at i:23018695 original size:20 final size:20
Alignment explanation
Indices: 23018667--23018713 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
23018657 ACTCTCAAAC
23018667 CCTAAATCGAAAACACTAAA
1 CCTAAATCGAAAACACTAAA
* * *
23018687 CCTATATCGTAAACCCTAAA
1 CCTAAATCGAAAACACTAAA
23018707 CCCTAAA
1 -CCTAAA
23018714 CTATAATCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (20 bp):
CCTAAATCGAAAACACTAAA
Found at i:23019172 original size:147 final size:147
Alignment explanation
Indices: 23018927--23019192 Score: 322
Period size: 147 Copynumber: 1.8 Consensus size: 147
23018917 TCAAAACATT
* * * *
23018927 TTTGCGGCGTTTTAAGGAAAGCGCCACTAACTATAAATCAAAATGCAGTCACTTCATCAACACTT
1 TTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAAATCAAAACGAAGTCACTTCACCAACACTT
* **
23018992 ACCTCAAACCGGTGGCGTTTTCGAAAAATCGCCACGAATAACATTTACAAAACGGAATCGTTTCT
66 ACCTCAAACCGGTGGCGTTTCCGAAAAATCGCCACGAATAACATAGACAAAACGGAATCGTTTCT
23019057 ATAAATGTTAGAACAAC
131 ATAAATGTTAGAACAAC
* * * * * *
23019074 TTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGTTC-AAACGAAGTCATTTCCCCAGCAGT
1 TTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAA-ATCAAAACGAAGTCACTTCACCAACA-C
* ** * *
23019138 TTA-CTCAAGCTTGTGGCGTTTCCTGAAAAA-CGCCACTAATACCATAGACAAAACG
64 TTACCTCAAACCGGTGGCGTTTCC-GAAAAATCGCCACGAATAACATAGACAAAACG
23019193 ACTACATTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
147 87 0.89
148 11 0.11
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (147 bp):
TTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAAATCAAAACGAAGTCACTTCACCAACACTT
ACCTCAAACCGGTGGCGTTTCCGAAAAATCGCCACGAATAACATAGACAAAACGGAATCGTTTCT
ATAAATGTTAGAACAAC
Found at i:23019208 original size:147 final size:147
Alignment explanation
Indices: 23018907--23019208 Score: 315
Period size: 147 Copynumber: 2.1 Consensus size: 147
23018897 CGGCCTCGTA
** * *
23018907 TCAATAAATGTCAAAACATTTTTGCGGCGTTTTAAGGAAAGCGCCACTAACTATAAATCAAAATG
1 TCAATAAATGTCAAAACAACTTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAAATCAAAACG
* * * *
23018972 CAGTCACTTCATCAACACTTACCTCAAACCGGTGGCGTTTTCGAAAAATCGCCACGAATAACATT
66 AAGTCACTTCACCAACACTTACCTCAAACCGGTGGCGTTTCCGAAAAATCGCCACGAATAACATA
* *
23019037 TACAAAACGGAATCGTT
131 GACAAAACGGAATCATT
* * * * *
23019054 TCTATAAATGTTAGAACAACTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGTTC-AAAC
1 TCAATAAATGTCAAAACAACTTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAA-ATCAAAAC
* * * * * ** * *
23019118 GAAGTCATTTCCCCAGCAGTTTA-CTCAAGCTTGTGGCGTTTCCTGAAAAA-CGCCACTAATACC
65 GAAGTCACTTCACCAACA-CTTACCTCAAACCGGTGGCGTTTCC-GAAAAATCGCCACGAATAAC
*
23019181 ATAGACAAAAC-GACTACATT
128 ATAGACAAAACGGAAT-CATT
23019201 TCAATAAA
1 TCAATAAA
23019209 CATAATTACA
Statistics
Matches: 125, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
146 3 0.02
147 111 0.89
148 11 0.09
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (147 bp):
TCAATAAATGTCAAAACAACTTTGCGGCGTTTTAAGGAAAGCGCCACTAAATATAAATCAAAACG
AAGTCACTTCACCAACACTTACCTCAAACCGGTGGCGTTTCCGAAAAATCGCCACGAATAACATA
GACAAAACGGAATCATT
Found at i:23020575 original size:114 final size:113
Alignment explanation
Indices: 23020291--23020738 Score: 567
Period size: 114 Copynumber: 3.9 Consensus size: 113
23020281 AATTATTTTA
* * ** * *
23020291 CGGCGCTTCATCAAAAACGCTGCTAAATCCCCGAATGCTCAGAAAATGGCATCATTGGGCTT-AG
1 CGGCGCTTCACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCA-
* * * *
23020355 GTTTTTTGCGGCGCTTCCACAAAAAACGCCACTAAAGCCCTGATCATTAG
65 GTTTTTTGCGGCGCTTACAC-AAAAACGCCGCTAAAGTCCTGAGCATTAG
* *
23020405 CGGCGCTTCCACCGAAAGCGCCACTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTCA
1 CGGCGCTT-CACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCA
* *
23020470 GTTTCTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGTCCAGAGCATTAG
65 GTTT-TTTGCGGCGCTTACACAAAAACGCCGCTAAAGTCCTGAGCATTAG
* * * *
23020520 CGGCGCTTTACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTCGG
1 CGGCGCTTCACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCAG
* * *
23020585 TTTATTTGCGGCGCTTACCCAAAAAAGCCGCTAAAGTCTTGAGCATTAG
66 TTT-TTTGCGGCGCTTACACAAAAACGCCGCTAAAGTCCTGAGCATTAG
* * * * *
23020634 CGGTGCTTCACCGAAAACACTACTAAATCCCCGAAT-CTCAGCAAACGGCATCGTTGGGCTTCGG
1 CGGCGCTTCACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCAG
* * * *
23020698 TTTTTTGCGGCGCTTCCACAAAATCGCCGTTAAAGCCCTGA
66 TTTTTTGCGGCGCTTACACAAAAACGCCGCTAAAGTCCTGA
23020739 ATGGGTGGAA
Statistics
Matches: 292, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
112 31 0.11
113 28 0.10
114 135 0.46
115 83 0.28
116 15 0.05
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (113 bp):
CGGCGCTTCACCGAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCAG
TTTTTTGCGGCGCTTACACAAAAACGCCGCTAAAGTCCTGAGCATTAG
Found at i:23021828 original size:27 final size:27
Alignment explanation
Indices: 23021786--23021857 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
23021776 TATGAATGGA
*
23021786 AATTAGCACTTCGGTGCTC-TCTATTCT
1 AATTAGCACTTTGGTGCTCGT-TATTCT
* *
23021813 AATTAGCACTTTGGTGCTCGTTGTTTT
1 AATTAGCACTTTGGTGCTCGTTATTCT
* *
23021840 GATTAGCATTTTGGTGCT
1 AATTAGCACTTTGGTGCT
23021858 TTCCGTTCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
AATTAGCACTTTGGTGCTCGTTATTCT
Found at i:23034040 original size:40 final size:40
Alignment explanation
Indices: 23033934--23034040 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 40
23033924 CCTTTTTTAC
* * *
23033934 ATATCTATATCCATATAAACATTTCATAAAAGCAGTTTAT
1 ATATCTATTTCCATATAACCATTTCATAAAAGCAGTTCAT
* ** * *
23033974 ATAACTATTTGTATATAATCGA-TTCATAAAATCA-TTCCAT
1 ATATCTATTTCCATATAA-CCATTTCATAAAAGCAGTT-CAT
*
23034014 GTATCTATTTCCATATAACCATTTCAT
1 ATATCTATTTCCATATAACCATTTCAT
23034041 GTAACCATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
39 4 0.08
40 46 0.90
41 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (40 bp):
ATATCTATTTCCATATAACCATTTCATAAAAGCAGTTCAT
Found at i:23034047 original size:13 final size:13
Alignment explanation
Indices: 23033945--23034092 Score: 84
Period size: 13 Copynumber: 11.2 Consensus size: 13
23033935 TATCTATATC
*
23033945 CATATAAACATTT
1 CATATAACCATTT
* *
23033958 CATAAAAGCAGTTT
1 CATATAACCA-TTT
*
23033972 -ATATAACTATTT
1 CATATAACCATTT
* *
23033984 GTATATAATCGA-TT
1 -CATATAA-CCATTT
* * *
23033998 CATAAAATCATTC
1 CATATAACCATTT
* * *
23034011 CATGTATCTATTT
1 CATATAACCATTT
23034024 CCATATAACCATTT
1 -CATATAACCATTT
*
23034038 CATGTAACCATTT
1 CATATAACCATTT
*
23034051 CATATAACCTTTT
1 CATATAACCATTT
*
23034064 CGTATAACCATTT
1 CATATAACCATTT
* * *
23034077 CTTATATCTATTT
1 CATATAACCATTT
23034090 CAT
1 CAT
23034093 TTTCTACATT
Statistics
Matches: 100, Mismatches: 29, Indels: 12
0.71 0.21 0.09
Matches are distributed among these distances:
12 4 0.04
13 73 0.73
14 21 0.21
15 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:23035709 original size:30 final size:29
Alignment explanation
Indices: 23035653--23035710 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
23035643 AGCAAAAATT
23035653 ATCAAATCAAAATTTAATATAATACTATA
1 ATCAAATCAAAATTTAATATAATACTATA
*
23035682 ATCAACTCATAAATATTAATA-AATACTAT
1 ATCAAATCA-AAAT-TTAATATAATACTAT
23035711 TTACAAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 12 0.46
31 6 0.23
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (29 bp):
ATCAAATCAAAATTTAATATAATACTATA
Found at i:23047246 original size:21 final size:21
Alignment explanation
Indices: 23047226--23047264 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23047216 GTGTCGATAC
23047226 CATA-TATAAAAATATCAATA
1 CATATTATAAAAATATCAATA
* *
23047246 CTTATTATAAAGATATCAA
1 CATATTATAAAAATATCAA
23047265 CACTTTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.19
21 13 0.81
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
CATATTATAAAAATATCAATA
Found at i:23047269 original size:21 final size:21
Alignment explanation
Indices: 23047230--23047269 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23047220 CGATACCATA
*
23047230 TATAAAAATATCAATACTTAT
1 TATAAAAATATCAACACTTAT
*
23047251 TATAAAGATATCAACACTT
1 TATAAAAATATCAACACTT
23047270 TGTTCAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (21 bp):
TATAAAAATATCAACACTTAT
Found at i:23047401 original size:18 final size:17
Alignment explanation
Indices: 23047374--23047409 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
23047364 GAATATCATG
*
23047374 ATTAACTAATGTTTGTTT
1 ATTAAATAATGTTT-TTT
23047392 ATTAAATAATGTTTTTT
1 ATTAAATAATGTTTTTT
23047409 A
1 A
23047410 ATTGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (17 bp):
ATTAAATAATGTTTTTT
Found at i:23051421 original size:21 final size:21
Alignment explanation
Indices: 23051382--23051421 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23051372 GACAAGCTTT
*
23051382 TTTTATTAAGTTTTAATTATG
1 TTTTATTAAGTTTCAATTATG
* *
23051403 TTTTCTTAAGTTTCCATTA
1 TTTTATTAAGTTTCAATTA
23051422 AGTAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATTAAGTTTCAATTATG
Found at i:23063396 original size:41 final size:41
Alignment explanation
Indices: 23063362--23063798 Score: 430
Period size: 41 Copynumber: 10.7 Consensus size: 41
23063352 ACCGGAGTGT
* * *
23063362 AAACAGGGGCACATATGTGTTATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * *
23063403 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
*
23063444 AAACA-GGGCTACGTATGTGTAATTCA-GGGTATCGAAGTAC
1 AAACAGGGGC-ACGTATGTGTAATTCAGGGGTACCGAAGTAC
* *
23063484 AAACAGGGCCACGTATGTGTAATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * * * *
23063525 AAAGAGGGGTATGTATGTGGAATTCAGAGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * *
23063566 AAACAGGGGCACGTATGTGCAATTCAAGGG-ATCGAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * * * * * *
23063606 AAATAGGAGCACATATGTGCAATTCAGGGGCATCGAAGTAA
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * * *
23063647 AAATAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* * * ** *
23063688 AAAAAAGGGCACGTATGTGCAATTCAATGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
** * ** * * * * *
23063729 AAACAAAGGTACACATGTGCAATTAAAGGGTATCGAAGAAC
1 AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
* *
23063770 AAACAGGGGCACGTATGTGCAATTTAGGG
1 AAACAGGGGCACGTATGTGTAATTCAGGG
23063799 TATAATTAAT
Statistics
Matches: 333, Mismatches: 59, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
40 71 0.21
41 262 0.79
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTAC
Found at i:23063411 original size:20 final size:20
Alignment explanation
Indices: 23063386--23063451 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
23063376 ATGTGTTATT
23063386 TAGGGGTACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
* * * *
23063406 TAGGGGCA-CGTATGTGCAAT
1 TAGGGGTACCG-AAGTACAAA
*
23063426 TCAGGGGTACCAAAGTACAAA
1 T-AGGGGTACCGAAGTACAAA
*
23063447 CAGGG
1 TAGGG
23063452 CTACGTATGT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.55
21 12 0.36
22 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.17
Consensus pattern (20 bp):
TAGGGGTACCGAAGTACAAA
Found at i:23063580 original size:122 final size:121
Alignment explanation
Indices: 23063362--23063798 Score: 527
Period size: 122 Copynumber: 3.6 Consensus size: 121
23063352 ACCGGAGTGT
*
23063362 AAACAGGGGCACATATGTGTTATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATT
1 AAACA-GGGCACATATGTGTAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATT
*
23063427 CAGGGGTACCAAAGTACAAACAGGGCTACGTATGTGTAATTC-AGGGTATCGAAGTAC
65 CAGGGGTACCAAAGTACAAACAGGGC-ACGTATGTGCAATTCAAGGGTATCGAAGTAC
* * * * *
23063484 AAACAGGGCCACGTATGTGTAATTTAGGGGTACCGAAGTACAAAGAGGGGTATGTATGTGGAATT
1 AAACAGGG-CACATATGTGTAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATT
* *
23063549 CAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGG-ATCGAAGTAC
65 CAGGGGTACCAAAGTACAAACA-GGGCACGTATGTGCAATTCAAGGGTATCGAAGTAC
* * * * * * *
23063606 AAATAGGAGCACATATGTGCAATTCAGGGGCATCGAAGTAAAAATAGGGGCACATATGTGCAATT
1 AAACAGG-GCACATATGTGTAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATT
* * * *
23063671 CAGGGGTACCAAAGTACAAAAAAGGGCACGTATGTGCAATTCAATGGTACCAAAGTAC
65 CAGGGGTACCAAAGTAC-AAACAGGGCACGTATGTGCAATTCAAGGGTATCGAAGTAC
* * * * * * * * *
23063729 AAACAAAGGTACACATGTGCAATTAAAGGGTATCGAAGAACAAACAGGGGCACGTATGTGCAATT
1 AAAC-AGGGCACATATGTGTAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATT
*
23063794 TAGGG
65 CAGGG
23063799 TATAATTAAT
Statistics
Matches: 269, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
121 3 0.01
122 188 0.70
123 76 0.28
124 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (121 bp):
AAACAGGGCACATATGTGTAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTC
AGGGGTACCAAAGTACAAACAGGGCACGTATGTGCAATTCAAGGGTATCGAAGTAC
Found at i:23063678 original size:163 final size:163
Alignment explanation
Indices: 23063390--23063798 Score: 500
Period size: 163 Copynumber: 2.5 Consensus size: 163
23063380 GTTATTTAGG
* * * *
23063390 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGCTA
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGC-A
* * * * * * *
23063455 CGTATGTGTAATTCA-GGGTATCGAAGTACAAACAGGGCCACGTATGTGTAATTTAGGGGTACCG
65 CGTATGTGCAATTCAGGGGCATCGAAGTAAAAACAGGGCCACATATGTGCAATTCAGGGGTACCA
* * * * *
23063519 AAGTACAAAGAGGGGTATGTATGTGGAATTCAGA-
130 AAGTACAAAAAAGGGCACGTATGTGCAATTCA-AT
*
23063553 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGG-ATCGAAGTACAAATAGGAGCA
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACAGG-GCA
* * *
23063617 CATATGTGCAATTCAGGGGCATCGAAGTAAAAATAGGGGCACATATGTGCAATTCAGGGGTACCA
65 CGTATGTGCAATTCAGGGGCATCGAAGTAAAAACAGGGCCACATATGTGCAATTCAGGGGTACCA
23063682 AAGTACAAAAAAGGGCACGTATGTGCAATTCAAT
130 AAGTACAAAAAAGGGCACGTATGTGCAATTCAAT
* ** * ** * *
23063716 GGTACCAAAGTACAAACAAAGGTACACATGTGCAATTAAAGGGTATCGAAGAACAAACAGGGGCA
1 GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACA-GGGCA
*
23063781 CGTATGTGCAATTTAGGG
65 CGTATGTGCAATTCAGGG
23063799 TATAATTAAT
Statistics
Matches: 210, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
162 29 0.14
163 147 0.70
164 32 0.15
165 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (163 bp):
GGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGCAC
GTATGTGCAATTCAGGGGCATCGAAGTAAAAACAGGGCCACATATGTGCAATTCAGGGGTACCAA
AGTACAAAAAAGGGCACGTATGTGCAATTCAAT
Found at i:23071149 original size:41 final size:41
Alignment explanation
Indices: 23071104--23071369 Score: 250
Period size: 41 Copynumber: 6.6 Consensus size: 41
23071094 GTGTAAACAA
* * *
23071104 GGGCACATATGTGCTATTTAGGGGTACCGAAGTGCAAACAG
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* * * * *
23071145 GGGCACGTATGTGTAATTCAGGGGTACCGAAGTATAAATAA
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* ** * ** *
23071186 GGGTATGTATGTGTAATTTAGGGGTACAAAAATA-AAA-A-
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* * * *
23071224 AGGCACATATGTGCAATTCAGGGGTACAGAAGTACAAAAAG
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* * * **
23071265 AGGCACGTATGTGCAATTTAAGGGTACTAAAGTACAAATAG
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* * *
23071306 GGTCACATATGTACAATTTAGGGGTACCGAAGTATAAATAG
1 GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
* *
23071347 GGGTACAGATGTGCAATTTAGGG
1 GGGCACATATGTGCAATTTAGGG
23071370 TATAATTAAT
Statistics
Matches: 182, Mismatches: 40, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
38 26 0.14
39 4 0.02
40 4 0.02
41 148 0.81
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (41 bp):
GGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAATAG
Found at i:23071324 original size:120 final size:120
Alignment explanation
Indices: 23071105--23071332 Score: 296
Period size: 120 Copynumber: 1.9 Consensus size: 120
23071095 TGTAAACAAG
* * * * * * * *
23071105 GGCACATATGTGCTATTTAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGTAATTCAGGGGT
1 GGCACATATGTGCAATTCAGGGGTACAGAAGTACAAAAAGAGGCACGTATGTGCAATTCAAGGGT
* * ** **
23071170 ACCGAAGTATAAATAAGGGTATGTATGTGTAATTTAGGGGTACAAAAATAAAAAA
66 ACCAAAGTACAAATAAGGGTACATATGTACAATTTAGGGGTACAAAAATAAAAAA
*
23071225 GGCACATATGTGCAATTCAGGGGTACAGAAGTACAAAAAGAGGCACGTATGTGCAATTTAAGGGT
1 GGCACATATGTGCAATTCAGGGGTACAGAAGTACAAAAAGAGGCACGTATGTGCAATTCAAGGGT
*
23071290 ACTAAAGTACAAAT-AGGGTCACATATGTACAATTTAGGGGTAC
66 ACCAAAGTACAAATAAGGGT-ACATATGTACAATTTAGGGGTAC
23071333 CGAAGTATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 5 0.05
120 86 0.95
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (120 bp):
GGCACATATGTGCAATTCAGGGGTACAGAAGTACAAAAAGAGGCACGTATGTGCAATTCAAGGGT
ACCAAAGTACAAATAAGGGTACATATGTACAATTTAGGGGTACAAAAATAAAAAA
Found at i:23073033 original size:16 final size:16
Alignment explanation
Indices: 23073012--23073042 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23073002 TAAACATGCA
23073012 TTAATTAAATACAATG
1 TTAATTAAATACAATG
*
23073028 TTAATTAATTACAAT
1 TTAATTAAATACAAT
23073043 TTCAATACGA
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:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
TTAATTAAATACAATG
Found at i:23084125 original size:19 final size:19
Alignment explanation
Indices: 23084101--23084156 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
23084091 TCGGATCCTT
*
23084101 GATGCGCGGATCCTTCCCG
1 GATGCGCAGATCCTTCCCG
23084120 GATGCGCAGATCCTTCCCG
1 GATGCGCAGATCCTTCCCG
*
23084139 GATACGCAGATCCTTCCC
1 GATGCGCAGATCCTTCCC
23084157 TGATCGGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.16, C:0.38, G:0.25, T:0.21
Consensus pattern (19 bp):
GATGCGCAGATCCTTCCCG
Found at i:23085619 original size:130 final size:131
Alignment explanation
Indices: 23085328--23086219 Score: 1334
Period size: 130 Copynumber: 6.9 Consensus size: 131
23085318 CTCCTGGGGA
* *
23085328 AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTCGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* *
23085393 TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085458 G
131 G
* *
23085459 AGATAAGATTTGTAATCTTCAACCTATCCCACTGCAGACCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
** * *
23085524 TCCATTTCCCTACTCCT-GGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCATTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085588 G
131 G
* *
23085589 AGATAAGATCTGTATTCTTCAACCTATCCCATTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* * * ** * * *
23085654 TTTGTTTCCCTACTCCTGGGGAAAATAAGATTTTCCGCCTTCTATCTGCTCCACTGTTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085719 G
131 G
*
23085720 AGATAAGATCTGTAATCTTTAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
*
23085785 TCTGTTTCCTTACTCCT-GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085849 G
131 G
* *
23085850 AGATAAGATTTGTAATCTTCAACCTATCCCACTGCTGACCAAGGAGATAGGA-TAGTGGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* *
23085914 TCTGTTTCCCTACTCTTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085979 G
131 G
*
23085980 AGACAA-ATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* * * * * * *
23086044 TCTATTTTCCTACTCCTGGGGAAGATAAGATTCACCG-CTTAGATCTGCTTCC-CTACT-CCT-G
66 TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCACTATTGCTTAG
23086105 GG
130 GG
* **
23086107 AAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGCTATAGGACTAGTGGCTTA
1 --AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTA
* * *
23086172 AATTTGTTTCCCTACTCCTAGGGAAGATAAGATCCGCCG-CTTAGATCT
64 AATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCT
23086220 ACTTCCCTAC
Statistics
Matches: 692, Mismatches: 62, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
127 3 0.00
128 2 0.00
129 89 0.13
130 405 0.59
131 193 0.28
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
AGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
TCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
G
Found at i:23085769 original size:261 final size:261
Alignment explanation
Indices: 23085328--23086219 Score: 1366
Period size: 261 Copynumber: 3.4 Consensus size: 261
23085318 CTCCTGGGGA
*
23085328 AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTCGCTTAAA
1 AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
23085393 TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
* *
23085458 GAGATAAGATTTGTAATCTTCAACCTATCCCACTGCAGACCAGGGAGATAGGACTAGTGGCTTAA
131 GAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
* * *
23085523 ATCCATTTCCCTACTCCTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCATTATTGCTTAGG
196 ATCTATTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085588 G
261 G
* * *
23085589 AGATAAGATCTGTATTCTTCAACCTATCCCATTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* * ** * *
23085654 TTTGTTTCCCTACTCCTGGGGAAAATAAGATTTTCCGCCTTCTATCTGCTCCACTGTTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
*
23085719 GAGATAAGATCTGTAATCTTTAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
131 GAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
* *
23085784 ATCTGTTTCCTTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
196 ATCTATTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
23085849 G
261 G
** *
23085850 AGATAAGATTTGTAATCTTCAACCTATCCCACTGCTGACCAAGGAGATAGGA-TAGTGGCTTAAA
1 AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
* * * *
23085914 TCTGTTTCCCTACTCTTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
66 TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
*
23085979 GAGACAA-ATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
131 GAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
* * * * *
23086043 ATCTATTTTCCTACTCCTGGGGAAGATAAGATTCACCG-CTTAGATCTGCTTCC-CTACT-CCT-
196 ATCTATTTCCCTACTCCT-GGGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCACTATTGCTTA
23086104 GGG
259 GGG
**
23086107 AAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGCTATAGGACTAGTGGCTTA
1 --AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTA
* * * *
23086172 AATTTGTTTCCCTACTCCTAGGGAAGATAAGATCCGCCG-CTTAGATCT
64 AATCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCT
23086220 ACTTCCCTAC
Statistics
Matches: 576, Mismatches: 50, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
257 3 0.01
258 2 0.00
259 140 0.24
260 140 0.24
261 291 0.51
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (261 bp):
AGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAA
TCTGTTTCCCTACTCCTAGGGAAAATAAGATTCGCCGCCTTCGATCTGCTCCACTATTGCTTAGG
GAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAA
ATCTATTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGG
G
Found at i:23086228 original size:43 final size:43
Alignment explanation
Indices: 23086179--23086552 Score: 176
Period size: 43 Copynumber: 8.7 Consensus size: 43
23086169 TTAAATTTGT
*
23086179 TTCCCTACTCCTAGGGAAGATAAGATCCGCCGCTTAGATCTAC
1 TTCCCTACTCCTGGGGAAGATAAGATCCGCCGCTTAGATCTAC
* * * *
23086222 TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTGC
1 TTCCCTACTCCTGGGGAAGATAAGATCCGCCGCTTAGATCTAC
* *** *
23086265 TTCCCTACTCCTGGGGAGGATAAGATCCGTAATCTTCA-ACCTA-
1 TTCCCTACTCCTGGGGAAGATAAGATCCG-CCGCTT-AGATCTAC
* * * * ** * * **
23086308 TCCCACTACTGACC-AGGG-AGATAGGA-CTAGTGGCTTAAATTTGT
1 TTCC-CTACT--CCTGGGGAAGATAAGATC-CGCCGCTTAGATCTAC
* ** * *
23086352 TTCCCTACTCCTGGGGAAGATAAAATTTGCCGCTTAGATTTTC
1 TTCCCTACTCCTGGGGAAGATAAGATCCGCCGCTTAGATCTAC
* * *** *
23086395 TTCCCAACTCCTGGGGAAGATAAGATTCGTAACTTTA-ACCTA-
1 TTCCCTACTCCTGGGGAAGATAAGATCCGCCGC-TTAGATCTAC
* * * ** * * **
23086437 -TCCC-ACTGCTGACCAGGG-AGATAGGA-CTAGTGGCTTAAATTTGT
1 TTCCCTACTCCTG----GGGAAGATAAGATC-CGCCGCTTAGATCTAC
* *
23086481 TTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTAC
1 TTCCCTACTCCTGGGGAAGATAAGATCCGCCGCTTAGATCTAC
*
23086524 TTCCCTACTCTTGGGGAAGATAAGATCCG
1 TTCCCTACTCCTGGGGAAGATAAGATCCG
23086553 TAATCTTCAT
Statistics
Matches: 240, Mismatches: 68, Indels: 46
0.68 0.19 0.13
Matches are distributed among these distances:
40 6 0.03
41 6 0.03
42 10 0.04
43 175 0.73
44 27 0.11
45 8 0.03
46 8 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
TTCCCTACTCCTGGGGAAGATAAGATCCGCCGCTTAGATCTAC
Found at i:23086252 original size:173 final size:173
Alignment explanation
Indices: 23086037--23086422 Score: 628
Period size: 173 Copynumber: 2.2 Consensus size: 173
23086027 AGGACTAGTG
* * *
23086037 GCTTAAATCTATTTTCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGCTTCCCTACTC
1 GCTTAGATCTACTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGCTTCCCTACTC
* **
23086102 CTGGGAAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGCTATAGGACTAGTG
66 CTGGGAAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTG
*
23086167 GCTTAAATTTGTTTCCCTACTCCTAGGGAAGATAAGATCCGCC
131 GCTTAAATTTGTTTCCCTACTCCTAGGGAAGATAAAATCCGCC
*
23086210 GCTTAGATCTACTTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTGCTTCCCTACTC
1 GCTTAGATCTACTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGCTTCCCTACTC
* *
23086275 CTGGGGAGGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTG
66 CTGGGAAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTG
* **
23086340 GCTTAAATTTGTTTCCCTACTCCTGGGGAAGATAAAATTTGCC
131 GCTTAAATTTGTTTCCCTACTCCTAGGGAAGATAAAATCCGCC
* * *
23086383 GCTTAGATTTTCTTCCCAACTCCTGGGGAAGATAAGATTC
1 GCTTAGATCTACTTCCCTACTCCTGGGGAAGATAAGATTC
23086423 GTAACTTTAA
Statistics
Matches: 196, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
173 196 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (173 bp):
GCTTAGATCTACTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGCTTCCCTACTC
CTGGGAAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTG
GCTTAAATTTGTTTCCCTACTCCTAGGGAAGATAAAATCCGCC
Found at i:23086359 original size:87 final size:87
Alignment explanation
Indices: 23086092--23086374 Score: 299
Period size: 87 Copynumber: 3.3 Consensus size: 87
23086082 TTAGATCTGC
* * **
23086092 TTCCCTACTCCTGGGAAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGCTAT
1 TTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGAT
23086157 AGGACTAGTGGCTTAAATTTGT
66 AGGACTAGTGGCTTAAATTTGT
* *** * * *
23086179 TTCCCTACTCCTAGGGAAGATAAGATCCG-CCGCTT-AGATCTACTTCC-CTACT--CCTGGGGA
1 TTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCA-ACCTA-TCCCACTACTGACC-AGGG-
** * ** * * *
23086239 AGATAAAATTCA-CCGCTTAGATCTGC
62 AGATAGGACT-AGTGGCTTAAATTTGT
*
23086265 TTCCCTACTCCTGGGGAGGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGAT
1 TTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGAT
23086330 AGGACTAGTGGCTTAAATTTGT
66 AGGACTAGTGGCTTAAATTTGT
23086352 TTCCCTACTCCTGGGGAAGATAA
1 TTCCCTACTCCTGGGGAAGATAA
23086375 AATTTGCCGC
Statistics
Matches: 149, Mismatches: 36, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
84 2 0.01
85 4 0.03
86 56 0.38
87 81 0.54
88 4 0.03
89 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
TTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGAT
AGGACTAGTGGCTTAAATTTGT
Found at i:23086498 original size:129 final size:130
Alignment explanation
Indices: 23086222--23086561 Score: 565
Period size: 129 Copynumber: 2.6 Consensus size: 130
23086212 TTAGATCTAC
* *
23086222 TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTGCTTCCCTACTCCTGGGGAGGATA
1 TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTACTTCCCTACTCCTGGGGAAGATA
23086287 AGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTGGCTTAAATTTGT
66 AGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTGGCTTAAATTTGT
** * * *
23086352 TTCCCTACTCCTGGGGAAGATAAAATTTGCCGCTTAGATTTTCTTCCCAACTCCTGGGGAAGATA
1 TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTACTTCCCTACTCCTGGGGAAGATA
* * *
23086417 AGATTCGTAA-CTTTAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATTTGT
66 AGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTGGCTTAAATTTGT
* *
23086481 TTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTACTTCCCTACTCTTGGGGAAGATA
1 TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTACTTCCCTACTCCTGGGGAAGATA
23086546 AGATCCGTAATCTTCA
66 AGATCCGTAATCTTCA
23086562 TTGATCTGTT
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
129 119 0.62
130 72 0.38
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
TTCCCTACTCCTGGGGAAGATAAAATTCACCGCTTAGATCTACTTCCCTACTCCTGGGGAAGATA
AGATCCGTAATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTAGTGGCTTAAATTTGT
Found at i:23087827 original size:13 final size:13
Alignment explanation
Indices: 23087811--23087840 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23087801 CATTTTTACT
*
23087811 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
23087824 TTTTCCATTTTCA
1 TTTTCCATTTTCA
23087837 TTTT
1 TTTT
23087841 TCAATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:23087849 original size:8 final size:7
Alignment explanation
Indices: 23087801--23087850 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
23087791 TTAGCCTCTC
23087801 CATTTTT
1 CATTTTT
23087808 -ACTTTTT
1 CA-TTTTT
*
23087815 CCTTTTT
1 CATTTTT
*
23087822 CATTTTC
1 CATTTTT
23087829 CA-TTTT
1 CATTTTT
23087835 CATTTTT
1 CATTTTT
23087842 CAATTTTT
1 C-ATTTTT
23087850 C
1 C
23087851 GCACATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
6 6 0.17
7 22 0.63
8 7 0.20
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:23088755 original size:7 final size:7
Alignment explanation
Indices: 23088743--23088807 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
23088733 TCCATCTAGA
23088743 TTTTTTC
1 TTTTTTC
23088750 TTTTTTC
1 TTTTTTC
23088757 TTCTTTTC
1 TT-TTTTC
*
23088765 TTCTTTC
1 TTTTTTC
23088772 TTTTTCTC
1 TTTTT-TC
23088780 TAATTTTT-
1 T--TTTTTC
*
23088788 TATTTTTA
1 T-TTTTTC
*
23088796 TTTTTTA
1 TTTTTTC
23088803 TTTTT
1 TTTTT
23088808 ATTTTGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 34 0.67
8 12 0.24
9 1 0.02
10 4 0.08
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:23088806 original size:19 final size:19
Alignment explanation
Indices: 23088784--23088820 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23088774 TTTCTCTAAT
*
23088784 TTTTTATTTTTATTTTTTA
1 TTTTTATTTTGATTTTTTA
23088803 TTTTTATTTTGATTTTTT
1 TTTTTATTTTGATTTTTT
23088821 TTGAAAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTATTTTGATTTTTTA
Found at i:23088819 original size:7 final size:6
Alignment explanation
Indices: 23088784--23088819 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
23088774 TTTCTCTAAT
*
23088784 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTGA TTTTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
23088820 TTTGAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:23088820 original size:13 final size:13
Alignment explanation
Indices: 23088782--23088812 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
23088772 TTTTTCTCTA
23088782 ATTTTTTATTTTT
1 ATTTTTTATTTTT
23088795 ATTTTTTATTTTT
1 ATTTTTTATTTTT
23088808 ATTTT
1 ATTTT
23088813 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:23094847 original size:16 final size:17
Alignment explanation
Indices: 23094813--23094847 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23094803 TCTTTCCTTG
*
23094813 ATTTTTTGTATCCTCGA
1 ATTTTTTGTATACTCGA
23094830 ATTTTTTGTATACT-GA
1 ATTTTTTGTATACTCGA
23094846 AT
1 AT
23094848 GCGTAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (17 bp):
ATTTTTTGTATACTCGA
Found at i:23109154 original size:28 final size:28
Alignment explanation
Indices: 23109110--23109205 Score: 140
Period size: 28 Copynumber: 3.4 Consensus size: 28
23109100 CCTATGCAGT
23109110 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
23109137 AACAGTAACAATGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* *
23109165 TACAGTAATAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
23109193 TACAGTAATCAGT
1 AACAGTAA-CAGT
23109206 ATAGTGCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 6 0.10
28 53 0.85
29 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
AACAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:23109652 original size:27 final size:27
Alignment explanation
Indices: 23109621--23109770 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
23109611 GGGTTGGGGC
23109621 TATTTCGGTCATTTTACCCTCTGAAGG
1 TATTTCGGTCATTTTACCCTCTGAAGG
23109648 TATTTCGGTCATTTTACCCTCT-AAGGG
1 TATTTCGGTCATTTTACCCTCTGAA-GG
* *
23109675 TATTTCAGTCATTTTACCCTCCG-AGG
1 TATTTCGGTCATTTTACCCTCTGAAGG
* * *
23109701 CTATTTCGGTCATTTTAGCCTTTGAGGG
1 -TATTTCGGTCATTTTACCCTCTGAAGG
* **
23109729 TATTTCGGTCATTTTACCCTCCGGGGG
1 TATTTCGGTCATTTTACCCTCTGAAGG
*
23109756 TATTTTGGTCATTTT
1 TATTTCGGTCATTTT
23109771 CCCACGATTC
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.04
27 101 0.94
28 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (27 bp):
TATTTCGGTCATTTTACCCTCTGAAGG
Found at i:23109691 original size:54 final size:53
Alignment explanation
Indices: 23109621--23109770 Score: 210
Period size: 54 Copynumber: 2.8 Consensus size: 53
23109611 GGGTTGGGGC
*
23109621 TATTTCGGTCATTTTACCCTCTGAAGGTATTTCGGTCATTTTACCCTCTAAGGG
1 TATTTCGGTCATTTTACCCTCCG-AGGTATTTCGGTCATTTTACCCTCTAAGGG
* * * *
23109675 TATTTCAGTCATTTTACCCTCCGAGGCTATTTCGGTCATTTTAGCCTTTGAGGG
1 TATTTCGGTCATTTTACCCTCCGAGG-TATTTCGGTCATTTTACCCTCTAAGGG
* *
23109729 TATTTCGGTCATTTTACCCTCCGGGGGTATTTTGGTCATTTT
1 TATTTCGGTCATTTTACCCTCC-GAGGTATTTCGGTCATTTT
23109771 CCCACGATTC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.03
54 80 0.93
55 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (53 bp):
TATTTCGGTCATTTTACCCTCCGAGGTATTTCGGTCATTTTACCCTCTAAGGG
Found at i:23109757 original size:81 final size:81
Alignment explanation
Indices: 23109618--23109770 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 81
23109608 TTTGGGTTGG
*
23109618 GGCTATTTCGGTCATTTTACCCTCTGAAGGTATTTCGGTCATTTTACCCTCTAAGGGTATTTCAG
1 GGCTATTTCGGTCATTTTACCCTCTGAAGGTATTTCGGTCATTTTACCCTCCAAGGGTATTTCAG
23109683 TCATTTTACCCTCCGA
66 TCATTTTACCCTCCGA
* * * ** **
23109699 GGCTATTTCGGTCATTTTAGCCTTTGAGGGTATTTCGGTCATTTTACCCTCCGGGGGTATTTTGG
1 GGCTATTTCGGTCATTTTACCCTCTGAAGGTATTTCGGTCATTTTACCCTCCAAGGGTATTTCAG
23109764 TCATTTT
66 TCATTTT
23109771 CCCACGATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.42
Consensus pattern (81 bp):
GGCTATTTCGGTCATTTTACCCTCTGAAGGTATTTCGGTCATTTTACCCTCCAAGGGTATTTCAG
TCATTTTACCCTCCGA
Found at i:23110488 original size:20 final size:21
Alignment explanation
Indices: 23110449--23110490 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
23110439 GCACTGGAAT
*
23110449 GTAGAGGAGAAGAAGAGAAAA
1 GTAGAGAAGAAGAAGAGAAAA
*
23110470 GTAGAGAAG-AGAAGCGAAAA
1 GTAGAGAAGAAGAAGAGAAAA
23110490 G
1 G
23110491 AGAAGGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.38, T:0.05
Consensus pattern (21 bp):
GTAGAGAAGAAGAAGAGAAAA
Found at i:23116781 original size:28 final size:28
Alignment explanation
Indices: 23116741--23116860 Score: 186
Period size: 28 Copynumber: 4.2 Consensus size: 28
23116731 GTAACAGTAT
* *
23116741 AGTGTGGGTCTTAGCCCAAAACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
23116769 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
23116797 AGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
23116825 AGTGTGGGCCTTAGCCCAATACAGTAACC
1 AGTGTGGGCCTTAGCCCAATACAGTAA-C
23116854 AGTGTGG
1 AGTGTGG
23116861 TGCAATAATG
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 78 0.92
29 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:23117226 original size:27 final size:26
Alignment explanation
Indices: 23117194--23117432 Score: 180
Period size: 27 Copynumber: 8.9 Consensus size: 26
23117184 TCATCTCCTA
23117194 GGGGTATAAT-AGTCATTTTACCCTATT
1 GGGGTAT-ATCAGTCATTTTACCCT-TT
* *
23117221 GTGGTATTTCAGTCATTTTACCCTTT
1 GGGGTATATCAGTCATTTTACCCTTT
* * *
23117247 GGGGTATTTC-GATTATTTTACCCTCT
1 GGGGTATATCAG-TCATTTTACCCTTT
* **
23117273 GAGGGTATTTCTA-TCATTTTACCCTCCA
1 G-GGGTATATC-AGTCATTTTACCCT-TT
*
23117301 GGGGTATTTC-GATCATTTTACCCTTT
1 GGGGTATATCAG-TCATTTTACCCTTT
* * * *
23117327 AGAGGTATTTCAGTCATTTTATCCTCT
1 -GGGGTATATCAGTCATTTTACCCTTT
*
23117354 GAGGGTATTTCAGTCATTTTACCCTTT
1 G-GGGTATATCAGTCATTTTACCCTTT
* *
23117381 AGGGGTATTTCGGTCATTTTACCCTTT
1 -GGGGTATATCAGTCATTTTACCCTTT
* * *
23117408 AAGGGTATTTCGGTCATTTTACCCT
1 -GGGGTATATCAGTCATTTTACCCT
23117433 CCGGGATATT
Statistics
Matches: 183, Mismatches: 17, Indels: 24
0.82 0.08 0.11
Matches are distributed among these distances:
25 1 0.01
26 26 0.14
27 152 0.83
28 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (26 bp):
GGGGTATATCAGTCATTTTACCCTTT
Found at i:23117323 original size:54 final size:52
Alignment explanation
Indices: 23117206--23117432 Score: 235
Period size: 54 Copynumber: 4.2 Consensus size: 52
23117196 GGTATAATAG
* **
23117206 TCATTTTACCCTATTG-TGGTATTTCAGTCATTTTACCCTTTGGGGTATTTCGA
1 TCATTTTACCC--TTGAGGGTATTTCAGTCATTTTACCCTCAGGGGTATTTCGA
*
23117259 TTATTTTACCCTCTGAGGGTATTTCTA-TCATTTTACCCTCCAGGGGTATTTCGA
1 TCATTTTACCCT-TGAGGGTATTTC-AGTCATTTTACCCT-CAGGGGTATTTCGA
* * *
23117313 TCATTTTACCCTTTAGAGGTATTTCAGTCATTTTATCCTCTGAGGGTATTTC-A
1 TCATTTTACCCTTGAG-GGTATTTCAGTCATTTTACCCTCAG-GGGTATTTCGA
* * * * *
23117366 GTCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCGG
1 -TCATTTTACCCTTGA-GGGTATTTCAGTCATTTTACCC-TCAGGGGTATTTCGA
23117421 TCATTTTACCCT
1 TCATTTTACCCT
23117433 CCGGGATATT
Statistics
Matches: 149, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
51 1 0.01
52 2 0.01
53 37 0.25
54 107 0.72
55 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (52 bp):
TCATTTTACCCTTGAGGGTATTTCAGTCATTTTACCCTCAGGGGTATTTCGA
Found at i:23117371 original size:81 final size:81
Alignment explanation
Indices: 23117203--23117433 Score: 301
Period size: 81 Copynumber: 2.9 Consensus size: 81
23117193 AGGGGTATAA
* * * *
23117203 TAGTCATTTTACCCTATTGTGGTATTTC-AGTCATTTTACCCTTT-GGGGTATTTCGATTATTTT
1 TAGTCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCTTTAGAGGTATTTCG-TCATTTT
23117266 ACCCTCTGAGGGTATTTC
64 ACCCTCTGAGGGTATTTC
**
23117284 TA-TCATTTTACCCTCCAGGGGTATTTCGATCATTTTACCCTTTAGAGGTATTTCAGTCATTTTA
1 TAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTTTAGAGGTATTTC-GTCATTTTA
*
23117348 TCCTCTGAGGGTATTTC
65 CCCTCTGAGGGTATTTC
* *
23117365 -AGTCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCCTTTA-AGGGTATTTCGGTCATTTT
1 TAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTTTAGA-GGTATTTC-GTCATTTT
23117428 ACCCTC
64 ACCCTC
23117434 CGGGATATTT
Statistics
Matches: 133, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
80 37 0.28
81 95 0.71
82 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (81 bp):
TAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTTTAGAGGTATTTCGTCATTTTAC
CCTCTGAGGGTATTTC
Found at i:23125952 original size:35 final size:35
Alignment explanation
Indices: 23125911--23126070 Score: 169
Period size: 35 Copynumber: 4.6 Consensus size: 35
23125901 CTCTTTATTT
* * *
23125911 TGGTGTGTTTCGGTTTGACTAGCTCTTATGAGCAC
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCAC
* * *
23125946 TAGTGTGTTTCGGAGGGATTAGCTCTTATGAGCAT
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCAC
* * * *
23125981 TGGTGTGTTTCGAAGGGATTAGCTCTTACGAGCAT
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCAC
* * *
23126016 TGGTGTG-TTCGGTTGAATTGGCTCTTATGAGCATC
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA-C
* *
23126051 TGGTGTGTTTTGGTTGGATT
1 TGGTGTGTTTCGGATGGATT
23126071 GTCGATGTAC
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
34 20 0.19
35 75 0.71
36 10 0.10
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (35 bp):
TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCAC
Found at i:23126070 original size:70 final size:70
Alignment explanation
Indices: 23125910--23126070 Score: 189
Period size: 70 Copynumber: 2.3 Consensus size: 70
23125900 ACTCTTTATT
* * * *
23125910 TTGGTGTGTTTCGGTTTGACTAGCTCTTATGAGCACTAGTGTGTTTCGGAGGGATTAGCTCTTAT
1 TTGGTGTGTTTCGGTTGGATTAGCTCTTACGAGCACTAGTGTGTTTCGGAGGAATTAGCTCTTAT
23125975 GAGCA
66 GAGCA
*** * * ** *
23125980 TTGGTGTGTTTCGAAGGGATTAGCTCTTACGAGCATTGGTGTG-TTCGGTTGAATTGGCTCTTAT
1 TTGGTGTGTTTCGGTTGGATTAGCTCTTACGAGCACTAGTGTGTTTCGGAGGAATTAGCTCTTAT
23126044 GAGCA
66 GAGCA
*
23126049 TCTGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTCGGTTGGATT
23126071 GTCGATGTAC
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
69 23 0.31
70 51 0.69
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (70 bp):
TTGGTGTGTTTCGGTTGGATTAGCTCTTACGAGCACTAGTGTGTTTCGGAGGAATTAGCTCTTAT
GAGCA
Found at i:23129789 original size:23 final size:23
Alignment explanation
Indices: 23129741--23129789 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
23129731 TTGTTAAGAT
*
23129741 TAATATTAAAAAATTTATATTTA
1 TAATATTAAAAAATTTATATTAA
* *
23129764 TAATATTATAACATTTAT-TATAA
1 TAATATTAAAAAATTTATAT-TAA
23129787 TAA
1 TAA
23129790 AATAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATTAAAAAATTTATATTAA
Found at i:23145802 original size:3 final size:3
Alignment explanation
Indices: 23145796--23145837 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
23145786 TCTCAATTAT
23145796 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23145838 ACATGCACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23149712 original size:14 final size:14
Alignment explanation
Indices: 23149693--23149731 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23149683 TGTTATATTG
23149693 TATTTGTATATATA
1 TATTTGTATATATA
* *
23149707 TATTTGTAAATATT
1 TATTTGTATATATA
*
23149721 TATTCGTATAT
1 TATTTGTATAT
23149732 GTTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:23153267 original size:106 final size:106
Alignment explanation
Indices: 23153082--23153292 Score: 422
Period size: 106 Copynumber: 2.0 Consensus size: 106
23153072 TGGTCATTAT
23153082 TTCCTGGACTATCATGGTTCAAAGCAAGCCACACTTCCTTGGCAAAAGCACAAAAACATAGGACA
1 TTCCTGGACTATCATGGTTCAAAGCAAGCCACACTTCCTTGGCAAAAGCACAAAAACATAGGACA
23153147 TGGTTCACATCTTCAGCAGCTTGATAGCATCTAGGACACAC
66 TGGTTCACATCTTCAGCAGCTTGATAGCATCTAGGACACAC
23153188 TTCCTGGACTATCATGGTTCAAAGCAAGCCACACTTCCTTGGCAAAAGCACAAAAACATAGGACA
1 TTCCTGGACTATCATGGTTCAAAGCAAGCCACACTTCCTTGGCAAAAGCACAAAAACATAGGACA
23153253 TGGTTCACATCTTCAGCAGCTTGATAGCATCTAGGACACA
66 TGGTTCACATCTTCAGCAGCTTGATAGCATCTAGGACACA
23153293 GAGGATCATT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCCTGGACTATCATGGTTCAAAGCAAGCCACACTTCCTTGGCAAAAGCACAAAAACATAGGACA
TGGTTCACATCTTCAGCAGCTTGATAGCATCTAGGACACAC
Found at i:23155603 original size:7 final size:7
Alignment explanation
Indices: 23155573--23155612 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
23155563 TCTAGTGTCC
*
23155573 AAGGTTT
1 AAGGTCT
23155580 AAGGTCT
1 AAGGTCT
*
23155587 AAAGTCT
1 AAGGTCT
23155594 AAGGTCT
1 AAGGTCT
*
23155601 AAGGTCC
1 AAGGTCT
23155608 AAGGT
1 AAGGT
23155613 TCAGGGTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (7 bp):
AAGGTCT
Found at i:23155653 original size:49 final size:49
Alignment explanation
Indices: 23155569--23155669 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 49
23155559 ATGGTCTAGT
* *
23155569 GTCCAAGGTTTAAGGTCTAAAGTCTAAGGTCTAAGGTCCAAGGTTCAGG
1 GTCCAAGGTTTAAGGCCTAAAGTCTAAGGTCTAAGGTCCAAGGTTCAAG
* * * * *
23155618 GTCCAAGGTTTAAGGCCT-AAGCTTTAGGGTTTAAGGTTCATGGTTCAAG
1 GTCCAAGGTTTAAGGCCTAAAG-TCTAAGGTCTAAGGTCCAAGGTTCAAG
23155667 GTC
1 GTC
23155670 TGAGGGCCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.07
49 41 0.93
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (49 bp):
GTCCAAGGTTTAAGGCCTAAAGTCTAAGGTCTAAGGTCCAAGGTTCAAG
Found at i:23155697 original size:7 final size:7
Alignment explanation
Indices: 23155687--23155721 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
23155677 CAAGTTTCAA
*
23155687 GGTCTAG
1 GGTCGAG
*
23155694 GGTCAAG
1 GGTCGAG
23155701 GGTCGAG
1 GGTCGAG
23155708 GGTCGAG
1 GGTCGAG
23155715 GGTCGAG
1 GGTCGAG
23155722 AGTTCAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.14, G:0.51, T:0.17
Consensus pattern (7 bp):
GGTCGAG
Found at i:23155700 original size:20 final size:21
Alignment explanation
Indices: 23155661--23155700 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23155651 AGGTTCATGG
23155661 TTCAAGGTCTGAGGGCCAAGT
1 TTCAAGGTCTGAGGGCCAAGT
*
23155682 TTCAAGGTCT-AGGGTCAAG
1 TTCAAGGTCTGAGGGCCAAG
23155701 GGTCGAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (21 bp):
TTCAAGGTCTGAGGGCCAAGT
Found at i:23155709 original size:14 final size:14
Alignment explanation
Indices: 23155683--23155721 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23155673 GGGCCAAGTT
*
23155683 TCAA-GGTCTAGGG
1 TCAAGGGTCGAGGG
23155696 TCAAGGGTCGAGGG
1 TCAAGGGTCGAGGG
*
23155710 TCGAGGGTCGAG
1 TCAAGGGTCGAG
23155722 AGTTCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.21, C:0.15, G:0.46, T:0.18
Consensus pattern (14 bp):
TCAAGGGTCGAGGG
Found at i:23164255 original size:28 final size:27
Alignment explanation
Indices: 23164210--23164355 Score: 127
Period size: 27 Copynumber: 5.4 Consensus size: 27
23164200 ACACAACAGT
*
23164210 AATGGAAAGTCTTTGTGGCGTATTCTG
1 AATGGAAAGCCTTTGTGGCGTATTCTG
* * *
23164237 AATGGAAAATCCTTTGTGGTGTATTCGG
1 AATGG-AAAGCCTTTGTGGCGTATTCTG
* * * * *
23164265 AATAGAAAGCTTTTATGGTGTATTCTA
1 AATGGAAAGCCTTTGTGGCGTATTCTG
* *
23164292 AATGGAAAGGCTTTGTGGCGTATT-TT
1 AATGGAAAGCCTTTGTGGCGTATTCTG
* * *
23164318 AA-AGAAAGCTTTTGTGGCATATT-TAG
1 AATGGAAAGCCTTTGTGGCGTATTCT-G
23164344 AATGGAAAGCCT
1 AATGGAAAGCCT
23164356 GTAATATCCC
Statistics
Matches: 93, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
25 18 0.19
26 5 0.05
27 48 0.52
28 22 0.24
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (27 bp):
AATGGAAAGCCTTTGTGGCGTATTCTG
Found at i:23165722 original size:17 final size:17
Alignment explanation
Indices: 23165700--23165770 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 17
23165690 TTGAGATGAA
23165700 AAGAAAGATTAATGATT
1 AAGAAAGATTAATGATT
23165717 AAG-AA-A-TAATG-TT
1 AAGAAAGATTAATGATT
** *
23165730 -CTAATGATTAATGATT
1 AAGAAAGATTAATGATT
23165746 AAGAAAGATTAATGATT
1 AAGAAAGATTAATGATT
23165763 AAGAAAGA
1 AAGAAAGA
23165771 ATGTTCTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 3 0.07
14 6 0.14
15 6 0.14
16 4 0.09
17 24 0.56
ACGTcount: A:0.52, C:0.01, G:0.17, T:0.30
Consensus pattern (17 bp):
AAGAAAGATTAATGATT
Found at i:23169453 original size:70 final size:70
Alignment explanation
Indices: 23169319--23169460 Score: 252
Period size: 70 Copynumber: 2.1 Consensus size: 70
23169309 TCAGGCCTCG
* *
23169319 ATTCTAATAGGTTCATGTAGTCATTTATATGCTTTTTTTTTTCCGAGTATTATAGATATGTATAT
1 ATTCTAATAGGTTCATGTAGTCATTTATATGCTTTTCTTTTTCCAAGTATTATAGATATGTATAT
23169384 ATAAA
66 ATAAA
23169389 ATTCTAATAGGTTCATGTAGTCATTTATATGC-TTTCTTTTT-CAAGTATTATAGATATGTATAT
1 ATTCTAATAGGTTCATGTAGTCATTTATATGCTTTTCTTTTTCCAAGTATTATAGATATGTATAT
23169452 ATAAA
66 ATAAA
23169457 ATTC
1 ATTC
23169461 CATATCATCA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
68 30 0.43
69 8 0.11
70 32 0.46
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (70 bp):
ATTCTAATAGGTTCATGTAGTCATTTATATGCTTTTCTTTTTCCAAGTATTATAGATATGTATAT
ATAAA
Found at i:23186783 original size:6 final size:6
Alignment explanation
Indices: 23186762--23186890 Score: 115
Period size: 6 Copynumber: 22.3 Consensus size: 6
23186752 AGTGCATAAT
23186762 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
** * * * * * * *
23186808 AAAGCA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
23186856 AAAA-C AAAA-A AAAATA AAAA-A AATATA AAACTA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
23186891 TGAAACCACT
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
5 22 0.19
6 91 0.81
ACGTcount: A:0.82, C:0.08, G:0.01, T:0.09
Consensus pattern (6 bp):
AAAATA
Found at i:23186787 original size:1 final size:1
Alignment explanation
Indices: 23186762--23186878 Score: 63
Period size: 1 Copynumber: 117.0 Consensus size: 1
23186752 AGTGCATAAT
* * * * * * * * ** * *
23186762 AAAATAAAATAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAAGCAAAAACAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
23186827 AAACAAAAACAAAAACAAAAACAAAAACAAAAACAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23186879 TATAAAACTA
Statistics
Matches: 79, Mismatches: 37, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.84, C:0.08, G:0.01, T:0.08
Consensus pattern (1 bp):
A
Found at i:23188199 original size:22 final size:21
Alignment explanation
Indices: 23188172--23188241 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
23188162 AGGCCACTTT
23188172 TTTTTTTCAAATATTTTCATTC
1 TTTTTTTCAAATATTTTC-TTC
** * *
23188194 TTTTTTTCCTATTTTTTCTTT
1 TTTTTTTCAAATATTTTCTTC
*
23188215 TTGTTTTTCAAA-ATTTTGTTC
1 TT-TTTTTCAAATATTTTCTTC
23188236 TTTTTT
1 TTTTTT
23188242 AAAATTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 4 0.11
21 12 0.32
22 22 0.58
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTTTTTCAAATATTTTCTTC
Found at i:23192126 original size:16 final size:17
Alignment explanation
Indices: 23192105--23192146 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
23192095 GAAAAGAAGC
*
23192105 AAAAAAAAG-TTCGAGT
1 AAAAAAAAGTTTCGAAT
23192121 AAAAAAAAGTTTCGAAT
1 AAAAAAAAGTTTCGAAT
23192138 ATAAAAAAA
1 A-AAAAAAA
23192147 AGTGTGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 7 0.30
18 7 0.30
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.19
Consensus pattern (17 bp):
AAAAAAAAGTTTCGAAT
Found at i:23192127 original size:17 final size:17
Alignment explanation
Indices: 23192105--23192149 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
23192095 GAAAAGAAGC
*
23192105 AAAAAAAAGTTCG-AGT
1 AAAAAAAAGTTCGAATT
23192121 AAAAAAAAGTTTCGAATAT
1 AAAAAAAAG-TTCGAAT-T
23192140 AAAAAAAAGT
1 AAAAAAAAGT
23192150 GTGCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 4 0.16
18 2 0.08
19 10 0.40
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.20
Consensus pattern (17 bp):
AAAAAAAAGTTCGAATT
Found at i:23192160 original size:19 final size:19
Alignment explanation
Indices: 23192120--23192165 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23192110 AAAGTTCGAG
* *
23192120 TAAAAAAAAGTTTCGAATA
1 TAAAAAAAAGTTGCGAAAA
23192139 TAAAAAAAAGTGTGC-AAAA
1 TAAAAAAAAGT-TGCGAAAA
23192158 TAAAAAAA
1 TAAAAAAA
23192166 TGAAATACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.11, T:0.20
Consensus pattern (19 bp):
TAAAAAAAAGTTGCGAAAA
Found at i:23193274 original size:14 final size:14
Alignment explanation
Indices: 23193245--23193306 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 14
23193235 GTGTTGTTGT
*
23193245 TGAAAAAGACACGAG
1 TGAAAAAGA-AAGAG
23193260 TGAAAAAGAAAGAGTG
1 TGAAAAAGAAAGA--G
*
23193276 CTTGAAAATGAAACGAG
1 --TGAAAAAGAAA-GAG
23193293 TGAAAAAGAAAGAG
1 TGAAAAAGAAAGAG
23193307 AGCTTGCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 6 0.15
15 19 0.49
16 1 0.03
17 1 0.03
18 10 0.26
19 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.11
Consensus pattern (14 bp):
TGAAAAAGAAAGAG
Found at i:23193281 original size:33 final size:33
Alignment explanation
Indices: 23193244--23193334 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
23193234 AGTGTTGTTG
* *
23193244 TTGAAAAAGACACGAGTGAAAAAGAAAGAGTGC
1 TTGAAAAAGAAACGAGTGAAAAAGAAAGAGAGC
*
23193277 TTGAAAATGAAACGAGTGAAAAAGAAAGAGAGC
1 TTGAAAAAGAAACGAGTGAAAAAGAAAGAGAGC
* **
23193310 TTGCATGAGAAACGAGTGAAGAAAG
1 TTGAAAAAGAAACGAGTGAA-AAAG
23193335 TAATCAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 46 0.92
34 4 0.08
ACGTcount: A:0.51, C:0.08, G:0.29, T:0.13
Consensus pattern (33 bp):
TTGAAAAAGAAACGAGTGAAAAAGAAAGAGAGC
Found at i:23199223 original size:27 final size:28
Alignment explanation
Indices: 23199174--23199228 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
23199164 ATGTATGGAT
*
23199174 AACATGAAGTCTTATGGTCAAAGTATGA
1 AACATGAAGTCTTATGGTCAAAGGATGA
*
23199202 AACATGAA-TCTTGA-GGTTAAAGGATGA
1 AACATGAAGTCTT-ATGGTCAAAGGATGA
23199229 TTGTGTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (28 bp):
AACATGAAGTCTTATGGTCAAAGGATGA
Found at i:23199515 original size:53 final size:53
Alignment explanation
Indices: 23199432--23199583 Score: 200
Period size: 53 Copynumber: 2.9 Consensus size: 53
23199422 GGCGCTAAAG
* * * *
23199432 GACCATA-CCTGTAAGACTGTAACTGATGGGTTGTGGGATCATATGGAAAGT-A
1 GACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAA-TAA
* * *
23199484 GACCATATCGTGTAAGACTGTAATTGGTGGGTTATGGCATCATATCGAAATAA
1 GACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAATAA
* *
23199537 GACCATATCATGTAAGACTATAACTGGTGGGTTATGGTATCATATGG
1 GACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGG
23199584 GAAAAAATTA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 8 0.09
53 79 0.91
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (53 bp):
GACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAATAA
Found at i:23200003 original size:28 final size:27
Alignment explanation
Indices: 23199851--23200021 Score: 103
Period size: 28 Copynumber: 6.0 Consensus size: 27
23199841 GTTAAAAGAT
* *
23199851 AGCCTTTGTGGCAAAACCCTAGAAAGGTA
1 AGCCTTTGTGGC-AAACTCT-GAAAGGAA
* * *
23199880 AGCCCTTATGGCAAAACTCTCAAAGGAA
1 AGCCTTTGTGGC-AAACTCTGAAAGGAA
* * * *
23199908 CGCCTGTGTGGCAAATCGCTAAAAGGAAA
1 AGCCTTTGTGGCAAA-CTCTGAAAGG-AA
* * * *
23199937 AGCCTTTGTTGCGATCTCTGTCAAAAGAA
1 AGCCTTTGTGGCAAACTCTG--AAAGGAA
23199966 AG-CTTCTGTGGCAAACTCTAGAAAGGAA
1 AGCCTT-TGTGGCAAACTCT-GAAAGGAA
*
23199994 ATCCTTTGTGG-AAATCTCTGTAAAGGAA
1 AGCCTTTGTGGCAAA-CTCTG-AAAGGAA
23200022 GCTTTCGTGG
Statistics
Matches: 109, Mismatches: 24, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
27 7 0.06
28 51 0.47
29 46 0.42
30 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
AGCCTTTGTGGCAAACTCTGAAAGGAA
Found at i:23209335 original size:2 final size:2
Alignment explanation
Indices: 23209328--23209361 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
23209318 AACCATTTTC
*
23209328 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23209362 ATCACTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:23210462 original size:41 final size:41
Alignment explanation
Indices: 23210391--23210497 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
23210381 CCTGATTCAA
* * * *
23210391 TTCACTGGCAATT-AGCCTGCTAGACTTAAAGTCTAAATTAT
1 TTCACCGGC-ATTAAGCCAGCTAGACATAAAGTCTAAATTAC
* *
23210432 TTCACCGGCATTAAGCCAGCTGGACATAAAGTCTGAATTAC
1 TTCACCGGCATTAAGCCAGCTAGACATAAAGTCTAAATTAC
* * *
23210473 ATCACCGGCCTTAAGCCTGCTAGAC
1 TTCACCGGCATTAAGCCAGCTAGAC
23210498 TTTAAGCCTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCAGCTAGACATAAAGTCTAAATTAC
Found at i:23210509 original size:41 final size:41
Alignment explanation
Indices: 23210404--23210509 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
23210394 ACTGGCAATT
* **
23210404 AGCCTGCTAGACTTAAAGTCTAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACTTAAAGTCTGAATTACATCACCGGCATTA
* * * *
23210445 AGCCAGCTGGACATAAAGTCTGAATTACATCACCGGCCTTA
1 AGCCTGCTAGACTTAAAGTCTGAATTACATCACCGGCATTA
* *
23210486 AGCCTGCTAGACTTTAAGCCTGAA
1 AGCCTGCTAGACTTAAAGTCTGAA
23210510 AATTTCCATT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAATTACATCACCGGCATTA
Found at i:23210743 original size:34 final size:34
Alignment explanation
Indices: 23210700--23210768 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
23210690 TCAATACAAG
* *
23210700 AACTTTACATATATATATACACTTATTCAAAACT
1 AACTATACATATATATATACACGTATTCAAAACT
* * * *
23210734 AACTATACATGTATATTTATACGTATTCAATACT
1 AACTATACATATATATATACACGTATTCAAAACT
23210768 A
1 A
23210769 CCCATATAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (34 bp):
AACTATACATATATATATACACGTATTCAAAACT
Found at i:23212178 original size:13 final size:13
Alignment explanation
Indices: 23212160--23212184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23212150 TCAAACGATC
23212160 AAATTTTCACACG
1 AAATTTTCACACG
23212173 AAATTTTCACAC
1 AAATTTTCACAC
23212185 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23218436 original size:41 final size:41
Alignment explanation
Indices: 23218365--23218470 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
23218355 CCTGATTCAA
* * *
23218365 TTCACCGGCAATT-AGCCTGCTAGACTTAAAGTCTGAATTAT
1 TTCACCGGC-ATTAAGCCAGCTAGACATAAAGTCTGAATTAC
*
23218406 TTCACCGGCATTAAGCCAGCTGGACATAAAGTCTGAATTAC
1 TTCACCGGCATTAAGCCAGCTAGACATAAAGTCTGAATTAC
* * *
23218447 ATCACCGGCCTTAAGCCTGCTAGA
1 TTCACCGGCATTAAGCCAGCTAGA
23218471 TATACAATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCAGCTAGACATAAAGTCTGAATTAC
Found at i:23219456 original size:13 final size:13
Alignment explanation
Indices: 23219438--23219462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23219428 TCAAACGATT
23219438 AAATTTTCACACG
1 AAATTTTCACACG
23219451 AAATTTTCACAC
1 AAATTTTCACAC
23219463 ATACAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23220223 original size:27 final size:27
Alignment explanation
Indices: 23220185--23220359 Score: 189
Period size: 27 Copynumber: 6.5 Consensus size: 27
23220175 CTAGAAACTG
*
23220185 GAAGTCTTTGTGGCAATCTAT-AATATA
1 GAAGCCTTTGTGGCAATCTATGAA-ATA
*
23220212 GAAGCCTTTGTGGCAATCTATGAAGTA
1 GAAGCCTTTGTGGCAATCTATGAAATA
23220239 GAAGCCTTTGTGGCAAT-TATGAAAT-
1 GAAGCCTTTGTGGCAATCTATGAAATA
* * * *
23220264 GTAAGACTTTGTGACAATCTCTGAAATG
1 G-AAGCCTTTGTGGCAATCTATGAAATA
* * *
23220292 GAAACCTTTGTGGAAATCTATGATATTA
1 GAAGCCTTTGTGGCAATCTATGA-AATA
*
23220320 -AAGCCTTTGTGGAAATCTATGAAATTA
1 GAAGCCTTTGTGGCAATCTATGAAA-TA
23220347 -AAGCCTTTGTGGC
1 GAAGCCTTTGTGGC
23220360 GATATATGGA
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.01
26 22 0.17
27 98 0.78
28 5 0.04
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (27 bp):
GAAGCCTTTGTGGCAATCTATGAAATA
Found at i:23220324 original size:80 final size:81
Alignment explanation
Indices: 23220190--23220357 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 81
23220180 AACTGGAAGT
* * * *
23220190 CTTTGTGGCAATCTATAATATAGAAGCCTTTGTGGCAATCTATGAAGTAGAAGCCTTTGTGGCAA
1 CTTTGTGACAATCTATAATATAGAAACCTTTGTGGAAATCTATGAAGTAGAAGCCTTTGTGGAAA
23220255 T-TATGAAATGT-AAGA
66 TCTATGAAAT-TAAAGA
* * *
23220270 CTTTGTGACAATCTCTGAA-ATGGAAACCTTTGTGGAAATCTATGATATTA-AAGCCTTTGTGGA
1 CTTTGTGACAATCTAT-AATATAGAAACCTTTGTGGAAATCTATGA-AGTAGAAGCCTTTGTGGA
*
23220333 AATCTATGAAATTAAAGC
64 AATCTATGAAATTAAAGA
23220351 CTTTGTG
1 CTTTGTG
23220358 GCGATATATG
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
80 53 0.70
81 23 0.30
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (81 bp):
CTTTGTGACAATCTATAATATAGAAACCTTTGTGGAAATCTATGAAGTAGAAGCCTTTGTGGAAA
TCTATGAAATTAAAGA
Found at i:23220484 original size:27 final size:27
Alignment explanation
Indices: 23220454--23220521 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
23220444 ACCTTGAAGG
23220454 AGAAGAATGGTAAGTATGACCAACCCT
1 AGAAGAATGGTAAGTATGACCAACCCT
* * * * *
23220481 AGAAGAATGATATGTATGGCTAACTCT
1 AGAAGAATGGTAAGTATGACCAACCCT
*
23220508 -GAAGAATTGTAAGT
1 AGAAGAATGGTAAGT
23220522 GTGATAAACC
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.25
Consensus pattern (27 bp):
AGAAGAATGGTAAGTATGACCAACCCT
Found at i:23220542 original size:53 final size:53
Alignment explanation
Indices: 23220455--23220768 Score: 155
Period size: 54 Copynumber: 6.1 Consensus size: 53
23220445 CCTTGAAGGA
* * * *
23220455 GAAGAATGGTAAGTATGACCAACCCTAGAA-GAATGATATGTATGGCTAACTCT
1 GAAGAATTGTAAGTGTGA-CAAACCTTGAAGGAATGATATGTATGGCTAACTCT
* * *
23220508 GAAGAATTGTAAGTGTGATAAACCTTGAAGGAATGATATGTGTGGCGAACAT-T
1 GAAGAATTGTAAGTGTGACAAACCTTGAAGGAATGATATGTATGGCTAAC-TCT
* * * * * * *
23220561 GAAGGAATAGTACGTATGGCGAACTTTGAAGGAAT-AGTACGTATGGC-AAGCTCT
1 GAA-GAATTGTAAGTGTGACAAACCTTGAAGGAATGA-TATGTATGGCTAA-CTCT
* * *
23220615 GAAG-A----AACTGT-----TCC--GCAAGAAATG-TATGTATGGCTAACTCT
1 GAAGAATTGTAAGTGTGACAAACCTTG-AAGGAATGATATGTATGGCTAACTCT
* * *
23220656 GAAGAATTGTAAGTGTGACAAACCTCGAAGGAATGATATGTGTGGCAAACAT-T
1 GAAGAATTGTAAGTGTGACAAACCTTGAAGGAATGATATGTATGGCTAAC-TCT
* * * * * * *
23220709 GAAAGAATAGTACGTATGGCGAACTTTGAAGGAAT-AGTACGTATGGC-AAGCTCT
1 G-AAGAATTGTAAGTGTGACAAACCTTGAAGGAATGA-TATGTATGGCTAA-CTCT
23220763 GAAGAA
1 GAAGAA
23220769 AATGTTCTGT
Statistics
Matches: 197, Mismatches: 37, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
41 18 0.09
42 9 0.05
43 1 0.01
46 5 0.03
48 3 0.02
51 2 0.01
52 16 0.08
53 67 0.34
54 76 0.39
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (53 bp):
GAAGAATTGTAAGTGTGACAAACCTTGAAGGAATGATATGTATGGCTAACTCT
Found at i:23220562 original size:27 final size:27
Alignment explanation
Indices: 23220532--23220607 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
23220522 GTGATAAACC
* *
23220532 TTGAAGGAAT-GATATGTGTGGCGAACA
1 TTGAAGGAATAG-TACGTATGGCGAACA
*
23220559 TTGAAGGAATAGTACGTATGGCGAACT
1 TTGAAGGAATAGTACGTATGGCGAACA
23220586 TTGAAGGAATAGTACGTATGGC
1 TTGAAGGAATAGTACGTATGGC
23220608 AAGCTCTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (27 bp):
TTGAAGGAATAGTACGTATGGCGAACA
Found at i:23220617 original size:27 final size:27
Alignment explanation
Indices: 23220533--23220618 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
23220523 TGATAAACCT
* *
23220533 TGAAGGAAT-GATATGTGTGGCGAACAT-
1 TGAAGGAATAG-TACGTATGGCGAAC-TC
*
23220560 TGAAGGAATAGTACGTATGGCGAACTT
1 TGAAGGAATAGTACGTATGGCGAACTC
23220587 TGAAGGAATAGTACGTATGGC-AAGCTC
1 TGAAGGAATAGTACGTATGGCGAA-CTC
23220614 TGAAG
1 TGAAG
23220619 AAACTGTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (27 bp):
TGAAGGAATAGTACGTATGGCGAACTC
Found at i:23220728 original size:27 final size:27
Alignment explanation
Indices: 23220698--23220757 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
23220688 ATGATATGTG
23220698 TGGCAAACATTGAAAGAATAGTACGTA
1 TGGCAAACATTGAAAGAATAGTACGTA
* * *
23220725 TGGCGAACTTTGAAGGAATAGTACGTA
1 TGGCAAACATTGAAAGAATAGTACGTA
23220752 TGGCAA
1 TGGCAA
23220758 GCTCTGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (27 bp):
TGGCAAACATTGAAAGAATAGTACGTA
Found at i:23220751 original size:148 final size:148
Alignment explanation
Indices: 23220486--23220787 Score: 532
Period size: 148 Copynumber: 2.0 Consensus size: 148
23220476 ACCCTAGAAG
* *
23220486 AATGATATGTATGGCTAACTCTGAAGAATTGTAAGTGTGATAAACCTTGAAGGAATGATATGTGT
1 AATG-TATGTATGGCTAACTCTGAAGAATTGTAAGTGTGACAAACCTCGAAGGAATGATATGTGT
* *
23220551 GGCGAACATTGAAGGAATAGTACGTATGGCGAACTTTGAAGGAATAGTACGTATGGCAAGCTCTG
65 GGCAAACATTGAAAGAATAGTACGTATGGCGAACTTTGAAGGAATAGTACGTATGGCAAGCTCTG
*
23220616 AAGAAACTGTTCCGCAAGA
130 AAGAAAATGTTCCGCAAGA
23220635 AATGTATGTATGGCTAACTCTGAAGAATTGTAAGTGTGACAAACCTCGAAGGAATGATATGTGTG
1 AATGTATGTATGGCTAACTCTGAAGAATTGTAAGTGTGACAAACCTCGAAGGAATGATATGTGTG
23220700 GCAAACATTGAAAGAATAGTACGTATGGCGAACTTTGAAGGAATAGTACGTATGGCAAGCTCTGA
66 GCAAACATTGAAAGAATAGTACGTATGGCGAACTTTGAAGGAATAGTACGTATGGCAAGCTCTGA
* *
23220765 AGAAAATGTTCTGTAAGA
131 AGAAAATGTTCCGCAAGA
23220783 AATGT
1 AATGT
23220788 CGTGGCGTAT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
148 142 0.97
149 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (148 bp):
AATGTATGTATGGCTAACTCTGAAGAATTGTAAGTGTGACAAACCTCGAAGGAATGATATGTGTG
GCAAACATTGAAAGAATAGTACGTATGGCGAACTTTGAAGGAATAGTACGTATGGCAAGCTCTGA
AGAAAATGTTCCGCAAGA
Found at i:23220765 original size:27 final size:27
Alignment explanation
Indices: 23220708--23220766 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
23220698 TGGCAAACAT
* *
23220708 TGAAAGAATAGTACGTATGGCGAACTT
1 TGAAGGAATAGTACGTATGGCGAACTC
23220735 TGAAGGAATAGTACGTATGGC-AAGCTC
1 TGAAGGAATAGTACGTATGGCGAA-CTC
23220762 TGAAG
1 TGAAG
23220767 AAAATGTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (27 bp):
TGAAGGAATAGTACGTATGGCGAACTC
Found at i:23222862 original size:17 final size:16
Alignment explanation
Indices: 23222840--23222884 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
23222830 TAGAATCGAG
*
23222840 TTGAGAAAATTATTTAA
1 TTGAG-AAATTAATTAA
23222857 TTGAGAAATTAATTAA
1 TTGAGAAATTAATTAA
23222873 TT-A-AAATTAATT
1 TTGAGAAATTAATT
23222885 TATGATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 12 0.44
17 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTAATTAA
Found at i:23238388 original size:21 final size:21
Alignment explanation
Indices: 23238362--23238401 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23238352 TCAAACAACG
*
23238362 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
23238383 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
23238402 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:23238826 original size:19 final size:20
Alignment explanation
Indices: 23238783--23238848 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
23238773 AAAAATGCAA
*
23238783 ATTTTAGAACTTTTATAAA-T
1 ATTTT-GAACTTTTAAAAATT
23238803 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAACTTTTAAAAATT
* *
23238822 ATTTTGAATTTTTTAAAATT
1 ATTTTGAACTTTTAAAAATT
23238842 ATTTTGA
1 ATTTTGA
23238849 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.19
19 12 0.29
20 22 0.52
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTGAACTTTTAAAAATT
Found at i:23238856 original size:21 final size:20
Alignment explanation
Indices: 23238793--23238854 Score: 85
Period size: 19 Copynumber: 3.2 Consensus size: 20
23238783 ATTTTAGAAC
23238793 TTTTATAAA-TATTTTGAA-T
1 TTTTA-AAATTATTTTGAATT
*
23238812 TTTAAAAATTATTTTGAATT
1 TTTTAAAATTATTTTGAATT
23238832 TTTTAAAATTATTTTG-ATT
1 TTTTAAAATTATTTTGAATT
23238851 TTTT
1 TTTT
23238855 TTTTGTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.08
19 20 0.51
20 16 0.41
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTATTTTGAATT
Found at i:23238949 original size:9 final size:9
Alignment explanation
Indices: 23238935--23238983 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
23238925 TACTCATCTG
*
23238935 TTATTCAAA
1 TTATTCGAA
*
23238944 TTATTCGAG
1 TTATTCGAA
23238953 TTATTCGAA
1 TTATTCGAA
*
23238962 TTATTCGAG
1 TTATTCGAA
*
23238971 TTATTCAAA
1 TTATTCGAA
23238980 TTAT
1 TTAT
23238984 AAAAATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:23238957 original size:18 final size:18
Alignment explanation
Indices: 23238934--23238983 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
23238924 ATACTCATCT
23238934 GTTATTCAAATTATTCGA
1 GTTATTCAAATTATTCGA
*
23238952 GTTATTCGAATTATTCGA
1 GTTATTCAAATTATTCGA
23238970 GTTATTCAAATTAT
1 GTTATTCAAATTAT
23238984 AAAAATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (18 bp):
GTTATTCAAATTATTCGA
Found at i:23244171 original size:2 final size:2
Alignment explanation
Indices: 23244166--23244196 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23244156 AATATATACG
23244166 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23244197 GAGAATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23247123 original size:17 final size:18
Alignment explanation
Indices: 23247090--23247123 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23247080 TATTTAGACT
23247090 TTTATCCAACACTTATAG
1 TTTATCCAACACTTATAG
*
23247108 TTTATCTAAC-CTTATA
1 TTTATCCAACACTTATA
23247124 ACAACTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTATCCAACACTTATAG
Found at i:23257687 original size:26 final size:25
Alignment explanation
Indices: 23257658--23257709 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
23257648 AGTTGTATAA
*
23257658 AGAAAATTCTCTGAAGAGATTATTCT
1 AGAAAATT-TCTAAAGAGATTATTCT
* *
23257684 AGAAAATTTTTAAAGATATTATTCT
1 AGAAAATTTCTAAAGAGATTATTCT
23257709 A
1 A
23257710 TAGTATGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (25 bp):
AGAAAATTTCTAAAGAGATTATTCT
Found at i:23261140 original size:21 final size:22
Alignment explanation
Indices: 23261097--23261140 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23261087 TCTTATATAT
**
23261097 TTTTTAGAATTTCTTTTTGAAA
1 TTTTTAGAATTTCTTTTAAAAA
23261119 TTTTTAGAATTT-TTTTAAAAA
1 TTTTTAGAATTTCTTTTAAAAA
23261140 T
1 T
23261141 ATATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTTAGAATTTCTTTTAAAAA
Found at i:23264628 original size:22 final size:22
Alignment explanation
Indices: 23264602--23264655 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
23264592 AAAGACTTGA
*
23264602 GTTAAGTTTAAAGGAAAC-TCTT
1 GTTAAGTTAAAAGGAAACAT-TT
*
23264624 GTTAAGTTAAAAGGACACATTT
1 GTTAAGTTAAAAGGAAACATTT
23264646 GTTAAGTTAA
1 GTTAAGTTAA
23264656 GGGAGAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (22 bp):
GTTAAGTTAAAAGGAAACATTT
Found at i:23265645 original size:60 final size:59
Alignment explanation
Indices: 23265563--23265784 Score: 264
Period size: 60 Copynumber: 3.7 Consensus size: 59
23265553 AAAGGACATG
** *
23265563 CTTTGTGGTAAGTATTGAATGTAAAGGATACCTTTGTGGCAAAAATCTGGACAGGAAAGC
1 CTTTGTGGCGAGTACTGAATGTAAAGGATACCTTTGTGG-AAAAATCTGGACAGGAAAGC
* *** *
23265623 CTTTGTAGCGAGTACTGAATGTAAAGGATGTATTTGTGGAAAAAATCTGGACAAGAAAGC
1 CTTTGTGGCGAGTACTGAATGTAAAGGATACCTTTGTGG-AAAAATCTGGACAGGAAAGC
* * * ** *
23265683 CTTTGTGGTGAGAACTGAATGCAAAGGATGGCTTTGTGGAAAACCTCTGGACAGGAAAGC
1 CTTTGTGGCGAGTACTGAATGTAAAGGATACCTTTGTGGAAAA-ATCTGGACAGGAAAGC
* * *
23265743 CTTTGTGGCGACTACTGAATGAAAAGGACACCTTTGTGGAAA
1 CTTTGTGGCGAGTACTGAATGTAAAGGATACCTTTGTGGAAA
23265785 CCTCTGTTTA
Statistics
Matches: 137, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
59 4 0.03
60 133 0.97
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (59 bp):
CTTTGTGGCGAGTACTGAATGTAAAGGATACCTTTGTGGAAAAATCTGGACAGGAAAGC
Found at i:23265779 original size:120 final size:120
Alignment explanation
Indices: 23265563--23265784 Score: 302
Period size: 120 Copynumber: 1.9 Consensus size: 120
23265553 AAAGGACATG
* * *
23265563 CTTTGTGGTAAGTATTGAATGTAAAGGATACCTTTGTGGCAAAAATCTGGACAGGAAAGCCTTTG
1 CTTTGTGGTAAGAACTGAATGCAAAGGATACCTTTGTGGCAAAAATCTGGACAGGAAAGCCTTTG
* * ***
23265628 TAGCGAGTACTGAATGTAAAGGATGTATTTGTGGAAAAAATCTGGACAAGAAAGC
66 TAGCGACTACTGAATGAAAAGGACACATTTGTGGAAAAAATCTGGACAAGAAAGC
* ** *
23265683 CTTTGTGGTGAGAACTGAATGCAAAGGATGGCTTTGTGG-AAAACCTCTGGACAGGAAAGCCTTT
1 CTTTGTGGTAAGAACTGAATGCAAAGGATACCTTTGTGGCAAAA-ATCTGGACAGGAAAGCCTTT
* *
23265747 GTGGCGACTACTGAATGAAAAGGACACCTTTGTGGAAA
65 GTAGCGACTACTGAATGAAAAGGACACATTTGTGGAAA
23265785 CCTCTGTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 4 0.05
120 83 0.95
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (120 bp):
CTTTGTGGTAAGAACTGAATGCAAAGGATACCTTTGTGGCAAAAATCTGGACAGGAAAGCCTTTG
TAGCGACTACTGAATGAAAAGGACACATTTGTGGAAAAAATCTGGACAAGAAAGC
Found at i:23268867 original size:11 final size:11
Alignment explanation
Indices: 23268851--23268879 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23268841 AGGACAGGGG
23268851 ATTCTAAAGTT
1 ATTCTAAAGTT
23268862 ATTCTAAAGTT
1 ATTCTAAAGTT
23268873 ATTCTAA
1 ATTCTAA
23268880 CCATGTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (11 bp):
ATTCTAAAGTT
Found at i:23273921 original size:22 final size:21
Alignment explanation
Indices: 23273869--23273924 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
23273859 GCGACTTACA
* * *
23273869 AAATATACCAAAAAGGCTAGC
1 AAATATGCCATAAAGGCTAAC
23273890 AAA-ATGCCATAAAGGCTAAC
1 AAATATGCCATAAAGGCTAAC
23273910 AAACTATGCCATAAA
1 AAA-TATGCCATAAA
23273925 AGCAACATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.57
21 3 0.10
22 10 0.33
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.16
Consensus pattern (21 bp):
AAATATGCCATAAAGGCTAAC
Found at i:23277368 original size:50 final size:50
Alignment explanation
Indices: 23277288--23277528 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 50
23277278 ATTTGGGTAA
* * *
23277288 AGAGATCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
* *
23277338 AGAGGTCCCATGTAAGACTATATCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
** ** * * * * *
23277388 AGAGGTCCCCCGTAAGACCATGCCTGGGACATGGCATGGGCATCGATATA
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
23277438 AGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
23277487 AAAAATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCA
23277529 TGTTATTATC
Statistics
Matches: 157, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 117 0.75
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
Found at i:23277472 original size:100 final size:100
Alignment explanation
Indices: 23277299--23277479 Score: 245
Period size: 100 Copynumber: 1.8 Consensus size: 100
23277289 GAGATCCCAT
* ** * * ** * *
23277299 GTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCATGTAAGACTATATCTG
1 GTAAGACCATGCCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTA
*
23277364 GGACATGGCGTTGGCACCAAGATGAGAGGTCCCCC
66 GGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
* *
23277399 GTAAGACCATGCCTGGGACATGGCATGGGCATCGATATAAGAACTCCCATGTAAGACCATATCTA
1 GTAAGACCATGCCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTA
*
23277464 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
23277480 GTACAAGAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
100 68 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (100 bp):
GTAAGACCATGCCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTA
GGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
Found at i:23280104 original size:213 final size:213
Alignment explanation
Indices: 23279707--23280104 Score: 549
Period size: 213 Copynumber: 1.9 Consensus size: 213
23279697 GGCTCTTGCC
*
23279707 TATTTTACAACGATATTATTGAGGAATCTATTCTCATACATCATTACAAATTTTTTAATGGATTT
1 TATTTTACAACGATATTATTGAGGAATCTATTCTCATACATCATTACAAATTTTTTAATGGATTC
* *
23279772 GAAGATGGATGTAAATAAAAACTTCAAAATTTTAAAACGAAAACTTAATTTTTTGCATACTAAAT
66 GAAGATGAATGTAAATAAAAACTTCAAAATTTTAAAACGAAAACTTAATTTTTTGCAAACTAAAT
* ** *
23279837 TATTTTGAAGAGATTGTTGGAGAGAAAAATTACTCAAGAGAATTTTGGGAAAATTGAGACCTCTC
131 TATTTTGAAGAGATTGTTGGAGAGAAAAATTACTCAAAAGAATGCTGAGAAAATTGAGACCTCTC
23279902 TTATAGAGAGTTTTTCCA
196 TTATAGAGAGTTTTTCCA
*
23279920 TATTTTACATCGATATTATT-AGGGAATCTATTCTCATACATCATTAC-AATTTTTTGAATGG-T
1 TATTTTACAACGATATTATTGA-GGAATCTATTCTCATACATCATTACAAATTTTTT-AATGGAT
* * *
23279982 TACGAGGATTAATGTAAATAAAAACTT-AAAATTTTAAAAC-AGAAACTTATTCTTTTTTGCAAA
64 T-CGAAGATGAATGTAAATAAAAACTTCAAAATTTTAAAACGA-AAACTTA--ATTTTTTGCAAA
* * * *
23280045 TTAAATTCTTTT-AAGAGATTGTTGTAGA-AAAAATTTGCTCAAAAGAATGCTGAGAAAATT
125 CTAAATTATTTTGAAGAGATTGTTGGAGAGAAAAA-TTACTCAAAAGAATGCTGAGAAAATT
23280105 AAAATTTGTC
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
211 1 0.01
212 36 0.22
213 106 0.65
214 20 0.12
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (213 bp):
TATTTTACAACGATATTATTGAGGAATCTATTCTCATACATCATTACAAATTTTTTAATGGATTC
GAAGATGAATGTAAATAAAAACTTCAAAATTTTAAAACGAAAACTTAATTTTTTGCAAACTAAAT
TATTTTGAAGAGATTGTTGGAGAGAAAAATTACTCAAAAGAATGCTGAGAAAATTGAGACCTCTC
TTATAGAGAGTTTTTCCA
Found at i:23282236 original size:33 final size:34
Alignment explanation
Indices: 23282170--23282236 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
23282160 CAGTAGTCAT
*
23282170 GCAGTATCAGTCTGGGCCTGAGCCCTATACAGTA
1 GCAGTATCAGTCTGGGCCTGAGCCCTAAACAGTA
* *
23282204 GCAGTA-CAGTGTGGGCCTTAGCCC-AAAGCAGTA
1 GCAGTATCAGTCTGGGCCTGAGCCCTAAA-CAGTA
23282237 ACAATGTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 2 0.07
33 21 0.72
34 6 0.21
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.21
Consensus pattern (34 bp):
GCAGTATCAGTCTGGGCCTGAGCCCTAAACAGTA
Found at i:23282264 original size:28 final size:28
Alignment explanation
Indices: 23282205--23282322 Score: 141
Period size: 28 Copynumber: 4.2 Consensus size: 28
23282195 TATACAGTAG
23282205 CAGT-ACAGTGTGGGCCTTAGCCCAA-A
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
23282231 GCAGTAACAATGTAGGCCTTAGCCCAATA
1 -CAGTAACAGTGTGGGCCTTAGCCCAATA
* * * *
23282260 TAGTAATAGTGTGGGCCGTAGCCCAGTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
23282288 TAGTAATAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
23282316 CAGTAAC
1 CAGTAAC
23282323 CAGTACAGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 4 0.05
28 72 0.94
29 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:23282694 original size:27 final size:25
Alignment explanation
Indices: 23282641--23282714 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
23282631 ATCATAAGGC
*
23282641 TATAACGGTCATTTTATCTCCTAGGGG
1 TATAACAGTCATTTTA-C-CCTAGGGG
23282668 TATAACAGTCATTTTACCCTATTGGGG
1 TATAACAGTCATTTTACCCTA--GGGG
**
23282695 TATTTCAGTCATTTTACCCT
1 TATAACAGTCATTTTACCCT
23282715 TCGAGGGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 37 0.88
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (25 bp):
TATAACAGTCATTTTACCCTAGGGG
Found at i:23282726 original size:27 final size:27
Alignment explanation
Indices: 23282664--23283030 Score: 349
Period size: 27 Copynumber: 13.7 Consensus size: 27
23282654 TTATCTCCTA
** *
23282664 GGGGTATAACAGTCATTTTACCCTAT-T
1 GGGGTATTTCAGTCATTTTACCCT-TCG
23282691 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * * * *
23282718 AGGGCATTTTAGTGATTTTACCTTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
23282745 GGGGTATTTCAATCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
23282772 GGGGTATTTCGGTCA-TTT-CTCTCCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
23282797 GGGGTATTTCAATTATTTTACCC-TCTA
1 GGGGTATTTCAGTCATTTTACCCTTC-G
* *
23282824 GGGGTATTTCACTCATTTTACCC-TCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
23282850 GGGGTATTTC-GATCATTTTACCCTCCA
1 GGGGTATTTCAG-TCATTTTACCCTTCG
*
23282877 GGGGTATTTCAGTCATTTTACCCTCCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
23282904 AGGATACTTC-GATCATTTTACCC-TCTG
1 GGGGTATTTCAG-TCATTTTACCCTTC-G
*
23282931 GGGGTATTTCAGTCATTTTACCCTCCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
23282958 GGGGTATTTCAGTCACTTTACCCTCCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
23282985 GAGGTATTTC-GATCATTTTACCCTCCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
23283012 GGGGTATTTC-GATCATTTT
1 GGGGTATTTCAG-TCATTTT
23283031 CCCATGAATC
Statistics
Matches: 287, Mismatches: 41, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
25 17 0.06
26 33 0.11
27 234 0.82
28 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:23282787 original size:81 final size:81
Alignment explanation
Indices: 23282676--23283030 Score: 389
Period size: 81 Copynumber: 4.4 Consensus size: 81
23282666 GGTATAACAG
* * * * * *
23282676 TCATTTTACCCTAT-TGGGGTATTTCAGTCATTTTACCCTTCGAGGGCATTTTAGTGATTTTACC
1 TCATTTTACCCT-TCGGGGGTATTTCGGTCATTTTACCCTCCGAGGGTATTTCAGTCATTTTACC
* *
23282740 TTTCGGGGGTATTTCAA
65 CTCCGGGGGTATTTCAA
* * * *
23282757 TCATTTTACCCTTCGGGGGTATTTCGGTCA-TTT-CTCTCCGGGGGTATTTCAATTATTTTACCC
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTCCGAGGGTATTTCAGTCATTTTACCC
** *
23282820 TCTAGGGGTATTTCAC
66 TCCGGGGGTATTTCAA
* *
23282836 TCATTTTACCC-TCAGGGGTATTTCGATCATTTTACCCTCC-AGGGGTATTTCAGTCATTTTACC
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTCCGA-GGGTATTTCAGTCATTTTACC
* * * *
23282899 CTCCGAGGATACTTCGA
65 CTCCGGGGGTATTTCAA
* * *
23282916 TCATTTTACCC-TCTGGGGGTATTTCAGTCATTTTACCCTCCGGGGGTATTTCAGTCACTTTACC
1 TCATTTTACCCTTC-GGGGGTATTTCGGTCATTTTACCCTCCGAGGGTATTTCAGTCATTTTACC
* *
23282980 CTCCGGAGGTATTTCGA
65 CTCCGGGGGTATTTCAA
* *
23282997 TCATTTTACCCTCCGGGGGTATTTCGATCATTTT
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTT
23283031 CCCATGAATC
Statistics
Matches: 228, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
78 16 0.07
79 48 0.21
80 51 0.22
81 112 0.49
82 1 0.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (81 bp):
TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTCCGAGGGTATTTCAGTCATTTTACCC
TCCGGGGGTATTTCAA
Found at i:23289982 original size:33 final size:34
Alignment explanation
Indices: 23289931--23289997 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
23289921 CAGTAGTCAT
* *
23289931 GCAGTATCAGTCTGGGCCTGAGCCCTATACAGTA
1 GCAGTATCAGTCTGGGCCTGAGCCCAAAACAGTA
* *
23289965 GCAGTAT-AGTGTGGGCCTTAGCCCAAAACAGTA
1 GCAGTATCAGTCTGGGCCTGAGCCCAAAACAGTA
23289998 ACAATGTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (34 bp):
GCAGTATCAGTCTGGGCCTGAGCCCAAAACAGTA
Found at i:23290006 original size:28 final size:28
Alignment explanation
Indices: 23289972--23290083 Score: 161
Period size: 28 Copynumber: 4.0 Consensus size: 28
23289962 GTAGCAGTAT
*
23289972 AGTGTGGGCCTTAGCCCAAAACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
23290000 AATGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
23290028 AGTGTGGGCCTTAGCCCAGTACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
23290056 AGTGTGAGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
23290084 CAGTACAGTG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:23290287 original size:19 final size:19
Alignment explanation
Indices: 23290263--23290299 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23290253 AAGCCACCAG
23290263 TCAGTATACTTCCCCCATA
1 TCAGTATACTTCCCCCATA
23290282 TCAGTATACTTCCCCCAT
1 TCAGTATACTTCCCCCAT
23290300 GTCATGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.38, G:0.05, T:0.32
Consensus pattern (19 bp):
TCAGTATACTTCCCCCATA
Found at i:23290447 original size:27 final size:26
Alignment explanation
Indices: 23290427--23290703 Score: 220
Period size: 27 Copynumber: 10.3 Consensus size: 26
23290417 AGGGTATAAT
23290427 AGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCT-TGAGGGTATTTC
*
23290454 AGTCATTTTACCCTTCGGGGGTATTTC
1 AGTCATTTTACCCTT-GAGGGTATTTC
* * * *
23290481 GGTCGTTTTACCCTCTGAGGGTTTTTA
1 AGTCATTTTACCCT-TGAGGGTATTTC
* *
23290508 AGTTATTTTACCCTTCGAGGGTATTTT
1 AGTCATTTTACCCTT-GAGGGTATTTC
* *
23290535 GGTCATTTTACCCTCTGGGGGTATTTC
1 AGTCATTTTACCCT-TGAGGGTATTTC
* * *
23290562 GGTTATTTT-CCCTCTGGGGGTATTTC
1 AGTCATTTTACCCT-TGAGGGTATTTC
*
23290588 AGCCATTTTACCCTATTG-GGGTACTTT-
1 AGTCATTTTACCC--TTGAGGGTA-TTTC
* *
23290615 GGTCATTTTACCCTCTGGGGGTATTTC
1 AGTCATTTTACCCT-TGAGGGTATTTC
* * * *
23290642 GGTCATTTTATCCTTCAGGGGTACTTC
1 AGTCATTTTACCCTTGA-GGGTATTTC
* *
23290669 -GTTCATTTTACACTCCGAGGGTATTTC
1 AG-TCATTTTACCCT-TGAGGGTATTTC
23290696 AGTCATTT
1 AGTCATTT
23290704 GCCCACGAAT
Statistics
Matches: 205, Mismatches: 30, Indels: 30
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 32 0.16
27 162 0.79
28 9 0.04
29 1 0.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (26 bp):
AGTCATTTTACCCTTGAGGGTATTTC
Done.