Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 177 of 362
Found at i:58457216 original size:28 final size:28
Alignment explanation
Indices: 58457176--58457233 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
58457166 TGGATAAAAA
58457176 TTAAGTATATTTAAAATGTAAGTTGAGC
1 TTAAGTATATTTAAAATGTAAGTTGAGC
*
58457204 TTAAGTATATTTAAAATGTAAGTTGGGC
1 TTAAGTATATTTAAAATGTAAGTTGAGC
58457232 TT
1 TT
58457234 GGACTCTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.41
Consensus pattern (28 bp):
TTAAGTATATTTAAAATGTAAGTTGAGC
Found at i:58457312 original size:25 final size:22
Alignment explanation
Indices: 58457269--58457317 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
58457259 TGACACTACC
*
58457269 TTTTTATTTTATAATATGTTAT
1 TTTTTATTTTATAATATGTAAT
58457291 TTTTTATTTTTATATATTATGTAAT
1 TTTTTA-TTTTATA-A-TATGTAAT
58457316 TT
1 TT
58457318 ATATTGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 1 0.04
25 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTATTTTATAATATGTAAT
Found at i:58464053 original size:48 final size:48
Alignment explanation
Indices: 58463993--58464158 Score: 176
Period size: 48 Copynumber: 3.5 Consensus size: 48
58463983 AAGCTAACGC
* *
58463993 CATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * *
58464041 CATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * *
58464087 CATGTCCCAAACATGTCTTATACTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
58464135 CATGTCCCAGAC-GTGTCTTACACT
1 CATGTCCCAGACAG-GTCTTACACT
58464159 GGCTCTCATG
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 36 0.38
47 3 0.03
48 56 0.59
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:58464160 original size:48 final size:47
Alignment explanation
Indices: 58463993--58464207 Score: 206
Period size: 46 Copynumber: 4.6 Consensus size: 47
58463983 AAGCTAACGC
* * * *
58463993 CATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTATATCTCGAGGCTGATG
* * *
58464041 CATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATG-TCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTATATCTCGAGGCT-GATG
* * *
58464087 CATGTCCCAAACATGTCTTATACTGGCT-TAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT--ATATCTCGAGGCTGATG
* * * *
58464135 CATGTCCCAGACGTGTCTTACACTGGCTCTCAT-GCT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-ATATCTCGAGGCTGATG
* *
58464181 CATGTCCTAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
58464208 ACACATATCA
Statistics
Matches: 138, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.49
47 4 0.03
48 63 0.46
49 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTATATCTCGAGGCTGATG
Found at i:58464181 original size:94 final size:93
Alignment explanation
Indices: 58464024--58464200 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 93
58464014 ACTAGCTTGT
*
58464024 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGTCGATGCA
1 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCT-AATGGCGATGCA
58464089 TGTCCCAAACATGTCTTATACTGGCTTAA
65 TGTCCCAAACATGTCTTATACTGGCTTAA
* * * *
58464118 ATATCTCGAGGCTGATGCATGTCCCAGACGTGTCTTACACTGGCTCTCATG-CT-GTGGCTGATG
1 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT--TGTCTAATGGC-GATG
*
58464181 CATGTCCTAAACATGTCTTA
63 CATGTCCCAAACATGTCTTA
58464201 CACTAGCACA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
93 3 0.04
94 67 0.91
95 2 0.03
96 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (93 bp):
ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTAATGGCGATGCAT
GTCCCAAACATGTCTTATACTGGCTTAA
Found at i:58469944 original size:46 final size:47
Alignment explanation
Indices: 58469824--58469990 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 47
58469814 ATTGTGAGCT
* * * *
58469824 AGTGTAAGA-CATGTCTGGGACATGCATTAGCCAC-ATTATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGA-GATGTA-AGCC
* *
58469870 AGCGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCC
* * *
58469917 AGTGTAAGA-CATGTTTGGGACATGCATCAG-CTATGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGATGTAAGCC
58469961 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
58469991 GGCACAAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 39 0.38
47 36 0.35
48 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCC
Found at i:58477534 original size:47 final size:47
Alignment explanation
Indices: 58477460--58477631 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 47
58477450 GGGTTATTGT
58477460 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTGATGA
* * * *
58477506 GAGCTAGCGTAAGACCATGTCTGGGACATG--GTATCGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATTAGCCACATT--GATGA
* * * *
58477554 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA--GACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCAC-ATTGATG-A
58477601 -AG-TCAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCT-AGTGTAAGACATGTCTGGGACATGCAT
58477632 CGGCTATGAG
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 9 0.09
46 44 0.42
47 31 0.30
48 16 0.15
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTGATGA
Found at i:58477619 original size:46 final size:44
Alignment explanation
Indices: 58477559--58477671 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 44
58477549 GATGAGTGCT
58477559 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTACGAGACGT--GTC
* * *
58477605 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGTGTC
*
58477649 AGTGTAAGACCATGTCTAGGACA
1 AGTGTAAGA-CATGTCTGGGACA
58477672 CGACATCGGC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 12 0.20
45 15 0.25
46 34 0.56
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGTGTC
Found at i:58482954 original size:52 final size:52
Alignment explanation
Indices: 58482876--58483019 Score: 198
Period size: 52 Copynumber: 2.8 Consensus size: 52
58482866 TCTCTGACTT
* * * * *
58482876 AGGTCACACGGCCAGGTCATAAGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
1 AGGTCACACGACCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAA
* *
58482928 AGGTTACACGACCAAGCTATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAA
1 AGGTCACACGACCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAA
* * *
58482980 AGGTCACACGACCAAGCCATGCGCCCATGTGCTAGGCCGT
1 AGGTCACACGACCAAGCCATACGCCCGTGTGTTAGGCCGT
58483020 GTGATCAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.20
Consensus pattern (52 bp):
AGGTCACACGACCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAA
Found at i:58484264 original size:25 final size:26
Alignment explanation
Indices: 58484233--58484333 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 26
58484223 AGCGAACCAT
**
58484233 ATCAGGAAGCTTC-GGAGAGCCATTA
1 ATCAGGAAGCTTCAAAAGAGCCATTA
*
58484258 ATCAGGAAGC-TCATAAAGAGCCTTTA
1 ATCAGGAAGCTTCA-AAAGAGCCATTA
* *
58484284 ATCAGGAAGC-TCATAAAAAGCCTTTA
1 ATCAGGAAGCTTCA-AAAGAGCCATTA
*
58484310 ATCAGGAAGC-TCACGAAGAGCCAT
1 ATCAGGAAGCTTCA-AAAGAGCCAT
58484334 ATATCATGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.03
25 10 0.15
26 54 0.82
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
ATCAGGAAGCTTCAAAAGAGCCATTA
Found at i:58484284 original size:26 final size:26
Alignment explanation
Indices: 58484248--58484331 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
58484238 GAAGCTTCGG
*
58484248 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCTTTAATCAGGAAGCTCATAA
58484274 AGAGCCTTTAATCAGGAAGCTCATAA
1 AGAGCCTTTAATCAGGAAGCTCATAA
* **
58484300 AAAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCTTTAATCAGGAAGCTCATAA
58484326 AGAGCC
1 AGAGCC
58484332 ATATATCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (26 bp):
AGAGCCTTTAATCAGGAAGCTCATAA
Found at i:58485360 original size:13 final size:13
Alignment explanation
Indices: 58485342--58485369 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58485332 CTTTAGTTTA
58485342 TTATTTTTCATCT
1 TTATTTTTCATCT
58485355 TTATTTTTCATCT
1 TTATTTTTCATCT
58485368 TT
1 TT
58485370 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:58487347 original size:15 final size:15
Alignment explanation
Indices: 58487327--58487357 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58487317 TCTACAAGCA
58487327 GTGACATTTACAAAG
1 GTGACATTTACAAAG
*
58487342 GTGACATTTGCAAAG
1 GTGACATTTACAAAG
58487357 G
1 G
58487358 ACTTGGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
GTGACATTTACAAAG
Found at i:58488690 original size:5 final size:5
Alignment explanation
Indices: 58488680--58488708 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
58488670 AAATGTCTAA
58488680 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
58488709 TTAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:58497082 original size:31 final size:30
Alignment explanation
Indices: 58497021--58497082 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
58497011 ATTAATGACA
* *
58497021 AGTGACTAAAATGATAAAAGTTGTAACAAC
1 AGTGACTAAAATGATAAAAGATCTAACAAC
*
58497051 AGTGACTGAAATGATAAAAGCATCTAACAAC
1 AGTGACTAAAATGATAAAAG-ATCTAACAAC
58497082 A
1 A
58497083 TAGCCTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (30 bp):
AGTGACTAAAATGATAAAAGATCTAACAAC
Found at i:58497405 original size:16 final size:16
Alignment explanation
Indices: 58497384--58497427 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
58497374 GTTTTGTTTA
**
58497384 CTGTAATAGAATAGGG
1 CTGTAATAGAATAAAG
*
58497400 CTGTAATTGAATAAAG
1 CTGTAATAGAATAAAG
*
58497416 CTGTAATGGAAT
1 CTGTAATAGAAT
58497428 GGAATAGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
CTGTAATAGAATAAAG
Found at i:58497693 original size:58 final size:58
Alignment explanation
Indices: 58497565--58497699 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
58497555 TTGTTATTAA
* * * * *
58497565 ATTTTAATA-ACATTATTATTAAATATATTTTTATTAAAAAAATAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATATATTTAATAAAAAAATAAACAATTCAATAAT
* * *
58497623 ATTTTAACATAATTATTATTAAATATA-ATTTAATAAAATAATATACAATTCAATAAT
1 ATTTTAATATAATTATTATTAAATATATATTTAATAAAAAAATAAACAATTCAATAAT
58497680 ATTCTTAATATAATTATTAT
1 ATT-TTAATATAATTATTAT
58497700 ATGAATTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 26 0.39
58 39 0.59
59 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATATATTTAATAAAAAAATAAACAATTCAATAAT
Found at i:58503921 original size:15 final size:14
Alignment explanation
Indices: 58503896--58503925 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
58503886 AATTAAATTT
58503896 ATATATATATTAAA
1 ATATATATATTAAA
58503910 ATATACTATATTAAA
1 ATATA-TATATTAAA
58503925 A
1 A
58503926 GGTTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATATATTAAA
Found at i:58506874 original size:17 final size:19
Alignment explanation
Indices: 58506852--58506894 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
58506842 ATGGAAATAT
58506852 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
58506869 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
58506888 AATCTTA
1 AATCTTA
58506895 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:58506884 original size:19 final size:19
Alignment explanation
Indices: 58506860--58506896 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
58506850 ATAATCTTCA
58506860 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58506879 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
58506897 AGATATGATT
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:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:58506922 original size:22 final size:22
Alignment explanation
Indices: 58506860--58506919 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
58506850 ATAATCTTCA
58506860 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
58506879 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
58506901 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
58506920 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:58507209 original size:17 final size:18
Alignment explanation
Indices: 58507187--58507222 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
58507177 GTTTCCCTAA
*
58507187 ATTTTTTTATAT-ATTTT
1 ATTTTTTTAAATAATTTT
58507204 ATTTTTTTAAATAATTTT
1 ATTTTTTTAAATAATTTT
58507222 A
1 A
58507223 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAAATAATTTT
Found at i:58519038 original size:43 final size:42
Alignment explanation
Indices: 58518983--58519142 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 42
58518973 ATATCGTACA
* *
58518983 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCAAATATCG
58519026 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCAAATATCG
* * * * * *
58519067 ATGTCGATGTCCTAGACATGGTCTTACACGTAACCAAATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATC-AA-ATATCG
* *
58519112 ATGCCAACGTCCCAAATGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
58519143 GAACACATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 25 0.26
42 14 0.15
43 26 0.27
44 5 0.05
45 25 0.26
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCAAATATCG
Found at i:58519822 original size:24 final size:25
Alignment explanation
Indices: 58519790--58519836 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
58519780 AACTAGCATC
58519790 ACATAACTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
58519814 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
58519837 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:58520298 original size:14 final size:15
Alignment explanation
Indices: 58520281--58520309 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58520271 TCACGAAAAT
58520281 TTCACACAT-ATAAA
1 TTCACACATAATAAA
58520295 TTCACACATAATAAA
1 TTCACACATAATAAA
58520310 CACAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:58525570 original size:50 final size:50
Alignment explanation
Indices: 58525495--58525779 Score: 314
Period size: 50 Copynumber: 5.8 Consensus size: 50
58525485 TGATGCTAGG
*** * *
58525495 GAGATATGAGAGCTAGTGTAAGACCATGTCTATTATACGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
*
58525545 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
*
58525595 GAGATATGAGA-ATAG-GTAAGACCATGTCTGGGACATGGCATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC
* * * **
58525643 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGAAATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* * * * *
58525693 GATATACGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATC-GACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
** * * *
58525741 TTGATGTGA-A-CTAGTGTAAGACCATGTCCGGGGCATGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
58525780 GTCGGCACCT
Statistics
Matches: 204, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.13
47 1 0.00
48 43 0.21
49 10 0.05
50 123 0.60
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
Found at i:58525681 original size:98 final size:100
Alignment explanation
Indices: 58525495--58525736 Score: 310
Period size: 98 Copynumber: 2.4 Consensus size: 100
58525485 TGATGCTAGG
*** * * * *
58525495 GAGATATGAGAGCTAGTGTAAGACCATGTCTATTATACGGCATCAGCCTCGAGATATGAGAGCTA
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGATGAGAGCCA
** *
58525560 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
66 GTGTAAGACCATGTCTGGGACATGAAATCAGCCTC
* *
58525595 GAGATATGAGA-ATAG-GTAAGACCATGTCTGGGACATGGCATCAGCAC-CGATAGATGAGAGCC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGAGAGATGAGAGCC
58525657 AGTGTAAGACCATGTCTGGGACATGAAATCAGCCTC
65 AGTGTAAGACCATGTCTGGGACATGAAATCAGCCTC
* * * *
58525693 GATATACGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
58525737 GACTTTGATG
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
98 79 0.65
99 6 0.05
100 37 0.30
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (100 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGATGAGAGCCA
GTGTAAGACCATGTCTGGGACATGAAATCAGCCTC
Found at i:58533375 original size:45 final size:45
Alignment explanation
Indices: 58533324--58533497 Score: 192
Period size: 45 Copynumber: 3.8 Consensus size: 45
58533314 TTGGGTGACA
*
58533324 TGTGAGCCATTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
* *
58533369 TGTGAGCCAGTATAAGACCATGTTGGACATGGCATCGGCGTTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
* * * *
58533414 TGTGAGCTAGTGTAAGACCATGTCTGGGACATTGTATC-A-GCTTCGACA
1 TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGACG-TT-GA-T
*
58533462 TGTGAGCTAGTGTAAGA-CATGTCTAGGACATGGCAT
1 TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCAT
58533498 TGGCAATTCA
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 64 0.57
46 3 0.03
47 28 0.25
48 17 0.15
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
Found at i:58535219 original size:30 final size:30
Alignment explanation
Indices: 58535185--58535242 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
58535175 TTTCCGGGCA
* * *
58535185 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
58535215 TAGGGGCAAAATAGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
58535243 ATGTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:58535654 original size:47 final size:45
Alignment explanation
Indices: 58535582--58535888 Score: 239
Period size: 47 Copynumber: 6.6 Consensus size: 45
58535572 CGATTTGTGC
* *
58535582 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGATA
* **
58535628 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGATA
* * *
58535676 GCTC-GTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GC-CAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGATA
* * *
58535722 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATGA-TA
* ** * *
58535770 GCCAGTGTAAGACATGTCTGGGACGTGCATTAGCCTC-GATAGAGATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAT---GATA
** * * *
58535817 GCCAGTGTAAGATGTGTCTGGGACACGCATCGGCTA-AGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAT-A
*
58535861 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
58535889 CTGGGACATC
Statistics
Matches: 207, Mismatches: 36, Indels: 38
0.74 0.13 0.14
Matches are distributed among these distances:
43 3 0.01
44 27 0.13
45 2 0.01
46 37 0.18
47 90 0.43
48 42 0.20
49 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGATA
Found at i:58535747 original size:94 final size:92
Alignment explanation
Indices: 58535586--58535888 Score: 348
Period size: 94 Copynumber: 3.3 Consensus size: 92
58535576 TTGTGCGCCA
* * * *
58535586 GTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGG
* *
58535651 ACATGGCATCGGCATCCAGACGAGGGCTC
66 ACATGGCATCGGCAT-AAGA-GAGTGCTC
58535680 GTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGG
*
58535745 ACATGGCATCGACATAGAGATGAGTGC-C
66 ACATGGCATCGGCATA-AGA-GAGTGCTC
* * * * **
58535773 AGTGTAAGACATGTCTGGGACGTGCATTAGCC-T-CGATAGAGATGGCCAGTGTAAGA-TGTGTC
1 -GTGTAAGACATGTCTGGGACATGCATCAGCCATAC--TA-TGATAGCCAGTGTAAGACCATGTC
* *
58535835 TGGGACA-CGCATCGGC-TAAGAGATGTGCTA
62 TGGGACATGGCATCGGCATAAGAGA-GTGCTC
58535865 GTGTAAGACATGTCTGGGACATGC
1 GTGTAAGACATGTCTGGGACATGC
58535889 CTGGGACATC
Statistics
Matches: 184, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
90 2 0.01
91 30 0.16
92 3 0.02
93 9 0.05
94 125 0.68
95 15 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (92 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCATAAGAGAGTGCTC
Found at i:58541884 original size:5 final size:5
Alignment explanation
Indices: 58541858--58541896 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
58541848 AATCAAGTAG
* * *
58541858 ATAAA ACAAA ATAGA ATGAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
58541897 TTTTTGGGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:58543887 original size:35 final size:35
Alignment explanation
Indices: 58543848--58543948 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
58543838 TGTTTGGGTT
* *
58543848 GGACTAGCTCTGATGAGCATTAGTGTGTTTCGGAG
1 GGACTAGCTCTGATGAGCATTGGTGTGTTTCAGAG
* *
58543883 GGACTAGCTTTTATGAGCATTGGTGTGTTTCAGAG
1 GGACTAGCTCTGATGAGCATTGGTGTGTTTCAGAG
* *
58543918 GGATTGGCTCGTG-TGAGCATCTGGTGTGTTT
1 GGACTAGCTC-TGATGAGCAT-TGGTGTGTTT
58543949 TGGTTGGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 45 0.80
36 11 0.20
ACGTcount: A:0.17, C:0.13, G:0.35, T:0.36
Consensus pattern (35 bp):
GGACTAGCTCTGATGAGCATTGGTGTGTTTCAGAG
Found at i:58547687 original size:43 final size:43
Alignment explanation
Indices: 58547563--58547725 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
58547553 GAAAAGCTCG
*
58547563 TACAATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA
** * * * *
58547605 TATCGTTGCCACTGTCCTAGATAG-GGTCTTACAC-AAAATCAAA
1 TA-CAATGCCAATGTCCCAGA-CGTGGTCTTACACGTAAATCAAA
*
58547648 TACAATGCCAAGGTCCCAGACGTGGTCTTACACGTAAATCATAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AA
* * *
58547692 GT-CGATGCCAACGTCCTAGACGTGGTCTTACACG
1 -TACAATGCCAATGTCCCAGACGTGGTCTTACACG
58547726 ATAACACATA
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 38 0.39
44 32 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA
Found at i:58547713 original size:44 final size:42
Alignment explanation
Indices: 58547567--58547725 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 42
58547557 AGCTCGTACA
* *
58547567 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCG
* * * * *
58547610 TTGCC-ACTGTCCTAGATAG-GGTCTTACAC-AAAATCAAATACA
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAAT-CG
*
58547652 ATGCCAAGGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCG
*
58547696 ATGCCAACGTCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
58547726 ATAACACATA
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.03
42 25 0.27
43 31 0.34
44 32 0.35
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:58551455 original size:36 final size:36
Alignment explanation
Indices: 58551403--58551480 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
58551393 AAATGTCTAA
* * *
58551403 ATCTTTTACTCGCAACTGATAATAACTCAATCTCGG
1 ATCTATTACTCGCAACTAATAATAACCCAATCTCGG
*
58551439 ATCTATTACTCGCAACTAATAATAACCCGATCTCGG
1 ATCTATTACTCGCAACTAATAATAACCCAATCTCGG
58551475 ATCTAT
1 ATCTAT
58551481 CTTTGAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (36 bp):
ATCTATTACTCGCAACTAATAATAACCCAATCTCGG
Found at i:58553855 original size:79 final size:81
Alignment explanation
Indices: 58553746--58553928 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
58553736 TACTCGTTCA
* *
58553746 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
58553809 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
58553826 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
58553889 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
58553905 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58553929 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:58553928 original size:40 final size:40
Alignment explanation
Indices: 58553725--58553928 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
58553715 CAGAATTTAA
** *
58553725 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58553765 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58553805 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58553844 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
58553884 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58553924 CCGGA
1 CCGGA
58553929 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58558864 original size:79 final size:81
Alignment explanation
Indices: 58558751--58558933 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
58558741 TACTCGTTCA
* *
58558751 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
58558814 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
58558831 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
58558894 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
58558910 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58558934 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:58558933 original size:40 final size:40
Alignment explanation
Indices: 58558730--58558933 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
58558720 TCGAATTTAA
** *
58558730 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58558770 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58558810 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58558849 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58558889 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58558929 CCGGA
1 CCGGA
58558934 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58566950 original size:79 final size:81
Alignment explanation
Indices: 58566841--58567023 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
58566831 TACTCGTTCA
* *
58566841 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
58566904 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
58566921 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
58566984 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
58567000 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58567024 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:58567023 original size:40 final size:40
Alignment explanation
Indices: 58566820--58567023 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
58566810 CAGAATTTAA
** *
58566820 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58566860 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58566900 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58566939 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58566979 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58567019 CCGGA
1 CCGGA
58567024 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58569118 original size:40 final size:40
Alignment explanation
Indices: 58569059--58569275 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
58569049 GGATTGATAA
58569059 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58569098 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
58569138 CTGGGCCAAGTTCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58569178 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
58569219 -CGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
58569258 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58569276 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 27 0.17
40 131 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58581874 original size:47 final size:49
Alignment explanation
Indices: 58581805--58582072 Score: 222
Period size: 46 Copynumber: 5.7 Consensus size: 49
58581795 GAAGGTGCCA
* * **
58581805 ATGCCATGTCCTAGACATGGTCTTGCACTGGCTCAT-ATCTC-AAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* ** *
58581852 ATGCCATGTCCCAGACATGGTCTTACATTAACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * *
58581900 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAT-GTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * * * * *
58581946 ATG-CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * *
58581992 ATACCATGTCCCAGACGTGGTCTTACACTGGCTC-TCATAATCTG--GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTC-GAAGCCG
* *
58582040 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
58582073 CAATAACCCA
Statistics
Matches: 180, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 73 0.41
48 27 0.15
49 2 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
Found at i:58599533 original size:59 final size:59
Alignment explanation
Indices: 58599424--58599535 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
58599414 GTGCTAAACG
* * * *
58599424 ATGGTCGTAACCATCCCTTTTAATATTCGATGGTCGAAACCATCCGTTTTCATTAATAA
1 ATGGTCATAACCATCCCTTTTAATAATCGATAGTCGAAACCATCCCTTTTCATTAATAA
* * * *
58599483 ATGGTCATCACCATCCCTTTTCATAATCGATAGT-TAAAGCTATCCCTTTTCAT
1 ATGGTCATAACCATCCCTTTTAATAATCGATAGTCGAAA-CCATCCCTTTTCAT
58599536 ATTCTATGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 3 0.07
59 41 0.93
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (59 bp):
ATGGTCATAACCATCCCTTTTAATAATCGATAGTCGAAACCATCCCTTTTCATTAATAA
Found at i:58600122 original size:18 final size:18
Alignment explanation
Indices: 58600099--58600136 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58600089 GGAAACAATC
* *
58600099 AAAATCTTTATTGGTTTT
1 AAAATCTTTAATAGTTTT
58600117 AAAATCTTTAATAGTTTT
1 AAAATCTTTAATAGTTTT
58600135 AA
1 AA
58600137 TAGTTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (18 bp):
AAAATCTTTAATAGTTTT
Found at i:58601631 original size:6 final size:6
Alignment explanation
Indices: 58601620--58601678 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
58601610 AGGATACCAA
* * *
58601620 ATTTTC ATTTTC ATTTTC ATTTCC ATTTCC ATTTTC ATTTTC ATTTCC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
*
58601668 ATTTCC ATTTT
1 ATTTTC ATTTT
58601679 TGGAAATCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTTC
Found at i:58601646 original size:18 final size:18
Alignment explanation
Indices: 58601620--58601678 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
58601610 AGGATACCAA
*
58601620 ATTTTCATTTTCATTTTC
1 ATTTTCATTTCCATTTTC
*
58601638 ATTTCCATTTCCATTTTC
1 ATTTTCATTTCCATTTTC
*
58601656 ATTTTCATTTCCATTTCC
1 ATTTTCATTTCCATTTTC
58601674 ATTTT
1 ATTTT
58601679 TGGAAATCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTCATTTCCATTTTC
Found at i:58601652 original size:24 final size:24
Alignment explanation
Indices: 58601620--58601678 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
58601610 AGGATACCAA
*
58601620 ATTTTCATTTTCATTTTCATTTCC
1 ATTTCCATTTTCATTTTCATTTCC
58601644 ATTTCCATTTTCATTTTCATTTCC
1 ATTTCCATTTTCATTTTCATTTCC
58601668 ATTTCCATTTT
1 ATTTCCATTTT
58601679 TGGAAATCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTCCATTTTCATTTTCATTTCC
Found at i:58603379 original size:28 final size:28
Alignment explanation
Indices: 58603342--58603462 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 28
58603332 AAGTCTACAT
* *
58603342 ACATGCATATGGCCCATTGGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
** *
58603370 TTATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TC
*
58603399 ACATTCATATGGCCCATTAGCCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
58603428 ACATTTATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
58603456 ACTTTCA
1 ACATTCA
58603463 CAGTCATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 30 0.39
29 45 0.58
30 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:58603409 original size:57 final size:57
Alignment explanation
Indices: 58603342--58603462 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
58603332 AAGTCTACAT
* * * **
58603342 ACATGCATATGGCCCATTGGGCCC-AATCTTATTCATATGGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACT-AGGCCCAA-TC
*
58603399 ACATTCATATGGCCCATTAGCCCCAAATCACATTTATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACTAGGCCCAATC
*
58603456 ACTTTCA
1 ACATTCA
58603463 CAGTCATGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 29 0.53
58 25 0.45
59 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (57 bp):
ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACTAGGCCCAATC
Found at i:58603703 original size:16 final size:16
Alignment explanation
Indices: 58603682--58603714 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58603672 CAAATTTTTG
*
58603682 GCTTTTCGGCATTTCA
1 GCTTTTCGACATTTCA
58603698 GCTTTTCGACATTTCA
1 GCTTTTCGACATTTCA
58603714 G
1 G
58603715 GATTTACCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (16 bp):
GCTTTTCGACATTTCA
Found at i:58606758 original size:18 final size:19
Alignment explanation
Indices: 58606735--58606772 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58606725 CACATTGAAG
58606735 TGTTTT-AGTGAAAAACCT
1 TGTTTTCAGTGAAAAACCT
* *
58606753 TGTTTTCATTGAAAACCCT
1 TGTTTTCAGTGAAAAACCT
58606772 T
1 T
58606773 CCTTAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TGTTTTCAGTGAAAAACCT
Found at i:58607916 original size:28 final size:28
Alignment explanation
Indices: 58607884--58607994 Score: 123
Period size: 29 Copynumber: 3.9 Consensus size: 28
58607874 TACATACATG
**
58607884 CATATGGCCCATTAGGCCCAATCTTATT
1 CATATGGCCCATTAGGCCCAATCAAATT
* *
58607912 CATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAA-TCAAATT
*
58607941 CATATGGCCAATTAGGCCCAAATCAAATT
1 CATATGGCCCATTAGGCCC-AATCAAATT
* * * *
58607970 TATATGGCCCACTGGGCCCTATCAA
1 CATATGGCCCATTAGGCCCAATCAA
58607995 TTTTACAGTC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 25 0.36
29 43 0.61
30 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCAAATT
Found at i:58607988 original size:29 final size:29
Alignment explanation
Indices: 58607884--58607980 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 29
58607874 TACATACATG
**
58607884 CATATGGCCCATTAGGCCC-AATCTTATT
1 CATATGGCCCATTAGGCCCAAATCAAATT
* * *
58607912 CATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCAAATT
*
58607941 CATATGGCCAATTAGGCCCAAATCAAATT
1 CATATGGCCCATTAGGCCCAAATCAAATT
*
58607970 TATATGGCCCA
1 CATATGGCCCA
58607981 CTGGGCCCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCAAATT
Found at i:58617479 original size:39 final size:39
Alignment explanation
Indices: 58617435--58617710 Score: 444
Period size: 39 Copynumber: 7.1 Consensus size: 39
58617425 ATGCAAGACA
*
58617435 CTGGAAATGTATCCGGGCTAAAGTCCCCCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
58617474 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
58617513 CTGGAAATATATCCGGGCCAAAGTCCGGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
58617552 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
58617591 CTGGAAATGTATCCGGGCCAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
58617630 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
58617669 TTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
58617708 CTG
1 CTG
58617711 ATAATATAAT
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 218 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:58629154 original size:48 final size:47
Alignment explanation
Indices: 58629048--58629230 Score: 186
Period size: 48 Copynumber: 3.8 Consensus size: 47
58629038 TTTGGGTGAT
* * * * * * *
58629048 ATGTGTGCTAGTGCAAGACCATGCCTGGGACATGGCATCGACATTGAG
1 ATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG-CCTCGAC
* * * *
58629096 ACGAGGGCTAGTGAAAGACCATGTCTAGGACATGGCATCTGCCTCGAC
1 ATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GCCTCGAC
* * *
58629144 ATGTGAGCTAGAGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAC
1 ATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GCCTCGAC
* * *
58629192 ATGTGAGCCAATGTAAGACCATGTCTAGGATATGGCATC
1 ATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
58629231 AGCAATTTAC
Statistics
Matches: 111, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 110 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGCCTCGAC
Found at i:58638732 original size:27 final size:27
Alignment explanation
Indices: 58638702--58638878 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
58638692 ATATTGAGTC
* * *
58638702 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
58638729 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
58638755 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
58638783 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
58638810 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
58638837 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
58638864 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58638879 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.66
28 22 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:58638867 original size:81 final size:81
Alignment explanation
Indices: 58638723--58638877 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
58638713 TGCTATATAA
* *
58638723 TCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
58638788 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * *
58638804 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGTCAAACTCGC
58638867 ACACTTAGTGC
64 ACACTTAGTGC
58638878 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 40 0.60
82 26 0.39
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:58646713 original size:27 final size:27
Alignment explanation
Indices: 58646683--58646860 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58646673 ATATTGAGTC
* * * *
58646683 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
58646710 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58646737 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
58646765 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
58646792 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
58646819 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58646846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58646861 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:58646822 original size:82 final size:81
Alignment explanation
Indices: 58646704--58646859 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58646694 TGCTATATAA
* *
58646704 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58646769 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58646786 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58646850 CACTTAGTGC
65 CACTTAGTGC
58646860 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58649888 original size:40 final size:39
Alignment explanation
Indices: 58649804--58649988 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
58649794 TCGAATGATG
* * * *
58649804 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58649844 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58649884 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58649923 TCCGGGTTAAGTCCTGAAGGCATTTGCGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
58649964 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
58649989 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.30
40 74 0.61
41 12 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58649942 original size:79 final size:81
Alignment explanation
Indices: 58649804--58649986 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
58649794 TCGAATGATG
* *
58649804 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
58649868 TGTGCGAGATACTA-A
66 TGCGCGAGATACTATA
* * * **
58649883 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCA
*
58649945 TTTGCGCGAGTTACTATA
64 TTTGCGCGAGATACTATA
* *
58649963 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58649987 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGCGCGAGATACTATA
Found at i:58650019 original size:79 final size:79
Alignment explanation
Indices: 58649855--58650021 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 79
58649845 CCGGACTAAG
* * **
58649855 ATCC-GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTAC
1 ATCCTGAAGGCATTTGCGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAC
58649919 TAAATCCGGGTTAA
66 TAAATCCGGGTTAA
* * * *
58649933 GTCCTGAAGGCATTTGCGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-T
1 ATCCTGAAGGCATTTGCGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTT
* *
58649996 AGCTATAT-CTGGTTAA
64 A-CTAAATCCGGGTTAA
*
58650012 ATTCTGAAGG
1 ATCCTGAAGG
58650022 TACGTGATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
78 5 0.07
79 46 0.63
80 22 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCTGAAGGCATTTGCGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAC
TAAATCCGGGTTAA
Found at i:58652192 original size:46 final size:48
Alignment explanation
Indices: 58652122--58652221 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 48
58652112 AGTTGTATTA
*
58652122 AGCTGAAACAGTAAGCTCTGACGAGCTG-A-A-CAGTAAGCTCATACG
1 AGCTGAAACAATAAGCTCTGACGAGCTGAATATCAGTAAGCTCATACG
* *
58652167 AGCTGAAAACAATAAGCTCTTACGAGCTGATATATCGGTAAGCTCATACG
1 AGCTG-AAACAATAAGCTCTGACGAGCTGA-ATATCAGTAAGCTCATACG
58652217 AGCTG
1 AGCTG
58652222 TGGTGATTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 5 0.11
46 21 0.45
48 1 0.02
49 1 0.02
50 19 0.40
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (48 bp):
AGCTGAAACAATAAGCTCTGACGAGCTGAATATCAGTAAGCTCATACG
Found at i:58652216 original size:26 final size:24
Alignment explanation
Indices: 58652122--58652221 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
58652112 AGTTGTATTA
58652122 AGCTG-AAACAGTAAGCTC-TGACG
1 AGCTGAAAACAGTAAGCTCAT-ACG
58652145 AGCTG--AACAGTAAGCTCATACG
1 AGCTGAAAACAGTAAGCTCATACG
* *
58652167 AGCTGAAAACAATAAGCTCTTACG
1 AGCTGAAAACAGTAAGCTCATACG
* *
58652191 AGCTGATATATCGGTAAGCTCATACG
1 AGCTGA-A-AACAGTAAGCTCATACG
58652217 AGCTG
1 AGCTG
58652222 TGGTGATTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
22 20 0.30
23 6 0.09
24 21 0.32
25 1 0.02
26 18 0.27
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCATACG
Found at i:58657511 original size:42 final size:42
Alignment explanation
Indices: 58657437--58657596 Score: 110
Period size: 42 Copynumber: 3.8 Consensus size: 42
58657427 ATATATAATG
* ***
58657437 CCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATA
1 CCAATGTCCCAGACAG-GGTCTTACACAAAATCAAACA-CGATA
* * * *
58657480 CTACTGTCCCAG-CAGGGTCTTACACAAAATCAGATACGATA
1 CCAATGTCCCAGACAGGGTCTTACACAAAATCAAACACGATA
* * ** *
58657521 CCAATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCGATG
1 CCAATGTCCCAGACAGGGTCTTACACA-AAATCA-AACACGATA
** *
58657565 CCAACATCCCAGAC-GTGGTCTTACACGAAATC
1 CCAATGTCCCAGACAG-GGTCTTACACAAAATC
58657597 CTATCTCATG
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 15 0.16
42 30 0.33
43 19 0.21
44 27 0.30
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
CCAATGTCCCAGACAGGGTCTTACACAAAATCAAACACGATA
Found at i:58657532 original size:41 final size:43
Alignment explanation
Indices: 58657475--58657590 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
58657465 AATCAAACAT
* * *
58657475 CGATACTACTGTCCCAG-CAGGGTCTTACACA-AAATCAGATA
1 CGATACCAATGTCCCAGACAGGGTCTTACACATAAAACAGATA
*
58657516 CGATACCAATGTCCCAGACATGGTCTTACACATAAAACAGA-A
1 CGATACCAATGTCCCAGACAGGGTCTTACACATAAAACAGATA
* **
58657558 GTCGATGCCAACATCCCAGAC-GTGGTCTTACAC
1 --CGATACCAATGTCCCAGACAG-GGTCTTACAC
58657591 GAAATCCTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 15 0.24
42 14 0.23
43 7 0.11
44 26 0.42
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (43 bp):
CGATACCAATGTCCCAGACAGGGTCTTACACATAAAACAGATA
Found at i:58661104 original size:14 final size:14
Alignment explanation
Indices: 58661085--58661217 Score: 63
Period size: 14 Copynumber: 9.3 Consensus size: 14
58661075 TGTGGTATAT
58661085 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
58661099 GGTTTAAGGTTTAA
1 GGTTTAGGGTTTAA
*
58661113 GAGTTACTA--TTTTAA
1 G-GTT--TAGGGTTTAA
* * *
58661128 GGTTTATGGATTAT
1 GGTTTAGGGTTTAA
* *
58661142 GGATTTAGGGATTAT
1 GG-TTTAGGGTTTAA
* *
58661157 GGTTTATGGTTTTA
1 GGTTTAGGGTTTAA
* *
58661171 GGGTTGGGGTTTAA
1 GGTTTAGGGTTTAA
* * *
58661185 GGTCTAGGGGTTAG
1 GGTTTAGGGTTTAA
* *
58661199 GGGTTATGGGTTTAG
1 GGTTTA-GGGTTTAA
58661214 GGTT
1 GGTT
58661218 CATGAGTTAT
Statistics
Matches: 89, Mismatches: 23, Indels: 13
0.71 0.18 0.10
Matches are distributed among these distances:
12 2 0.02
14 53 0.60
15 32 0.36
17 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:58661148 original size:22 final size:22
Alignment explanation
Indices: 58661123--58661175 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
58661113 GAGTTACTAT
*
58661123 TTTAAGGTTTATGGATTATGGA
1 TTTAGGGTTTATGGATTATGGA
* * *
58661145 TTTAGGGATTATGGTTTATGGT
1 TTTAGGGTTTATGGATTATGGA
58661167 TTTAGGGTT
1 TTTAGGGTT
58661176 GGGGTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTATGGATTATGGA
Found at i:58661153 original size:15 final size:14
Alignment explanation
Indices: 58661128--58661162 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
58661118 ACTATTTTAA
*
58661128 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
58661142 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
58661157 GGTTTA
1 GGTTTA
58661163 TGGTTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:58661166 original size:7 final size:7
Alignment explanation
Indices: 58661077--58661168 Score: 53
Period size: 7 Copynumber: 12.9 Consensus size: 7
58661067 TTAGGGTCTG
*
58661077 TGGTATA
1 TGGTTTA
58661084 TGGTTTA
1 TGGTTTA
*
58661091 GGGTTTA
1 TGGTTTA
*
58661098 AGGTTTA
1 TGGTTTA
*
58661105 AGGTTTA
1 TGGTTTA
*
58661112 AGAGTTACTA
1 TG-GTT--TA
58661122 T--TTTA
1 TGGTTTA
*
58661127 AGGTTTA
1 TGGTTTA
*
58661134 TGGATTA
1 TGGTTTA
58661141 TGGATTTA
1 TGG-TTTA
* *
58661149 GGGATTA
1 TGGTTTA
58661156 TGGTTTA
1 TGGTTTA
58661163 TGGTTT
1 TGGTTT
58661169 TAGGGTTGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
5 2 0.03
7 55 0.82
8 8 0.12
10 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (7 bp):
TGGTTTA
Found at i:58661214 original size:22 final size:22
Alignment explanation
Indices: 58661138--58661215 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
58661128 GGTTTATGGA
* * * *
58661138 TTATGGATTTAGGGATTATGGT
1 TTATGGGTTTAGGGGTTAGGGG
*
58661160 TTATGGTTTTA-GGGTT-GGGG
1 TTATGGGTTTAGGGGTTAGGGG
* *
58661180 TT-TAAGGTCTAGGGGTTAGGGG
1 TTAT-GGGTTTAGGGGTTAGGGG
58661202 TTATGGGTTTAGGG
1 TTATGGGTTTAGGG
58661216 TTCATGAGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 9 0.21
22 24 0.56
23 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.41, T:0.41
Consensus pattern (22 bp):
TTATGGGTTTAGGGGTTAGGGG
Found at i:58662167 original size:21 final size:21
Alignment explanation
Indices: 58662143--58662183 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58662133 ACCCTTTTAT
58662143 CCCCAAATTTTCCCCATAAAC
1 CCCCAAATTTTCCCCATAAAC
* *
58662164 CCCCTAATTTTCCCCCTAAA
1 CCCCAAATTTTCCCCATAAA
58662184 ATCATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCCAAATTTTCCCCATAAAC
Found at i:58663396 original size:36 final size:36
Alignment explanation
Indices: 58663356--58663427 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
58663346 CTTAAATGTT
58663356 AGTTTTATCCTTTTTCTTATCTAATATAATAAATAA
1 AGTTTTATCCTTTTTCTTATCTAATATAATAAATAA
58663392 AGTTTTATCCTTTTTCTTATCTAATATAATAAATAA
1 AGTTTTATCCTTTTTCTTATCTAATATAATAAATAA
58663428 GGACATTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.50
Consensus pattern (36 bp):
AGTTTTATCCTTTTTCTTATCTAATATAATAAATAA
Found at i:58665049 original size:31 final size:31
Alignment explanation
Indices: 58665009--58665078 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
58664999 AACCCTTCCT
*
58665009 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
*
58665040 GCATAAAATCCAACCAAAAACAGCAAATGTA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
58665071 GCATAAAA
1 GCATAAAA
58665079 AATACAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.56, C:0.21, G:0.09, T:0.14
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAACAGCAAATATA
Found at i:58665353 original size:21 final size:22
Alignment explanation
Indices: 58665343--58665398 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
58665333 CTGCCTCTGG
*
58665343 CTCCCTTGCTGCT-ACTACTGC
1 CTCCCTCGCTGCTGACTACTGC
*
58665364 CTCCCTCGCTGCTGTC-ACTGC
1 CTCCCTCGCTGCTGACTACTGC
* *
58665385 CTCCTTCTCTGCTG
1 CTCCCTCGCTGCTG
58665399 CCTTCGTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.05, C:0.45, G:0.16, T:0.34
Consensus pattern (22 bp):
CTCCCTCGCTGCTGACTACTGC
Found at i:58669157 original size:18 final size:18
Alignment explanation
Indices: 58669134--58669168 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58669124 CAAGTCCGTC
58669134 TCATTAGGA-TCATCCTCT
1 TCATTA-GATTCATCCTCT
58669152 TCATTAGATTCATCCTC
1 TCATTAGATTCATCCTC
58669169 AGATTCATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.40
Consensus pattern (18 bp):
TCATTAGATTCATCCTCT
Found at i:58670983 original size:9 final size:9
Alignment explanation
Indices: 58670962--58671183 Score: 88
Period size: 9 Copynumber: 24.9 Consensus size: 9
58670952 TATGTATTAC
*
58670962 GTAAGTTAA
1 GTAAGTTAT
58670971 GTAAGCTT-T
1 GTAAG-TTAT
58670980 GTAAGTTAT
1 GTAAGTTAT
58670989 GTAAGTTAT
1 GTAAGTTAT
* * *
58670998 GTTA-TGAC
1 GTAAGTTAT
* *
58671006 ATACATTTAT
1 GTA-AGTTAT
*
58671016 GTAAGGTAT
1 GTAAGTTAT
58671025 GTAAGTTAT
1 GTAAGTTAT
* *
58671034 GATATGATAT
1 G-TAAGTTAT
* *
58671044 AT-ATTTAT
1 GTAAGTTAT
58671052 GT-A-TTAT
1 GTAAGTTAT
*
58671059 GTAAGTTGT
1 GTAAGTTAT
58671068 GTAAGTTAT
1 GTAAGTTAT
*
58671077 GATAAGATAT
1 G-TAAGTTAT
* *
58671087 AT-ATTTAT
1 GTAAGTTAT
*
58671095 GATATATATTTAT
1 G---TA-AGTTAT
58671108 GT-A-TTAT
1 GTAAGTTAT
*
58671115 GTAAGTTGT
1 GTAAGTTAT
58671124 GTAAGTTAT
1 GTAAGTTAT
* *
58671133 GATATGATAT
1 G-TAAGTTAT
* *
58671143 AT-ATTTAT
1 GTAAGTTAT
58671151 GT-A-TTAT
1 GTAAGTTAT
*
58671158 GTAAGTTTT
1 GTAAGTTAT
58671167 GTAAGTTAT
1 GTAAGTTAT
58671176 GTAAGTTA
1 GTAAGTTA
58671184 CTATATGATA
Statistics
Matches: 158, Mismatches: 37, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
7 18 0.11
8 23 0.15
9 83 0.53
10 26 0.16
11 1 0.01
13 7 0.04
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:58671026 original size:36 final size:36
Alignment explanation
Indices: 58670979--58671054 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
58670969 AAGTAAGCTT
* *
58670979 TGTAAGTTATGTAAGTTATGTTATGACATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
* *
58671015 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
58671051 TGTA
1 TGTA
58671055 TTATGTAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGACATACATTTA
Found at i:58671071 original size:43 final size:43
Alignment explanation
Indices: 58671012--58671176 Score: 177
Period size: 43 Copynumber: 3.5 Consensus size: 43
58671002 TGACATACAT
* *
58671012 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
58671055 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATATA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG-----TA
58671103 TTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 -TTATGTA--A-GT----TGTGTAAGTTATGATATGATATATATTTATGTA
*
58671154 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTGTGTAAGTTATG
58671177 TAAGTTACTA
Statistics
Matches: 104, Mismatches: 5, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
43 50 0.48
47 2 0.02
48 3 0.03
49 7 0.07
50 7 0.07
51 3 0.03
52 2 0.02
56 30 0.29
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:58671100 original size:13 final size:13
Alignment explanation
Indices: 58671082--58671108 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58671072 GTTATGATAA
58671082 GATATATATTTAT
1 GATATATATTTAT
58671095 GATATATATTTAT
1 GATATATATTTAT
58671108 G
1 G
58671109 TATTATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
GATATATATTTAT
Found at i:58671103 original size:56 final size:56
Alignment explanation
Indices: 58671036--58671197 Score: 244
Period size: 56 Copynumber: 3.0 Consensus size: 56
58671026 TAAGTTATGA
*
58671036 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
58671092 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
* * *
58671148 TATG-TAT-TATGTAAGT-TT-TGTAAGTTATGTAAGTTACT-ATATGATATATA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTA-TGATATGATATATA
58671198 ATAAACATTA
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
52 29 0.29
53 3 0.03
54 7 0.07
55 3 0.03
56 59 0.58
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
Found at i:58671189 original size:43 final size:43
Alignment explanation
Indices: 58671095--58671189 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
58671085 ATATATTTAT
*
58671095 GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAT
1 GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
*
58671138 GATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAA
1 GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
*
58671180 GTTACTATAT
1 GATA-TATAT
58671190 GATATATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 5 0.10
43 43 0.90
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (43 bp):
GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
Found at i:58671368 original size:15 final size:15
Alignment explanation
Indices: 58671348--58671376 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58671338 TTGTGTCCTG
58671348 ATTAATCCAAAATAA
1 ATTAATCCAAAATAA
58671363 ATTAATCCAAAATA
1 ATTAATCCAAAATA
58671377 TGTAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAATCCAAAATAA
Found at i:58671695 original size:10 final size:9
Alignment explanation
Indices: 58671649--58671695 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
58671639 AATTATATTA
58671649 ATTGATAAAT
1 ATTGA-AAAT
58671659 ATTG-AAAT
1 ATTGAAAAT
58671667 ATTGAAATAT
1 ATTGAAA-AT
*
58671677 ATTTAAAAT
1 ATTGAAAAT
58671686 ATTGATAAAT
1 ATTGA-AAAT
58671696 GAAATATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (9 bp):
ATTGAAAAT
Found at i:58671709 original size:26 final size:27
Alignment explanation
Indices: 58671655--58671709 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
58671645 ATTAATTGAT
**
58671655 AAATATTGAAATATTGAAATATATTTA
1 AAATATTGAAATATTGAAATATAAGTA
58671682 AAATATTGATAA-A-TGAAATATAAGTA
1 AAATATTGA-AATATTGAAATATAAGTA
58671708 AA
1 AA
58671710 TCATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATATTGAAATATTGAAATATAAGTA
Found at i:58674655 original size:58 final size:59
Alignment explanation
Indices: 58674585--58674705 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 59
58674575 TGGGGAAAAA
* * * * *
58674585 GGGGTAATTATTTTGGGGTTTTGAATTAGGGAAAA-GGGGGGAATAAACTAGGGAGAAG
1 GGGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATGGGGGAAATAAACTAGGGAGAAG
* *
58674643 GGGGTGATTATTTTAGGGATTCGGAGTAGGGAAAATGGGGGAAATAAACTAGGGAGAAG
1 GGGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATGGGGGAAATAAACTAGGGAGAAG
58674702 GGGG
1 GGGG
58674706 GAAATGAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 29 0.53
59 26 0.47
ACGTcount: A:0.32, C:0.02, G:0.42, T:0.23
Consensus pattern (59 bp):
GGGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATGGGGGAAATAAACTAGGGAGAAG
Found at i:58675257 original size:114 final size:116
Alignment explanation
Indices: 58674793--58675323 Score: 605
Period size: 114 Copynumber: 4.6 Consensus size: 116
58674783 ATCGTTTTCT
* * * * * *
58674793 CCTAGCGCCGCTAAAGGCAAACCAATTGAGGCATTTTAACAT-AAACGCCATTAAAAAT-CAAAC
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
* * * * * **
58674856 AAAATGACACAGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTTTCC
66 AAAATGACACCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAA
*
58674907 CCTAGCGCCGCTAAAGGCAAATCTATTGCGGCG-TTTAACCCTAAAACGCCACTAAAAATCCAAA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAATCC-AA
** ** * **
58674971 AAAAAATGACGGCGTTTCCATATAAACAGAATAA-CATTTAGTGGCGTTTTATCT
64 AAAAAATGACACCGTTTTGATATAAACAAAATAACCA-TTAGTGGCG-TTTATAA
* * * * *
58675025 CCAAGCGCCGCTAAAGGCGAAA-CTATTGCAGCATTTTACCCTAAAACGCCACTAAAAATCCATA
1 CCTAGCGCCGCTAAAGGC-AAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAA
* * *
58675089 AAAACT-ACACCATTTT-ATATAAACAAAATAACCATTAGTGACGTTTATAA
65 AAAAATGACACCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAA
* * * * *
58675139 CCTAGTGTCGCTAAA-TCAAACCTATTGCGGCGTTTTAACCAAAAACGCCACTAAAAATCCATAA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
* *
58675203 AAACT-ACACCCTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAA
66 AAAATGACACCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAA
* *
58675253 CCTAGTGCCGCTAAA-TCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
1 CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
58675317 AAAATGA
66 AAAATGA
58675324 TGTCATCTAG
Statistics
Matches: 362, Mismatches: 43, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
112 3 0.01
113 59 0.16
114 146 0.40
115 38 0.10
116 10 0.03
117 46 0.13
118 53 0.15
119 7 0.02
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (116 bp):
CCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAA
AAAATGACACCGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATAA
Found at i:58675348 original size:227 final size:232
Alignment explanation
Indices: 58674796--58675321 Score: 565
Period size: 232 Copynumber: 2.3 Consensus size: 232
58674786 GTTTTCTCCT
* * * *
58674796 AGCGCCGCTAAAGGC-AAACCAATTG-AGGCATTTTAACAT-AAACGCCATTAAAAAT-CAAACA
1 AGCGCCGCTAAAGGCGAAA-CTATTGCA-GCATTTTAACCTAAAACGCCACTAAAAATCCAAAAA
* * * * * * ** * *
58674857 AAATGACA-CAGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTTTCCCCTAGCGCCGCTAA
64 AAAT-ACACCA-TTCT-ATATAAACAAAATAACCATTAGTGACGTTTATAACCTAGTGTCGCTAA
* * ** *
58674921 AGGCAAATCTATTGCGGCGTTTAACCCTAAAACGCCACTAAAAATCCAAAAAAAAATGACGGCGT
126 AGGCAAACCTATTGCGGCGTTTAACCCAAAAACGCCACTAAAAATCCAAAAAAAAATGACACCCT
* **
58674986 TTCCATATAAACAGAATAACATTTAGTGGCGTTTTATCTCCA
191 TTCCATATAAACAAAATAACATTTAGTGGCGTTTTATAACCA
* *
58675028 AGCGCCGCTAAAGGCGAAACTATTGCAGCATTTTACCCTAAAACGCCACTAAAAATCCATAAAAA
1 AGCGCCGCTAAAGGCGAAACTATTGCAGCATTTTAACCTAAAACGCCACTAAAAATCCAAAAAAA
* * *
58675093 CTACACCATTTTATATAAACAAAATAACCATTAGTGACGTTTATAACCTAGTGTCGCTAAA-TCA
66 ATACACCATTCTATATAAACAAAATAACCATTAGTGACGTTTATAACCTAGTGTCGCTAAAGGCA
* * **
58675157 AACCTATTGCGGCGTTTTAA-CCAAAAACGCCACTAAAAATCC-ATAAAAACT-ACACCCTTTTG
131 AACCTATTGCGGCG-TTTAACCCAAAAACGCCACTAAAAATCCAAAAAAAAATGACACCCTTTCC
*
58675219 ATATAAACAAAATAACCA-TTAGTGGCG-TTTATAACCT
195 ATATAAACAAAATAA-CATTTAGTGGCGTTTTATAACCA
* * * *
58675256 AGTGCCGCTAAA-TC-AAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAAAA
1 AGCGCCGCTAAAGGCGAAA-CTATTGCAGCATTTTAACCTAAAACGCCACTAAAAATCCAAAAAA
58675319 AAT
65 AAT
58675322 GATGTCATCT
Statistics
Matches: 249, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
226 3 0.01
227 44 0.18
228 18 0.07
229 29 0.12
230 9 0.04
231 36 0.14
232 75 0.30
233 26 0.10
234 9 0.04
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (232 bp):
AGCGCCGCTAAAGGCGAAACTATTGCAGCATTTTAACCTAAAACGCCACTAAAAATCCAAAAAAA
ATACACCATTCTATATAAACAAAATAACCATTAGTGACGTTTATAACCTAGTGTCGCTAAAGGCA
AACCTATTGCGGCGTTTAACCCAAAAACGCCACTAAAAATCCAAAAAAAAATGACACCCTTTCCA
TATAAACAAAATAACATTTAGTGGCGTTTTATAACCA
Found at i:58675751 original size:14 final size:15
Alignment explanation
Indices: 58675728--58675778 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
58675718 CTAAACCCTA
*
58675728 AACCCCTAACACT-T
1 AACCCTTAACACTCT
58675742 AACCCTTAAC-CTCT
1 AACCCTTAACACTCT
* *
58675756 AAACCTTAA-ACTCC
1 AACCCTTAACACTCT
58675770 AACCCTTAA
1 AACCCTTAA
58675779 ACCATACGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 2 0.06
14 29 0.94
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACACTCT
Found at i:58675797 original size:22 final size:23
Alignment explanation
Indices: 58675770--58675822 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
58675760 CTTAAACTCC
*
58675770 AACCCTTAAA-CCATACGCCATA
1 AACCCTTAAACCCATAAGCCATA
*
58675792 AACCC-TAAACCCATAATCCATA
1 AACCCTTAAACCCATAAGCCATA
58675814 AA-CCTTAAA
1 AACCCTTAAA
58675823 ATAGTAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (23 bp):
AACCCTTAAACCCATAAGCCATA
Found at i:58676301 original size:21 final size:21
Alignment explanation
Indices: 58676262--58676302 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58676252 AATTCTAAGC
* *
58676262 CCTAAACTATAAACTATAAAA
1 CCTAAACCATAAACCATAAAA
*
58676283 CCTAAACCATAACCCATAAA
1 CCTAAACCATAAACCATAAA
58676303 CTCTAATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTAAACCATAAACCATAAAA
Found at i:58676441 original size:38 final size:40
Alignment explanation
Indices: 58676357--58676464 Score: 159
Period size: 38 Copynumber: 2.8 Consensus size: 40
58676347 GAAACTTTTT
*
58676357 GCGGCGTTTTTCA-AAAAGCGTCGCTAATGCTTAATCTATA
1 GCGGCGTTTTT-ATAAAAGCGCCGCTAATGCTTAATCTATA
*
58676397 GCGGCGTTTTTATAAAAGTGCCGCTAATGC-T-ATCTATA
1 GCGGCGTTTTTATAAAAGCGCCGCTAATGCTTAATCTATA
*
58676435 GCGGCGTTTTTCTAAAAGCGCCGCTAATGC
1 GCGGCGTTTTTATAAAAGCGCCGCTAATGC
58676465 CATTAAAGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 35 0.56
39 2 0.03
40 26 0.41
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTATAAAAGCGCCGCTAATGCTTAATCTATA
Found at i:58676573 original size:40 final size:41
Alignment explanation
Indices: 58676529--58676618 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
58676519 TTCATAATGG
*
58676529 GCCGCTAATGGTCGACCTATAGCAGCATTTTTTA-AGAAGC
1 GCCGCTAATGCTCGACCTATAGCAGCATTTTTTACAGAAGC
* * * * * *
58676569 GCCGCTAATGCTTGATCTTTTGCGGCATTTTTTACATAAGC
1 GCCGCTAATGCTCGACCTATAGCAGCATTTTTTACAGAAGC
58676610 GCCGCTAAT
1 GCCGCTAAT
58676619 AGTGATCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 28 0.67
41 14 0.33
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (41 bp):
GCCGCTAATGCTCGACCTATAGCAGCATTTTTTACAGAAGC
Found at i:58676625 original size:40 final size:39
Alignment explanation
Indices: 58676553--58676652 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
58676543 ACCTATAGCA
58676553 GCATTTTTTAAGAAGCGCCGCTAATGCTTGATCTTTTGCG
1 GCATTTTTTAAGAAGCGCCGCTAATGC-TGATCTTTTGCG
*
58676593 GCATTTTTTACATAAGCGCCGCTAATAG-TGATCTTTTGCG
1 GCATTTTTTA-AGAAGCGCCGCTAAT-GCTGATCTTTTGCG
* * *
58676633 GCGTTTGTTTTACAAGCGCC
1 GCATTT-TTTAAGAAGCGCC
58676653 ACTATAGCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 35 0.66
41 17 0.32
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (39 bp):
GCATTTTTTAAGAAGCGCCGCTAATGCTGATCTTTTGCG
Found at i:58676650 original size:81 final size:82
Alignment explanation
Indices: 58676565--58676738 Score: 178
Period size: 81 Copynumber: 2.1 Consensus size: 82
58676555 ATTTTTTAAG
* * * * * *
58676565 AAGCGCCGCTAAT-GCT-TGATCTTTTGCGGCATTTTTTACATAAGCGCCGCTAATAGT-GATCT
1 AAGCGCCGCTAATAGCTCTAATCTTTAGCGAC-TTTTTTACATAAGCGCCACTAAT-GTACAACT
* *
58676627 TTTGCGGCGTTTGTTT-TAC
64 GTTGCGGCATTT-TTTGTAC
* **
58676646 AAGCGCCACT-ATAGCTCTAATCTTTAGCGACTTTTTTATTTAAGCGCCACTAATGTACAACTGT
1 AAGCGCCGCTAATAGCTCTAATCTTTAGCGACTTTTTTACATAAGCGCCACTAATGTACAACTGT
58676710 TGCGGCATTTTTTGTAC
66 TGCGGCATTTTTTGTAC
*
58676727 AAACGCCGCTAA
1 AAGCGCCGCTAA
58676739 AAACACTGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
80 7 0.09
81 56 0.75
82 12 0.16
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (82 bp):
AAGCGCCGCTAATAGCTCTAATCTTTAGCGACTTTTTTACATAAGCGCCACTAATGTACAACTGT
TGCGGCATTTTTTGTAC
Found at i:58678311 original size:19 final size:19
Alignment explanation
Indices: 58678288--58678334 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
58678278 ATTTAATCTA
*
58678288 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
58678306 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
58678326 ATTTTTATT
1 ATTTTTATT
58678335 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:58682797 original size:69 final size:70
Alignment explanation
Indices: 58682665--58682797 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
58682655 TAGTTTATTA
* * * *
58682665 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAGTCATGGTA
58682730 CTTAG
66 CTTAG
58682735 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAGTCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAGTCATGGT
58682798 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAGTCATGGTA
CTTAG
Found at i:58683667 original size:40 final size:39
Alignment explanation
Indices: 58683572--58683845 Score: 309
Period size: 40 Copynumber: 6.9 Consensus size: 39
58683562 GACTTAAGGT
* * * **
58683572 CCGCAGGCTTCGTGCTGGAATTATATTCGGACTT-AAGGT
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
*
58683611 CCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
58683651 CCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCT-TGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * **
58683691 CCGCAGGCTTTGTGCTGGAATTGTAACCTGACTT-AAGGT
1 CCGCAGGC-TTGTGCTGGAATTGTATCCGGGCTTAAAGAC
58683730 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAAAGAC
* * *
58683770 CCACAAGCTTTGTGCTGGAATTGTATCTGGGCTTAAAGAC
1 CCGCAGGC-TTGTGCTGGAATTGTATCCGGGCTTAAAGAC
* *
58683810 CCGCAGGCTTCGTGCTAGAATTGTATCCGGACTTAA
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGGGCTTAA
58683846 GATCAGTAGG
Statistics
Matches: 199, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 63 0.32
40 130 0.65
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
CCGCAGGCTTGTGCTGGAATTGTATCCGGGCTTAAAGAC
Found at i:58683686 original size:79 final size:80
Alignment explanation
Indices: 58683572--58683845 Score: 347
Period size: 79 Copynumber: 3.5 Consensus size: 80
58683562 GACTTAAGGT
* **
58683572 CCGCAGGCTTCGTGCTGGAATTATATTCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTA
1 CCGCAGGCTTCGTGCTGGAATTATATCCGGACTTAAAGACCCGCAAGCTTCGTGCTGGAATTGTA
58683636 TCCGGGCTTAAAGAC
66 TCCGGGCTTAAAGAC
* * * *
58683651 CCGCAGGCTAT-ATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGT
1 CCGCAGGCT-TCGTGCTGGAATTATATCCGGACTTAAAGACCCGCAAGCTTCGTGCTGGAATTGT
* * * **
58683715 AACCTGACTT-AAGGT
65 ATCCGGGCTTAAAGAC
* * * *
58683730 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAATTGTA
1 CCGCAGGCTTCGTGCTGGAATTATATCCGGACTTAAAGACCCGCAAGCTTCGTGCTGGAATTGTA
*
58683795 TCTGGGCTTAAAGAC
66 TCCGGGCTTAAAGAC
* *
58683810 CCGCAGGCTTCGTGCTAGAATTGTATCCGGACTTAA
1 CCGCAGGCTTCGTGCTGGAATTATATCCGGACTTAA
58683846 GATCAGTAGG
Statistics
Matches: 167, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 96 0.57
80 70 0.42
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGCAGGCTTCGTGCTGGAATTATATCCGGACTTAAAGACCCGCAAGCTTCGTGCTGGAATTGTA
TCCGGGCTTAAAGAC
Found at i:58683884 original size:119 final size:119
Alignment explanation
Indices: 58683572--58683866 Score: 446
Period size: 119 Copynumber: 2.5 Consensus size: 119
58683562 GACTTAAGGT
* * *
58683572 CCGCAGGCTTCGTGCTGGAATTATATTCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* *
58683637 CCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
66 CCGGGCTTAAAGACCCACAAGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
* * *
58683691 CCGCAGGCTTTGTGCTGGAATTGTAACCTGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* * * *
58683756 CCGGGCTTAAAGACCCACAAGCTTTGTGCTGGAATTGTATCTGGGCTTAAAGAC
66 CCGGGCTTAAAGACCCACAAGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
* * * *
58683810 CCGCAGGCTTCGTGCTAGAATTGTATCCGGACTTAAGATCAGTAGGCTTCGTGCTGG
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
58683867 TACTATATTT
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
119 157 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (119 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
CCGGGCTTAAAGACCCACAAGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
Found at i:58683923 original size:39 final size:39
Alignment explanation
Indices: 58683833--58683946 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
58683823 GCTAGAATTG
* * **
58683833 TATCCGGACTTAAGATCAGTAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAGGTCCGTAGGCTTCGTATTGGTACTA
**
58683872 TATTTGGACTTAAGGTCCGTAGGCTTCGTATTGGTACTA
1 TATCCGGACTTAAGGTCCGTAGGCTTCGTATTGGTACTA
* * *
58683911 TATCC-GAGCTTAAAGTCTCGTAGGCTTTGTTTTGGT
1 TATCCGGA-CTTAAGGTC-CGTAGGCTTCGTATTGGT
58683947 GATTGAATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 2 0.03
39 44 0.71
40 16 0.26
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGTAGGCTTCGTATTGGTACTA
Found at i:58686785 original size:8 final size:8
Alignment explanation
Indices: 58686772--58686808 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
58686762 TGAAAATCAA
58686772 ATATATAC
1 ATATATAC
58686780 ATATATAC
1 ATATATAC
58686788 ATATATAC
1 ATATATAC
58686796 --ATATAC
1 ATATATAC
58686802 ATATATA
1 ATATATA
58686809 TGTGATGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
8 21 0.78
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:58686793 original size:16 final size:14
Alignment explanation
Indices: 58686772--58686808 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
58686762 TGAAAATCAA
58686772 ATATATACATATATAC
1 ATATATAC--ATATAC
58686788 ATATATACATATAC
1 ATATATACATATAC
58686802 ATATATA
1 ATATATA
58686809 TGTGATGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATATACATATAC
Found at i:58688422 original size:44 final size:43
Alignment explanation
Indices: 58688281--58688438 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 43
58688271 AACATATACA
* * * *
58688281 ATGCCAACATCCCAGACGTGGTCTTACATGTAATAA-AACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA-AACAAAATCG
* * * * * *
58688324 ATGCC-TCTGTCCTAGAAAGGGTCTTACACG-AAATC-AGATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAAACAAAAT-CG
* *
58688366 ATGCCGATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACAAAA-TCG
*
58688410 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
58688439 AAAATCCTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
41 4 0.04
42 29 0.33
43 25 0.28
44 30 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACAAAATCG
Found at i:58693340 original size:22 final size:23
Alignment explanation
Indices: 58693302--58693377 Score: 102
Period size: 22 Copynumber: 3.3 Consensus size: 23
58693292 AAGTTGTATT
58693302 GAGCTGAAACAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCTAAC
*
58693325 GAGCTG-AATAGTAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTA-AC
*
58693347 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AAACAGTAAGCTCTAAC
58693371 GAGCTGA
1 GAGCTGA
58693378 TATATCGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 19 0.41
23 7 0.15
24 19 0.41
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTAAC
Found at i:58693366 original size:24 final size:22
Alignment explanation
Indices: 58693302--58693377 Score: 100
Period size: 24 Copynumber: 3.3 Consensus size: 22
58693292 AAGTTGTATT
58693302 GAGCTGAAACAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCT-AC
*
58693325 GAGCTG-AATAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTC-TAC
58693347 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AAACAGTAAGCTC-TAC
58693371 GAGCTGA
1 GAGCTGA
58693378 TATATCGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 19 0.40
23 8 0.17
24 20 0.43
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
GAGCTGAAACAGTAAGCTCTAC
Found at i:58693373 original size:46 final size:48
Alignment explanation
Indices: 58693302--58693402 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 48
58693292 AAGTTGTATT
*
58693302 GAGCTGAAACAGTAAGCTCTAACGAGCTGA-ATA-G-TAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCTAACGAGCTGATATACGATAAACTCATAC
*
58693347 GAGCTGAAAACAGTAAGCTCTTACGAGCTGATATATCGATAAACTCATAC
1 GAGCTG-AAACAGTAAGCTCTAACGAGCTGATATA-CGATAAACTCATAC
58693397 GAGCTG
1 GAGCTG
58693403 TGGTGAGTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
45 6 0.12
46 23 0.47
47 3 0.06
49 1 0.02
50 16 0.33
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (48 bp):
GAGCTGAAACAGTAAGCTCTAACGAGCTGATATACGATAAACTCATAC
Found at i:58705422 original size:29 final size:29
Alignment explanation
Indices: 58705380--58705493 Score: 151
Period size: 29 Copynumber: 3.9 Consensus size: 29
58705370 ACGTGTGTTT
*
58705380 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATACG
58705409 AATGTGATTTGGGCCTAATGGG-CATACG
1 AATGTGATTTGGGCCTAATGGGCCATACG
* *
58705437 AATATGATTTAGGCCTAATGGGCCATACG
1 AATGTGATTTGGGCCTAATGGGCCATACG
* *
58705466 AAAATGAGA-TTGGGCCTAGTGGGCCATA
1 --AATGTGATTTGGGCCTAATGGGCCATA
58705494 TGCATGCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.33
29 28 0.37
30 17 0.23
31 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATACG
Found at i:58710353 original size:37 final size:37
Alignment explanation
Indices: 58710247--58710355 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
58710237 AGCTCAGACG
* *
58710247 AAATCTCCACACGTAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58710284 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58710321 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58710356 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58710560 original size:50 final size:50
Alignment explanation
Indices: 58710506--58710602 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
58710496 ATCACCTACG
*
58710506 TATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TATTTCACAATGA-CCATTCGGCTTTACCACATATACATATCTCATATATA
* *
58710556 TATTTCACAATGACCATTCGGCTTTACCACGTATGCATATCTCATAT
1 TATTTCACAATGACCATTCGGCTTTACCACATATACATATCTCATAT
58710603 TCATCACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (50 bp):
TATTTCACAATGACCATTCGGCTTTACCACATATACATATCTCATATATA
Found at i:58710656 original size:47 final size:47
Alignment explanation
Indices: 58710560--58710846 Score: 398
Period size: 47 Copynumber: 6.1 Consensus size: 47
58710550 TATATATATT
* * * * * *
58710560 TCACAATGACCATTCGGCTTTA-C-CACGTATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACATTCA
58710606 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
58710653 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58710700 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
58710747 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * * ***
58710794 TCACATTGGCCATTCAGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58710841 TCACAT
1 TCACAT
58710847 AAAATCCTAA
Statistics
Matches: 222, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
46 19 0.09
47 193 0.87
48 10 0.05
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:58710847 original size:25 final size:25
Alignment explanation
Indices: 58710674--58710847 Score: 75
Period size: 25 Copynumber: 7.3 Consensus size: 25
58710664 ATTCGGCCTT
**
58710674 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58710699 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* ***
58710721 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58710746 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
58710768 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
58710793 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
58710815 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
58710840 ATCACATA
1 ATCACATA
58710848 AAATCCTAAA
Statistics
Matches: 101, Mismatches: 33, Indels: 30
0.62 0.20 0.18
Matches are distributed among these distances:
22 28 0.28
23 18 0.18
24 17 0.17
25 38 0.38
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:58716557 original size:27 final size:27
Alignment explanation
Indices: 58716502--58716595 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
58716492 GATAATATGA
* * *
58716502 CAGAGTCACCAGATATAGATAATCGTGG
1 CAGAGCCACCAGA-ACAGATAATTGTGG
*
58716530 CAGAGCCACTAGAACAGA-AATATGTGG
1 CAGAGCCACCAGAACAGATAAT-TGTGG
*
58716557 CAGAGCCACCAGATCAGATAATTGTGG
1 CAGAGCCACCAGAACAGATAATTGTGG
*
58716584 CATAGCCACCAG
1 CAGAGCCACCAG
58716596 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.05
27 40 0.70
28 14 0.25
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CAGAGCCACCAGAACAGATAATTGTGG
Found at i:58720084 original size:37 final size:37
Alignment explanation
Indices: 58720019--58720167 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
58720009 ACCTTTAGCT
* * *
58720019 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
58720056 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
58720093 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
58720130 CAGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
58720167 C
1 C
58720168 GGAATATATT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:58720385 original size:47 final size:47
Alignment explanation
Indices: 58720333--58720612 Score: 443
Period size: 47 Copynumber: 6.0 Consensus size: 47
58720323 TTTCACACTA
* * * *
58720333 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
58720380 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
58720427 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
58720474 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
58720521 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * **
58720568 GCCATTCAGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
58720613 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:58720445 original size:22 final size:22
Alignment explanation
Indices: 58720418--58720540 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
58720408 GCTCACATTC
58720418 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
58720440 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58720464 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
58720487 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
58720511 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58720534 ATCACAT
1 ATCACAT
58720541 ATATGCATGT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 19 0.25
25 15 0.20
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58720613 original size:25 final size:25
Alignment explanation
Indices: 58720440--58720613 Score: 75
Period size: 25 Copynumber: 7.3 Consensus size: 25
58720430 ATTCGGCCTT
**
58720440 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58720465 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* ***
58720487 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58720512 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
58720534 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
58720559 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
58720581 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
58720606 ATCACATA
1 ATCACATA
58720614 AAATCCTAAA
Statistics
Matches: 101, Mismatches: 33, Indels: 30
0.62 0.20 0.18
Matches are distributed among these distances:
22 28 0.28
23 18 0.18
24 17 0.17
25 38 0.38
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:58724930 original size:40 final size:40
Alignment explanation
Indices: 58724619--58724930 Score: 426
Period size: 40 Copynumber: 7.8 Consensus size: 40
58724609 CCAGCATGAT
* * * * *
58724619 TGCTCTTCGGGACCTATCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
58724659 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
58724699 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
58724739 TGCTCTTCGGGACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
58724779 TGCTCTTCGGGATTTAGCCCGGATATATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
58724819 TGCTCTTCGGGATTTAGCCCGGATATATCACCAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
58724859 TGCTCTTCGGGATTTAGCCCGGATTTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
58724899 TGCTCTTCGGGATTTAGCCCGGACATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
58724931 CTCAATTCTC
Statistics
Matches: 247, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 247 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Done.