Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 108 of 333
Found at i:34740789 original size:55 final size:54
Alignment explanation
Indices: 34740663--34740813 Score: 239
Period size: 55 Copynumber: 2.8 Consensus size: 54
34740653 TAAATTGTGC
*
34740663 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
34740717 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGT-TGACTATGT
* * *
34740772 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
34740814 GACTTAATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 43 0.48
55 47 0.52
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34748768 original size:27 final size:27
Alignment explanation
Indices: 34748731--34748854 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
34748721 TAAATTGTGC
* *
34748731 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
34748758 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
34748785 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
34748813 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
34748840 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34748855 GACTTAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 65 0.71
28 26 0.29
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:34748823 original size:55 final size:54
Alignment explanation
Indices: 34748731--34748854 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
34748721 TAAATTGTGC
*
34748731 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
* * *
34748785 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
34748840 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34748855 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 17 0.27
55 47 0.73
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:34761402 original size:46 final size:46
Alignment explanation
Indices: 34761327--34761455 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
34761317 TGTAACCTGC
* * ***
34761327 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
34761373 CCATGAGTGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34761419 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34761456 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34761474 original size:46 final size:45
Alignment explanation
Indices: 34761335--34761474 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
34761325 GCCCATAAGC
* * * *
34761335 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTC-GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* *** *
34761381 GAACTCGGGCTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
34761427 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
34761473 GA
1 GA
34761475 CATGTCACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
46 75 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:34764174 original size:35 final size:35
Alignment explanation
Indices: 34764123--34764234 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
34764113 GAGTCAAAAA
*
34764123 ACCATTTTCATAGTGTCACTCTATAGAGCCAATAG
1 ACCATTTCCATAGTGTCACTCTATAGAGCCAATAG
* * * *
34764158 ACCATTTCCATGGTGTCACTCTGTAGAGCTAGTAG
1 ACCATTTCCATAGTGTCACTCTATAGAGCCAATAG
*** * * *
34764193 ACCATTTTTGTAATGTCGCT-TCATAGAGCCAGTAG
1 ACCATTTCCATAGTGTCACTCT-ATAGAGCCAATAG
34764228 ACCATTT
1 ACCATTT
34764235 TTGTGATGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
34 1 0.02
35 62 0.98
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (35 bp):
ACCATTTCCATAGTGTCACTCTATAGAGCCAATAG
Found at i:34764235 original size:35 final size:35
Alignment explanation
Indices: 34764181--34764269 Score: 144
Period size: 35 Copynumber: 2.5 Consensus size: 35
34764171 TGTCACTCTG
34764181 TAGAGCTAGTAGACCATTTTTGTAATGTCGCTT-CA
1 TAGAGCTAGTAGACCATTTTTGTAATGTCG-TTCCA
* *
34764216 TAGAGCCAGTAGACCATTTTTGTGATGTCGTTCCA
1 TAGAGCTAGTAGACCATTTTTGTAATGTCGTTCCA
34764251 TAGAGCTAGTAGACCATTT
1 TAGAGCTAGTAGACCATTT
34764270 CCCAACCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
34 2 0.04
35 48 0.96
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (35 bp):
TAGAGCTAGTAGACCATTTTTGTAATGTCGTTCCA
Found at i:34766607 original size:27 final size:27
Alignment explanation
Indices: 34766555--34766607 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
34766545 AAGATTGTTA
**
34766555 AAATGTTTCTAAAAGAAAACTTAAGAG
1 AAATGTTTCTAAAAGAAAACACAAGAG
*
34766582 AAAT-TTTTTAAAAGAAAAACACAAGA
1 AAATGTTTCTAAAAG-AAAACACAAGA
34766608 AATTTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (27 bp):
AAATGTTTCTAAAAGAAAACACAAGAG
Found at i:34768754 original size:55 final size:54
Alignment explanation
Indices: 34768686--34768816 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 54
34768676 CCCTTAGCCT
* *
34768686 GTGTGCAACACTGACTTTAAAACACGGCCATGACACACGCC-CGTGTGGCCTGCCC
1 GTGTACAA-ACTGACTTTAAAACACGGCCATGACACACGCCTC-TGTGGCCTACCC
34768741 GTGTACAAGACTGACTTTAAAACACGGCCATGACACACGCCTCTGTGGCCTACCC
1 GTGTACAA-ACTGACTTTAAAACACGGCCATGACACACGCCTCTGTGGCCTACCC
34768796 GTGTACTAAACTGAC-TTAAAA
1 GTGTAC-AAACTGACTTTAAAA
34768817 TTTTAAGTGC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
54 6 0.08
55 62 0.87
56 3 0.04
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (54 bp):
GTGTACAAACTGACTTTAAAACACGGCCATGACACACGCCTCTGTGGCCTACCC
Found at i:34769735 original size:47 final size:46
Alignment explanation
Indices: 34769626--34769843 Score: 232
Period size: 47 Copynumber: 4.7 Consensus size: 46
34769616 TATACGTTTT
* * * * *
34769626 GATGCATGTCTCAGACATGTTTTACACTAGCAC-GACTC-TTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCATCAGGCC
34769670 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATC-AGGCC
* * *
34769717 GATGCATATCCCAAACATGTCTTACACTGGCACTCATC-TCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATC-AGGCC
* *
34769763 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-ATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCA-GGCC
*
34769811 GATGCATGTCCCATACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
34769844 ACAAGAAATC
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
44 30 0.20
45 3 0.02
46 27 0.18
47 63 0.42
48 25 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCAGGCC
Found at i:34769815 original size:94 final size:90
Alignment explanation
Indices: 34769573--34769843 Score: 280
Period size: 94 Copynumber: 2.9 Consensus size: 90
34769563 TGGGATAAGT
* * * ** *
34769573 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGCATATACGTTTTGATGCATGTCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACT--CATATA-G-GCTGATGCATGTCCC
* * * *
34769638 AGACATGTTTTACACTAGCACGACTCTTA
62 AAACATGTCTTACACTGGCACCACTCTTA
* *
34769667 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTA-TCATCATCGAGGCCGATGCATATCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCAT-AT--AGGCTGATGCATGTCCC
34769729 AAACATGTCTTACACTGGCACTCA-TCTCTA
62 AAACATGTCTTACACTGGCAC-CACTCT-TA
34769759 CGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATATGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT-ATA-GGCTGATGCATGTCCCA
*
34769824 TACATGTCTTACACTGGCAC
63 AACATGTCTTACACTGGCAC
34769844 ACAAGAAATC
Statistics
Matches: 150, Mismatches: 16, Indels: 22
0.80 0.09 0.12
Matches are distributed among these distances:
90 3 0.02
91 33 0.22
92 16 0.11
93 23 0.15
94 56 0.37
95 19 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (90 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATATAGGCTGATGCATGTCCCAAAC
ATGTCTTACACTGGCACCACTCTTA
Found at i:34776058 original size:15 final size:15
Alignment explanation
Indices: 34776038--34776093 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
34776028 CTTCACACGC
34776038 CCGTGTGGATAAAGA
1 CCGTGTGGATAAAGA
*
34776053 CCGTGTGG-TCACACACA
1 CCGTGTGGAT-A-A-AGA
34776070 CTCGTGTGGATAAAGA
1 C-CGTGTGGATAAAGA
*
34776086 CCTTGTGG
1 CCGTGTGG
34776094 TCACACACGC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 1 0.03
15 15 0.45
16 4 0.12
17 4 0.12
18 8 0.24
19 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (15 bp):
CCGTGTGGATAAAGA
Found at i:34776076 original size:33 final size:33
Alignment explanation
Indices: 34776039--34776101 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
34776029 TTCACACGCC
34776039 CGTGTGGATAAAGACCGTGTGGTCACACACACT
1 CGTGTGGATAAAGACCGTGTGGTCACACACACT
*
34776072 CGTGTGGATAAAGACCTTGTGGTCACACAC
1 CGTGTGGATAAAGACCGTGTGGTCACACAC
34776102 GCCCGTCTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (33 bp):
CGTGTGGATAAAGACCGTGTGGTCACACACACT
Found at i:34776077 original size:18 final size:18
Alignment explanation
Indices: 34776053--34776129 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
34776043 TGGATAAAGA
34776053 CCGTGTGGTCACACACAC
1 CCGTGTGGTCACACACAC
* *
34776071 TCGTGTGGAT-A-A-AGA-
1 CCGTGTGG-TCACACACAC
* *
34776086 CCTTGTGGTCACACACGC
1 CCGTGTGGTCACACACAC
*
34776104 CCGTCTGGTCACACACAC
1 CCGTGTGGTCACACACAC
34776122 CCGTGTGG
1 CCGTGTGG
34776130 CTTGGGAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
14 1 0.02
15 7 0.16
16 3 0.07
17 2 0.05
18 30 0.68
19 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (18 bp):
CCGTGTGGTCACACACAC
Found at i:34776198 original size:55 final size:53
Alignment explanation
Indices: 34776138--34776251 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 53
34776128 GGCTTGGGAA
* * * * *
34776138 ACGCCCG-TGCCCTTAGCCCGTGTGCAATACTGACTTTAAAACATGGCTATGACAC
1 ACGCCCGATG-CCTT-GCCCGTGTACAACACTGACATT-AAACACGGCCATGACAC
*
34776193 ACGCCCGTATGGCTTGCCCGTGTACAACACTGACATTAAACACGGCCATGACAC
1 ACGCCCG-ATGCCTTGCCCGTGTACAACACTGACATTAAACACGGCCATGACAC
34776247 ACGCC
1 ACGCC
34776252 TATGTGGCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 20 0.39
55 26 0.51
56 3 0.06
57 2 0.04
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.20
Consensus pattern (53 bp):
ACGCCCGATGCCTTGCCCGTGTACAACACTGACATTAAACACGGCCATGACAC
Found at i:34776267 original size:54 final size:52
Alignment explanation
Indices: 34776154--34776285 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 52
34776144 GTGCCCTTAG
* * * * * *
34776154 CCCGTGTGCAATACTGACTTTAAAACATGGCTATGACACACGCCCGTATGGCTTG
1 CCCGTGTACAA-ACTGAC-TT-AAACACGGCCATGACACACGCCCATATGGCCTA
* *
34776209 CCCGTGTACAACACTGACATTAAACACGGCCATGACACACGCCTATGTGGCCTA
1 CCCGTGTACAA-ACTGAC-TTAAACACGGCCATGACACACGCCCATATGGCCTA
34776263 CCCGTGTACTAAACTGACTTAAA
1 CCCGTGTAC-AAACTGACTTAAA
34776286 ATTTTAAATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
53 5 0.08
54 41 0.62
55 20 0.30
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (52 bp):
CCCGTGTACAAACTGACTTAAACACGGCCATGACACACGCCCATATGGCCTA
Found at i:34777201 original size:47 final size:48
Alignment explanation
Indices: 34777139--34777312 Score: 191
Period size: 47 Copynumber: 3.7 Consensus size: 48
34777129 ACGACTCTTA
*
34777139 GCCGATACATGTCCCAGACA-CATCTTACACTGGCTA-TCATCATCGAC
1 GCCGATGCATGTCCCAGACATCATCTTACACTGGC-ACTCATCATCGAC
* * *
34777186 GCTGATGCATGTCCCAGACATGA-CTTACACTGGCACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACATCATCTTACACTGGCACTCATCATCGAC
* * **
34777232 GCCAATGCCATGTCCCAGACATGC-TCTTACACTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-CATCTTACACTGGCACTCATCATCGAC
*
34777280 GCCGATGCATGTCCCAGACAT-GTCTTACACTGG
1 GCCGATGCATGTCCCAGACATCATCTTACACTGG
34777313 TACACACGAA
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
46 21 0.19
47 62 0.57
48 24 0.22
49 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATCATCTTACACTGGCACTCATCATCGAC
Found at i:34783319 original size:39 final size:40
Alignment explanation
Indices: 34783274--34783445 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
34783264 GCTCCTCGTT
* * *
34783274 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
34783314 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34783353 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
34783393 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
34783433 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34783446 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34783374 original size:40 final size:39
Alignment explanation
Indices: 34783276--34783498 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
34783266 TCCTCGTTCA
* * * *
34783276 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34783315 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
34783354 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
34783394 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
34783434 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
34783475 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34783499 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:34783458 original size:80 final size:79
Alignment explanation
Indices: 34783274--34783498 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
34783264 GCTCCTCGTT
* * * * *
34783274 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
34783338 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
34783353 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
34783418 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
34783433 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34783497 GA
63 GA
34783499 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:34783507 original size:41 final size:41
Alignment explanation
Indices: 34783430--34783507 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34783420 TTTGTATCTC
* * *
34783430 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34783471 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34783508 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34791240 original size:39 final size:40
Alignment explanation
Indices: 34791195--34791366 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
34791185 GCTCCTCGTT
* * *
34791195 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
34791235 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34791274 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
34791314 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
34791354 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34791367 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34791295 original size:40 final size:39
Alignment explanation
Indices: 34791197--34791419 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
34791187 TCCTCGTTCA
* * * *
34791197 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34791236 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
34791275 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
34791315 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
34791355 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
34791396 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34791420 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:34791379 original size:80 final size:79
Alignment explanation
Indices: 34791195--34791419 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
34791185 GCTCCTCGTT
* * * * *
34791195 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
34791259 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
34791274 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
34791339 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
34791354 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34791418 GA
63 GA
34791420 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:34791428 original size:41 final size:41
Alignment explanation
Indices: 34791351--34791428 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34791341 TTTGTATCTC
* * *
34791351 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34791392 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34791429 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34800657 original size:19 final size:19
Alignment explanation
Indices: 34800633--34800671 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34800623 ATAGCTGATG
34800633 AGGATATGTTAGAAAAAAA
1 AGGATATGTTAGAAAAAAA
34800652 AGGATATGTTAGAAAAAAA
1 AGGATATGTTAGAAAAAAA
34800671 A
1 A
34800672 CATATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGATATGTTAGAAAAAAA
Found at i:34802514 original size:10 final size:10
Alignment explanation
Indices: 34802501--34802548 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
34802491 CAAATATGTC
34802501 AAAATTAATA
1 AAAATTAATA
34802511 AAAATTAATCA
1 AAAATTAAT-A
* *
34802522 AAATTTGATA
1 AAAATTAATA
*
34802532 TAAAATTAATT
1 -AAAATTAATA
34802543 AAAATT
1 AAAATT
34802549 CAACATGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTAATA
Found at i:34802539 original size:22 final size:21
Alignment explanation
Indices: 34802499--34802548 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
34802489 TGCAAATATG
34802499 TCAAAA-TTAATAAAAATTAA
1 TCAAAATTTAATAAAAATTAA
*
34802519 TCAAAATTTGATATAAAATTAA
1 TCAAAATTTAATA-AAAATTAA
*
34802541 TTAAAATT
1 TCAAAATT
34802549 CAACATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 6 0.23
21 5 0.19
22 15 0.58
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
TCAAAATTTAATAAAAATTAA
Found at i:34805170 original size:46 final size:46
Alignment explanation
Indices: 34805080--34805251 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
34805070 AAGTCGAAGC
* *
34805080 CATGTCCCAGACATGGTCTTAGACTGACAATCA--TCTCGTAGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGC--TCACTTCTCG-AGCCAATG
34805127 CATGTCCCAGACAT-GTCTTACACTGGCTCACTTCTCGAGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCACTTCTCGA-GCCAATG
* * * *
34805173 TATGTCCCAGACAT-GTCTTACACT--ATCACTCGTCCCAATGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCACT--TCTCGA-GCCAATG
*
34805219 CCATGTCCCAGACATGGTCTTACACTAGCTCAC
1 -CATGTCCCAGACATGGTCTTACACTGGCTCAC
34805252 ACAAATGACC
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 8 0.07
45 1 0.01
46 57 0.53
47 27 0.25
48 10 0.09
50 4 0.04
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCACTTCTCGAGCCAATG
Found at i:34809292 original size:18 final size:18
Alignment explanation
Indices: 34809265--34809309 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34809255 TCCTTTGATA
*
34809265 GGGTTTGCATAAATATAT
1 GGGTTCGCATAAATATAT
**
34809283 GGGTTCGCATACCTATAT
1 GGGTTCGCATAAATATAT
*
34809301 GGGCTCGCA
1 GGGTTCGCA
34809310 CAATTTGCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (18 bp):
GGGTTCGCATAAATATAT
Found at i:34811832 original size:17 final size:18
Alignment explanation
Indices: 34811809--34811856 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
34811799 CTATAAGATA
34811809 AATATTAA-ATTAAATTT
1 AATATTAATATTAAATTT
*
34811826 GATATTAATATTAAATTT
1 AATATTAATATTAAATTT
34811844 AAT-TTAATATTAA
1 AATATTAATATTAA
34811857 GATAATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATATTAATATTAAATTT
Found at i:34811835 original size:23 final size:23
Alignment explanation
Indices: 34811809--34811902 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
34811799 CTATAAGATA
*
34811809 AATATTAAATTAAATTTGATATT
1 AATATTAAATTAAATTTAATATT
*
34811832 AATATTAAATTTAATTTAATATT
1 AATATTAAATTAAATTTAATATT
* * * *
34811855 AAGA-T-AA-TCACTTTAGTATT
1 AATATTAAATTAAATTTAATATT
*
34811875 AA-ATT-AATTTAATTTAATATT
1 AATATTAAATTAAATTTAATATT
34811896 AA-ATTAA
1 AATATTAA
34811903 TAAAATAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.02
20 15 0.25
21 17 0.29
22 2 0.03
23 24 0.41
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
AATATTAAATTAAATTTAATATT
Found at i:34811856 original size:11 final size:11
Alignment explanation
Indices: 34811821--34811904 Score: 50
Period size: 11 Copynumber: 7.8 Consensus size: 11
34811811 TATTAAATTA
*
34811821 AATTTGATATT
1 AATTTAATATT
34811832 AATATTAA-ATTT
1 AAT-TTAATA-TT
34811844 AATTTAATATT
1 AATTTAATATT
** *
34811855 AAGAT-A-ATC
1 AATTTAATATT
* *
34811864 ACTTTAGTATT
1 AATTTAATATT
*
34811875 AAATTAAT-TT
1 AATTTAATATT
34811885 AATTTAATATT
1 AATTTAATATT
*
34811896 AAATTAATA
1 AATTTAATA
34811905 AAATAATATT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
9 4 0.08
10 10 0.19
11 30 0.57
12 9 0.17
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (11 bp):
AATTTAATATT
Found at i:34816968 original size:16 final size:17
Alignment explanation
Indices: 34816947--34816980 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34816937 ACTCTCACTC
34816947 TCATTT-TCTTTTTCTT
1 TCATTTCTCTTTTTCTT
*
34816963 TCATTTCTTTTTTTCTT
1 TCATTTCTCTTTTTCTT
34816980 T
1 T
34816981 TCTCAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TCATTTCTCTTTTTCTT
Found at i:34818517 original size:41 final size:41
Alignment explanation
Indices: 34818381--34818517 Score: 143
Period size: 41 Copynumber: 3.3 Consensus size: 41
34818371 CGCTAATCAG
* *
34818381 AAAATGCCACAAAAGGTCTGGAATTAGCGGTGTTTGTGAGA
1 AAAACGCCACAAAAGGTCTAGAATTAGCGGTGTTTGTGAGA
* *
34818422 AAAACGCTGA-AAAAGGT-TTGACATTAGCGGTGTTTGTGAGA
1 AAAACGC-CACAAAAGGTCTAGA-ATTAGCGGTGTTTGTGAGA
* * * * * *
34818463 AAAACACCGCAAAATGTCTAGTATTAGCGGTGTTTATGACA
1 AAAACGCCACAAAAGGTCTAGAATTAGCGGTGTTTGTGAGA
*
34818504 AAAATGCCACAAAA
1 AAAACGCCACAAAA
34818518 AATTATTATA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 3 0.04
41 72 0.92
42 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (41 bp):
AAAACGCCACAAAAGGTCTAGAATTAGCGGTGTTTGTGAGA
Found at i:34819329 original size:14 final size:14
Alignment explanation
Indices: 34819226--34819393 Score: 63
Period size: 14 Copynumber: 11.7 Consensus size: 14
34819216 TTCATTTTGT
*
34819226 TTTAGGATTTAGAG
1 TTTAGGGTTTAGAG
* **
34819240 TCTATTGTTTAGAG
1 TTTAGGGTTTAGAG
*
34819254 TTTAGGGTGTATGA-
1 TTTAGGGTTTA-GAG
*
34819268 TTTAGGGCTTATG-G
1 TTTAGGGTTTA-GAG
* *
34819282 TTTTATGGTTTTATAG
1 -TTTA-GGGTTTAGAG
* *
34819298 TTTAGGATTTTAGTG
1 TTTAGG-GTTTAGAG
* *
34819313 TTTAGAGTTTAGGG
1 TTTAGGGTTTAGAG
* * *
34819327 TTTATGATTTATAG
1 TTTAGGGTTTAGAG
* * *
34819341 TTTAAGGTTTTGGG
1 TTTAGGGTTTAGAG
*
34819355 TTTTA-GGTTTAGTG
1 -TTTAGGGTTTAGAG
* *
34819369 TTTAAGGTTTAGTG
1 TTTAGGGTTTAGAG
34819383 TTTAAGGGTTT
1 TTT-AGGGTTT
34819394 TGATAAAACC
Statistics
Matches: 114, Mismatches: 31, Indels: 17
0.70 0.19 0.10
Matches are distributed among these distances:
13 4 0.04
14 73 0.64
15 31 0.27
16 6 0.05
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:34819350 original size:28 final size:28
Alignment explanation
Indices: 34819297--34819386 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
34819287 TGGTTTTATA
* *
34819297 GTTTAGGATTT-TAGTGTTTAGAGTTTAGG
1 GTTTATGATTTATAGT-TTAAG-GTTTAGG
*
34819326 GTTTATGATTTATAGTTTAAGGTTTTGG
1 GTTTATGATTTATAGTTTAAGGTTTAGG
* *
34819354 GTTT-TAGGTTTAGT-GTTTAAGGTTTAGT
1 GTTTAT-GATTTA-TAGTTTAAGGTTTAGG
34819382 GTTTA
1 GTTTA
34819387 AGGGTTTTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 1 0.02
28 31 0.61
29 15 0.29
30 4 0.08
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
GTTTATGATTTATAGTTTAAGGTTTAGG
Found at i:34819861 original size:41 final size:40
Alignment explanation
Indices: 34819816--34819940 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 40
34819806 AAAACAGTGC
* * * *
34819816 AAAAGGTAAGCAGTAGTGGCGTTTTCGTTGCAAACGCCACA
1 AAAAGGT-AGCAATAGTGGCGTTTTTGTTCCAAATGCCACA
* * * **
34819857 AAAAGTTGAGCAATAGTGTCGTTTTTGGTCCAAATGCCATT
1 AAAAGGT-AGCAATAGTGGCGTTTTTGTTCCAAATGCCACA
*
34819898 AAAAGTGTAGCAATAGTGGCGTTTTTATTCCAAATGCCACA
1 AAAAG-GTAGCAATAGTGGCGTTTTTGTTCCAAATGCCACA
34819939 AA
1 AA
34819941 TATGTTTTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 66 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAGGTAGCAATAGTGGCGTTTTTGTTCCAAATGCCACA
Found at i:34821156 original size:23 final size:23
Alignment explanation
Indices: 34821130--34822528 Score: 896
Period size: 23 Copynumber: 61.4 Consensus size: 23
34821120 TTAATTTATT
*
34821130 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
**
34821153 AAGTGTTTAAATATTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821176 AAGTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
34821199 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
34821222 -AGATGTTT-TATCACTGT-AATTT
1 AAG-TGTTTAAAT-GCTGTAAATTG
* * * *
34821244 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821267 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
34821290 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821313 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
34821336 AAGTTTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
34821359 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
34821382 -AGATGCTTT--ATCGCTGT-AATTG
1 AAG-TG-TTTAAAT-GCTGTAAATTG
* * ** *
34821404 AGGTGTATAAATATTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821427 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
* * * *
34821450 AAGTGTATAAATGTTATAAATTA
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821473 AAGTGTTTAAATGTTGTAAATTT
1 AAGTGTTTAAATGCTGTAAATTG
* * *
34821496 AATTGTTTAAGTGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
**
34821519 AAGTGTTTAGTTGCTAG-AAATTG
1 AAGTGTTTAAATGCT-GTAAATTG
* * *
34821542 -AGATGTTTTATTGCTAT-AATTG
1 AAG-TGTTTAAATGCTGTAAATTG
* * * *
34821564 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821587 -AGAT-TTTAAAGTGATGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
*
34821610 AAGTGTTTAAATGCTATAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* **
34821633 AAGTG-TTAAAGTACTACAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
*
34821656 AAGTGTTTAAATGCAGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821679 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821702 AAGTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
34821725 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821748 -AGATGTTT-TATCGCTGT-AATTG
1 AAG-TGTTTAAAT-GCTGTAAATTG
* * * *
34821770 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821793 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
*
34821816 AAGTGTTTAAATGCTATAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821839 AAGTG-TTAAAGTGCTATAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
* *
34821862 AAGTGTGTAAATGCTATAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34821885 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
34821908 AATTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* ** * *
34821931 AAGTATTTAGTTGTTGAAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821954 -AGATGTTT-TATCGCTAT-AATTG
1 AAG-TGTTTAAAT-GCTGTAAATTG
** * * *
34821976 GGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34821999 -AGATG-TTAAAGTGATGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
* *
34822022 AAGTGTTCAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34822045 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
*
34822068 AAGTGTTTAAATGCTCTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34822091 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
34822114 AATTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* ** * *
34822137 AAGTATTTAGTTGTTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34822160 -AGATGTTT-TATCACTGT-AATTG
1 AAG-TGTTTAAAT-GCTGTAAATTG
* * * * *
34822182 AGGTGTATAAATGTTTTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
**
34822205 -AGATG-TTAAACTGCTACAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
34822228 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34822251 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
* *
34822274 AAGTGTTT-AA----GTAGATTT
1 AAGTGTTTAAATGCTGTAAATTG
*
34822292 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34822315 AA-TAGTTTAAGTGCTGCAAATTG
1 AAGT-GTTTAAATGCTGTAAATTG
* ** * *
34822338 AAGTATTTAGTTGTTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
34822361 -AGATGTTT-TATCACTGT-AATTG
1 AAG-TGTTTAAAT-GCTGTAAATTG
* * * ** *
34822383 AGGGGTATAAATATTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
34822406 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
* * *
34822429 AAGTGCTTAAATGTTGTAAATTA
1 AAGTGTTTAAATGCTGTAAATTG
*
34822452 AAGTG-TTAAAGTGCTATAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
* *
34822475 AAGTGTTTAAATGTTGTAAATTA
1 AAGTGTTTAAATGCTGTAAATTG
* **
34822498 AAGTGTTTAAGTGCTACAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
34822521 AA-TGTTTA
1 AAGTGTTTA
34822529 GTTGCTGGTT
Statistics
Matches: 1072, Mismatches: 222, Indels: 165
0.73 0.15 0.11
Matches are distributed among these distances:
18 13 0.01
19 2 0.00
21 2 0.00
22 170 0.16
23 811 0.76
24 74 0.07
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
AAGTGTTTAAATGCTGTAAATTG
Found at i:34821401 original size:160 final size:160
Alignment explanation
Indices: 34821130--34821939 Score: 852
Period size: 160 Copynumber: 5.1 Consensus size: 160
34821120 TTAATTTATT
* * *
34821130 AAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATATTGTAAATTGAAGTGTTTAAGTGCTGCAA
1 AAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAA
* *
34821195 ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCACTGTAATTTAGGTGTATAAATGTTG
66 ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
34821260 TTAATTGAGATGTTAAAGTGCTGCAAATTG
131 TTAATTGAGATGTTAAAGTGCTGCAAATTG
* *
34821290 AAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTGCTGCAA
1 AAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAA
* *
34821355 ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATATTG
66 ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
34821420 TTAATTGAGATGTTAAAGTGCTGCAAATTG
131 TTAATTGAGATGTTAAAGTGCTGCAAATTG
* * * * * * *
34821450 AAGTGTATAAATGTTATAAATTAAAGTGTTTAAATGTTGTAAATTTAATTGTTTAAGTGTTGTAA
1 AAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAA
* * *
34821515 ATTGAAGTGTTTAGTTGCTAGAAATTGAGATGTTTTATTGCTATAATTGAGGTGTATAAATGTTG
66 ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
* *
34821580 TTAATTGAGATTTTAAAGTGATGCAAATTG
131 TTAATTGAGATGTTAAAGTGCTGCAAATTG
** * * *
34821610 AAGTGTTTAAATGCTATAAATTGAAGTG-TTAAA-GTACTACAAATTGAAGTGTTTAAATGCAGT
1 AAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGT--TGTAAATTGAAGTGTTTAAGTGCTGC
** * * * * * * **
34821673 AAATTGAAGTGTTTAAATGTTGTAAATTGA-AGTGTTTAAGT-GCTGCAAATTGAAGTGTTTAGT
64 AAATTGAAGTGTTTAGTTGCTGGAAATTGAGA-TGTTTTA-TCGCTG-TAATTGAGGTGTATAAA
* ** ** *
34821736 TGCTGGAAATTGAGATGTTTTA-TCGCTG-TAATTG
126 TGTTGTTAATTGAGATGTTAAAGT-GCTGCAAATTG
* * * * * * * * **
34821770 AGGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTAT
1 AAGTGTTTAAATGCTATAAATTGAAG-TGTTTAAA-TGTTGTAAATTGAAGTGTTTAAGTGCTGC
* ** ** * * *
34821833 AAATTGAAGTGTTAAAG-TGCTATAAATTGA-AGTGTGTAAAT-GCTATAAATTGAAGTGTTTAA
64 AAATTGAAGTGTT-TAGTTGCTGGAAATTGAGA-TGT-TTTATCGCTGT-AATTGAGGTGTATAA
* *
34821895 ATGTTGTAAATTGA-ATTGTTTAAGTGCTGCAAATTG
125 ATGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTG
*
34821931 AAGTATTTA
1 AAGTGTTTA
34821940 GTTGTTGAAA
Statistics
Matches: 557, Mismatches: 78, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
158 2 0.00
159 9 0.02
160 497 0.89
161 48 0.09
162 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (160 bp):
AAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAA
ATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
TTAATTGAGATGTTAAAGTGCTGCAAATTG
Found at i:34821505 original size:206 final size:203
Alignment explanation
Indices: 34821147--34822507 Score: 1550
Period size: 206 Copynumber: 6.6 Consensus size: 203
34821137 TAAATGTTGT
* * * * **
34821147 AAATTGAAGTGTTTAAATATTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTT
1 AAATTGAGGTGTATAAATGTTGTTAATTGAGA-TG-TTAAGTGCTGCAAATTGAAGTGTTTAAAT
* ** * * * * * * *
34821211 GCTGGAAATTG-AGATGTTTTA-TCACTG-TAATTTAGGTGTATAAATGTTGTTAATTG-AGATG
64 GCTGTAAATTGAAG-TGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATG-TATAAATTGAAG-TG
* * * * * * ** *
34821272 -TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTG
125 TTTAAA-TGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTG
34821336 A-A-GTTTTTAAGTGCTG
189 AGATG-TTTT-A-TGCTG
* * ** * ** * * * *
34821352 CAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGCTTTA-TCGCTG-TAATTGAGGTGTATAAA
1 -AAATTGAGGTGTATAAATGTTGTTAATTGAGATG-TTAAGT-GCTGCAAATTGAAGTGTTTAAA
** * * *
34821415 TATTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTATAAATTAAAGTGT
63 TGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TATAAATTGAAGTGT
* * * * * *
34821479 TTAAATGTTGTAAATTTAATTGTTTAAGTGTTGTAAATTGAAGTGTTTAGTTGCTAGAAATTGAG
126 TTAAATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAG
34821544 ATGTTTTATTGCT-
191 ATGTTTTA-TGCTG
* *
34821557 ATAATTGAGGTGTATAAATGTTGTTAATTGAGATTTTAAAGTGATGCAAATTGAAGTGTTTAAAT
1 A-AATTGAGGTGTATAAATGTTGTTAATTGAGATGTT-AAGTGCTGCAAATTGAAGTGTTTAAAT
* * * *
34821622 GCTATAAATTGAAGTGTTAAAGTACTACAAATTGAAGTGTTTAAATGCAGTAAATTGAAGTGTTT
64 GCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTA-TAAATTGAAGTGTTT
* * *
34821687 AAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGAT
128 AAATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGAT
34821752 GTTTTATCGCTG
193 GTTTTAT-GCTG
*
34821764 TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
1 AAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT-AAGTGCTGCAAATTGAAGTGTTTAAATG
* ** *
34821829 CTATAAATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTGTAAATGCTATAAATTGAAGTGTTTA
65 CTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TATAAATTGAAGTGTTTA
*
34821894 AATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGAAAATTGAGATG
129 AATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGATG
34821959 TTTTATCGCT-
194 TTTTAT-GCTG
* * *
34821969 ATAATTGGGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGATGCAAATTGAAGTGTTCAAAT
1 A-AATTGAGGTGTATAAATGTTGTTAATTGAGATGTT-AAGTGCTGCAAATTGAAGTGTTTAAAT
* *
34822034 GTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTCTAAATTGAAGTGTTT
64 GCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TATAAATTGAAGTGTTT
34822099 AAATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGAT
128 AAATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGAT
*
34822164 GTTTTATCACTG
193 GTTTTAT-GCTG
* * * *
34822176 TAATTGAGGTGTATAAATGTTTTTAATTGAGATGTTAAACTGCTACAAATTGAAGTGTTTAAATG
1 AAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT-AAGTGCTGCAAATTGAAGTGTTTAAATG
* *
34822241 CTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-AA-G--TAGATTTAAGTGTTTAA
65 CTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTATAAATTGAAGTGTTTAA
*
34822302 ATGTTGTAAATTGAATAGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGATGT
130 ATGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGATGT
*
34822367 TTTATCACTG
195 TTTAT-GCTG
* * * *
34822377 TAATTGAGGGGTATAAATATTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATG
1 AAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT-AAGTGCTGCAAATTGAAGTGTTTAAATG
* * ** * *
34822442 TTGTAAATTAAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTAAAGTGTTTA
65 CTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TATAAATTGAAGTGTTTA
34822507 A
129 A
34822508 GTGCTACAAA
Statistics
Matches: 1021, Mismatches: 110, Indels: 48
0.87 0.09 0.04
Matches are distributed among these distances:
201 185 0.18
202 2 0.00
203 1 0.00
204 4 0.00
205 65 0.06
206 747 0.73
207 16 0.02
208 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (203 bp):
AAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
TGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTATAAATTGAAGTGTTTAAA
TGTTGTAAATTGAATTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGTTGGAAATTGAGATGTT
TTATGCTG
Found at i:34823245 original size:43 final size:43
Alignment explanation
Indices: 34823198--34823448 Score: 270
Period size: 43 Copynumber: 5.9 Consensus size: 43
34823188 ACCTTTTGAA
* * *
34823198 GCGTTTTTGGGAAAAGCGCCACTAAAAGTCATGTTTTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
* * * *
34823241 GCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGTTTTTTAGTG
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
* * * *
34823284 GCATTTATGGGGAAAGCGCTACTAAAGGTCATGTTCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
** **
34823327 GCAATTGTGGCTAAAGCGCCACTAAAGGTCATG-TCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
* * ** * * **
34823369 ACGTTTGTGGGTAAAGCGCTGCTAAAGGTCATATTCTATAATG
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
* *
34823412 GCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCT
1 GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCT
34823449 ATAACGGCCT
Statistics
Matches: 177, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 35 0.20
43 142 0.80
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
GCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCG
Found at i:34823395 original size:128 final size:129
Alignment explanation
Indices: 34823210--34823448 Score: 336
Period size: 128 Copynumber: 1.9 Consensus size: 129
34823200 GTTTTTGGGA
* * *
34823210 AAAGCGCCACTAAAAGTCATGTTTTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGT
1 AAAGCGCCACTAAAAGTCATGTTCTTTAGCGACGTTTATGGGAAAAGCGCCGCTAAAGGTCATAT
* * * * *
34823275 TTTTTAGTGGCATTTATGGGGAAAGCGCTACTAAAGGTCATGTTCTTTAGCGGCAATTGTGGCT
66 TCTATAATGGCATTTATGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCAATTGTGGCT
* * * *
34823339 AAAGCGCCACTAAAGGTCATG-TCTTTAGCGACGTTTGTGGGTAAAGCGCTGCTAAAGGTCATAT
1 AAAGCGCCACTAAAAGTCATGTTCTTTAGCGACGTTTATGGGAAAAGCGCCGCTAAAGGTCATAT
* * *
34823403 TCTATAATGGCCTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCT
66 TCTATAATGGCATTTATGGGAAAAGCGCCACTAAAGGTCATGTTCT
34823449 ATAACGGCCT
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
128 75 0.79
129 20 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (129 bp):
AAAGCGCCACTAAAAGTCATGTTCTTTAGCGACGTTTATGGGAAAAGCGCCGCTAAAGGTCATAT
TCTATAATGGCATTTATGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCAATTGTGGCT
Found at i:34823420 original size:85 final size:85
Alignment explanation
Indices: 34823252--34823445 Score: 235
Period size: 85 Copynumber: 2.3 Consensus size: 85
34823242 CGTTTATGGG
* * * *
34823252 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCATTTATGGGGAAAGCGCTACTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCATG-TCTTTAGCGACATTTATGGGGAAAGCGCTACTAAAGGTCATA
* *
34823317 TTCTTTAGCGGCAATTGTGGC
65 TTCTATAACGGCAATTGTGGC
* * * * * *
34823338 TAAAGCGCCACTAAAGGTCATGTCTTTAGCGACGTTTGTGGGTAAAGCGCTGCTAAAGGTCATAT
1 AAAAGCGCCGCTAAAGGTCATGTCTTTAGCGACATTTATGGGGAAAGCGCTACTAAAGGTCATAT
* ** *
34823403 TCTATAATGGCCTTTGTGGG
66 TCTATAACGGCAATTGTGGC
34823423 AAAAGCGCCGCTAAAGGTCATGT
1 AAAAGCGCCGCTAAAGGTCATGT
34823446 TCTATAACGG
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
85 70 0.78
86 20 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAGGTCATGTCTTTAGCGACATTTATGGGGAAAGCGCTACTAAAGGTCATAT
TCTATAACGGCAATTGTGGC
Found at i:34823657 original size:36 final size:36
Alignment explanation
Indices: 34823610--34823682 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
34823600 TTGCCGTAGT
34823610 GCAAGAATGATGCAACACTATAGAAAGTGTCGTCCC
1 GCAAGAATGATGCAACACTATAGAAAGTGTCGTCCC
*
34823646 GCAAGAATGATGCAACACTATAGAGAGTGTCGTCCC
1 GCAAGAATGATGCAACACTATAGAAAGTGTCGTCCC
34823682 G
1 G
34823683 AGACTTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (36 bp):
GCAAGAATGATGCAACACTATAGAAAGTGTCGTCCC
Found at i:34826096 original size:26 final size:26
Alignment explanation
Indices: 34826067--34826177 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
34826057 AGCATGGCTG
* * *
34826067 CCAGAACATATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
34826093 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
34826120 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34826147 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
34826174 CCAG
1 CCAG
34826178 GACACTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.16
27 61 0.81
28 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34827575 original size:24 final size:24
Alignment explanation
Indices: 34827542--34827647 Score: 135
Period size: 24 Copynumber: 4.4 Consensus size: 24
34827532 GCCGGCCAAC
34827542 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTTGATCAGCTCCTAAA
*
34827567 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCCTTGATCAGCTCCTAAA
* *
34827591 TCCTCTCCCTT-ATCAGCTCCTATA
1 TCTTCT-CCTTGATCAGCTCCTAAA
*
34827615 TCCTCTCCCTTG-TCAGCTCCTAAA
1 TCTTCT-CCTTGATCAGCTCCTAAA
34827639 TCTTCTCCT
1 TCTTCTCCT
34827648 GATAGCCTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 3 0.04
24 63 0.85
25 8 0.11
ACGTcount: A:0.17, C:0.38, G:0.07, T:0.39
Consensus pattern (24 bp):
TCTTCTCCTTGATCAGCTCCTAAA
Found at i:34828334 original size:18 final size:19
Alignment explanation
Indices: 34828307--34828354 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
34828297 GGCCCATTGT
34828307 AGTAACAGTAAAT-AGTGC
1 AGTAACAGTAAATCAGTGC
* *
34828325 AGTAATAGT-AATCAGTGT
1 AGTAACAGTAAATCAGTGC
34828343 AGTAACAGTAAA
1 AGTAACAGTAAA
34828355 CTGCATGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 20 0.80
19 2 0.08
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (19 bp):
AGTAACAGTAAATCAGTGC
Found at i:34828715 original size:27 final size:27
Alignment explanation
Indices: 34828685--34828881 Score: 213
Period size: 27 Copynumber: 7.3 Consensus size: 27
34828675 ACATACATCA
34828685 CATAAGGGCAAAACTGTCATTTTACCT
1 CATAAGGGCAAAACTGTCATTTTACCT
34828712 CATAAGGGCAAAACTGTCATTTTACCT
1 CATAAGGGCAAAACTGTCATTTTACCT
* * *
34828739 CATAAGGGCAAAATTGTCATTTTATCA
1 CATAAGGGCAAAACTGTCATTTTACCT
** * *
34828766 CATAAGGGCAAAACAATCATTTTGCCA
1 CATAAGGGCAAAACTGTCATTTTACCT
*
34828793 CACAAGGGCAAAACCT-TCATTTTACCT
1 CATAAGGGCAAAA-CTGTCATTTTACCT
* * *
34828820 CATAAGGG-AAAAATCGTTATTTTATCAT
1 CATAAGGGCAAAACT-GTCATTTTA-CCT
*
34828848 -ATAAGGGCAAAA-TAGTCATTTTATCT
1 CATAAGGGCAAAACT-GTCATTTTACCT
*
34828874 CGTAAGGG
1 CATAAGGG
34828882 TTCAGGTACG
Statistics
Matches: 143, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 5 0.03
27 130 0.91
28 7 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (27 bp):
CATAAGGGCAAAACTGTCATTTTACCT
Found at i:34828769 original size:81 final size:81
Alignment explanation
Indices: 34828681--34828881 Score: 271
Period size: 81 Copynumber: 2.5 Consensus size: 81
34828671 ATACACATAC
34828681 ATCACATAAGGGCAAAACTGTCATTTTACCTCATAAGGGCAAAA-CTGTCATTTTACCTCATAAG
1 ATCACATAAGGGCAAAACTGTCATTTTACCTCATAAGGGCAAAACCT-TCATTTTACCTCATAAG
* *
34828745 GGCAAAATTGTCATTTT
65 GGAAAAATCGTCATTTT
** * * *
34828762 ATCACATAAGGGCAAAACAATCATTTTGCCACACAAGGGCAAAACCTTCATTTTACCTCATAAGG
1 ATCACATAAGGGCAAAACTGTCATTTTACCTCATAAGGGCAAAACCTTCATTTTACCTCATAAGG
*
34828827 GAAAAATCGTTATTTT
66 GAAAAATCGTCATTTT
* * *
34828843 ATCATATAAGGGCAAAA-TAGTCATTTTATCTCGTAAGGG
1 ATCACATAAGGGCAAAACT-GTCATTTTACCTCATAAGGG
34828882 TTCAGGTACG
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 100 0.98
82 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (81 bp):
ATCACATAAGGGCAAAACTGTCATTTTACCTCATAAGGGCAAAACCTTCATTTTACCTCATAAGG
GAAAAATCGTCATTTT
Found at i:34831418 original size:34 final size:34
Alignment explanation
Indices: 34831380--34831449 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
34831370 GACTAGTCAT
34831380 CTCTCCAATTGTAATTGTAGACGACATAATAATC
1 CTCTCCAATTGTAATTGTAGACGACATAATAATC
34831414 CTCTCCAATTGTAATTGTAGACGACATAATAATC
1 CTCTCCAATTGTAATTGTAGACGACATAATAATC
34831448 CT
1 CT
34831450 TCTTAGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (34 bp):
CTCTCCAATTGTAATTGTAGACGACATAATAATC
Found at i:34832554 original size:23 final size:23
Alignment explanation
Indices: 34832528--34832583 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
34832518 AAAACTAAAT
*
34832528 AATATTAAAAATAACAACGGAAC
1 AATATTAAAAATAACAACGAAAC
* **
34832551 AATA-TAATAAATAGCTGCGAAAC
1 AATATTAA-AAATAACAACGAAAC
34832574 AATATTAAAA
1 AATATTAAAA
34832584 TAGTATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.11
23 21 0.78
24 3 0.11
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.21
Consensus pattern (23 bp):
AATATTAAAAATAACAACGAAAC
Found at i:34834646 original size:28 final size:28
Alignment explanation
Indices: 34834553--34834646 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 28
34834543 AATAGGTTCA
*
34834553 CCACAAAAACTTACCTTTCCAAAGTTTTG
1 CCAC-AAAGCTTACCTTTCCAAAGTTTTG
* * * *
34834582 CCACAAAGGTTGTCCTTT-TACAAG-TTCG
1 CCACAAAGCTT-ACCTTTCCA-AAGTTTTG
34834610 CCACGAAAGCTTACCTTTCCAAAGTTTTG
1 CCAC-AAAGCTTACCTTTCCAAAGTTTTG
*
34834639 CCATAAAG
1 CCACAAAG
34834647 GATAACCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (28 bp):
CCACAAAGCTTACCTTTCCAAAGTTTTG
Found at i:34834656 original size:57 final size:57
Alignment explanation
Indices: 34834548--34834659 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 57
34834538 CCTTTAATAG
* **
34834548 GTTCACCACAAAAACTTACCTTTCCAAAGTTTTGCCACAAAGGTTGTCCTTTTACAA
1 GTTCACCACAAAAACTTACCTTTCCAAAGTTTTGCCACAAAGGATAACCTTTTACAA
* * * *
34834605 GTTCGCCACGAAAGCTTACCTTTCCAAAGTTTTGCCATAAAGGATAACCTTTTAC
1 GTTCACCACAAAAACTTACCTTTCCAAAGTTTTGCCACAAAGGATAACCTTTTAC
34834660 TGGTGTTCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (57 bp):
GTTCACCACAAAAACTTACCTTTCCAAAGTTTTGCCACAAAGGATAACCTTTTACAA
Found at i:34834903 original size:53 final size:53
Alignment explanation
Indices: 34834772--34834906 Score: 191
Period size: 53 Copynumber: 2.5 Consensus size: 53
34834762 TTAAATTTTC
* ** *
34834772 CTATATGATGTCATAACCTACCAGTTATAGTCTTACACGATATGGTATTCTTT
1 CTATATGATGTCATAACCTACTAGTTACGGCCTTACACGATATGGTATTCTTT
* *
34834825 -TCATATGATGTCATAACCCACTAGTTACGGCCTTACACGATATGGTCTTCTTT
1 CT-ATATGATGTCATAACCTACTAGTTACGGCCTTACACGATATGGTATTCTTT
*
34834878 CTATATGATGTCATAACCTAATAGTTACG
1 CTATATGATGTCATAACCTACTAGTTACG
34834907 ATCTTATATG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 70 0.97
54 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (53 bp):
CTATATGATGTCATAACCTACTAGTTACGGCCTTACACGATATGGTATTCTTT
Found at i:34834920 original size:53 final size:53
Alignment explanation
Indices: 34834772--34834926 Score: 188
Period size: 53 Copynumber: 2.9 Consensus size: 53
34834762 TTAAATTTTC
* * *
34834772 CTATATGATGTCATAACCTACCAGTTA-TAGTCTTACACGATATGGTATTCTTT
1 CTATATGATGTCATAACCTACTAGTTACGA-TCTTACACGATATGGTCTTCTTT
* **
34834825 -TCATATGATGTCATAACCCACTAGTTACGGCCTTACACGATATGGTCTTCTTT
1 CT-ATATGATGTCATAACCTACTAGTTACGATCTTACACGATATGGTCTTCTTT
* * * *
34834878 CTATATGATGTCATAACCTAATAGTTACGATCTTATATGATATTGTCTT
1 CTATATGATGTCATAACCTACTAGTTACGATCTTACACGATATGGTCTT
34834927 ATTTAGTGTC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 84 0.98
54 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (53 bp):
CTATATGATGTCATAACCTACTAGTTACGATCTTACACGATATGGTCTTCTTT
Found at i:34837525 original size:47 final size:46
Alignment explanation
Indices: 34837455--34837726 Score: 225
Period size: 46 Copynumber: 5.8 Consensus size: 46
34837445 GGGTATAATA
**
34837455 CCGATGCCACATCCCAGACATGGTCTTACACTGGCTCATCTATC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--TCGAAG
* * *
34837502 TCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC----TCGAAG
* * * * *
34837551 CCGACGCCATGTCCCAGACATAGTCTTACACTGACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGAAG
* * * *
34837597 CCGATG-CATGTCCCAAACAT-ATCTTACACTAGCCTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GGCT-CATCTCGAAG
* * *
34837643 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTTTCGTCTC-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCATCTCGAA-G
* *
34837689 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
34837727 CAAATAACCC
Statistics
Matches: 183, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
44 9 0.05
45 17 0.09
46 60 0.33
47 45 0.25
48 15 0.08
49 34 0.19
50 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGAAG
Found at i:34840351 original size:16 final size:17
Alignment explanation
Indices: 34840330--34840384 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
34840320 GTTTGGCTCA
34840330 CTGTAATGGAATAAG-G
1 CTGTAATGGAATAAGAG
*
34840346 CTGTAATTGAAT-AGAG
1 CTGTAATGGAATAAGAG
*
34840362 CTGTAATGTAAT-AGAG
1 CTGTAATGGAATAAGAG
*
34840378 TTGTAAT
1 CTGTAAT
34840385 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 2 0.06
16 32 0.94
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.33
Consensus pattern (17 bp):
CTGTAATGGAATAAGAG
Found at i:34840616 original size:58 final size:57
Alignment explanation
Indices: 34840550--34840688 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 57
34840540 TATTCTTATT
* * * *
34840550 AAATTTTAATA-AGATTATTATTAAAAATATTTTGATAAATATAATAAATAATTTAACC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAA-ATAATAAATAAATTAACA
* * * * *
34840608 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAAATTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAAATTAACA
34840665 AAATTCTTAATATAATTATTATTA
1 AAATT-TTAATATAATTATTATTA
34840689 TATGAATTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 18 0.26
58 49 0.72
59 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (57 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAAATTAACA
Found at i:34857247 original size:28 final size:29
Alignment explanation
Indices: 34857207--34857261 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
34857197 CACGGGCGAT
*
34857207 GACACGAGCGTGT-CTAGGCCGTGTGAGG
1 GACACGAGCGTGTGCTAGGCCATGTGAGG
* *
34857235 GACACGGGCGTGTGCTCGGCCATGTGA
1 GACACGAGCGTGTGCTAGGCCATGTGA
34857262 AAACCCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (29 bp):
GACACGAGCGTGTGCTAGGCCATGTGAGG
Found at i:34859817 original size:54 final size:54
Alignment explanation
Indices: 34859706--34859808 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
34859696 TACCCAACCA
* **
34859706 TGTGCCAGACCGTGTAACTCACTGACTTGGGCCATGCGCCCATGTCTCAACCCG
1 TGTGCCAGACCATGTAACTCACTGACTTGGGCCACACGCCCATGTCTCAACCCG
* *
34859760 TGTGCCAGACCATGTAACTCACTTACTTGGGTCACACGCCCATGTCTCA
1 TGTGCCAGACCATGTAACTCACTGACTTGGGCCACACGCCCATGTCTCA
34859809 TCTTGTGTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.20, C:0.34, G:0.21, T:0.24
Consensus pattern (54 bp):
TGTGCCAGACCATGTAACTCACTGACTTGGGCCACACGCCCATGTCTCAACCCG
Found at i:34869470 original size:19 final size:19
Alignment explanation
Indices: 34869416--34869474 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 19
34869406 GGTTTCTTAA
34869416 TTTTTTTTTTTGGGTTAGG
1 TTTTTTTTTTTGGGTTAGG
* *
34869435 -TTTTTCTTTT---TT--C
1 TTTTTTTTTTTGGGTTAGG
34869448 TTTTTTTTTTTGGGTTAGG
1 TTTTTTTTTTTGGGTTAGG
34869467 TTTTTTTT
1 TTTTTTTT
34869475 GGGGGGGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
17 2 0.07
18 9 0.30
19 8 0.27
ACGTcount: A:0.03, C:0.03, G:0.17, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTTTGGGTTAGG
Found at i:34869471 original size:27 final size:29
Alignment explanation
Indices: 34869416--34869474 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 29
34869406 GGTTTCTTAA
34869416 TTTTTTTTTTTGGGTTAGGTTTTTCTTTTTTC
1 TTTTTTTTTTTGGGTTAGG---TTCTTTTTTC
34869448 TTTTTTTTTTTGGGTTAGGTT-TTTTTT
1 TTTTTTTTTTTGGGTTAGGTTCTTTTTT
34869475 GGGGGGGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.22
29 2 0.07
32 19 0.70
ACGTcount: A:0.03, C:0.03, G:0.17, T:0.76
Consensus pattern (29 bp):
TTTTTTTTTTTGGGTTAGGTTCTTTTTTC
Found at i:34872296 original size:36 final size:36
Alignment explanation
Indices: 34872249--34872320 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
34872239 TACCTCAATG
34872249 ATGGCTCAAAGGTATATGAGAAAAGGATATAAATCC
1 ATGGCTCAAAGGTATATGAGAAAAGGATATAAATCC
*
34872285 ATGGCTCAAAGGTATATGAGAAAAGGATATGAATCC
1 ATGGCTCAAAGGTATATGAGAAAAGGATATAAATCC
34872321 TACCTTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (36 bp):
ATGGCTCAAAGGTATATGAGAAAAGGATATAAATCC
Found at i:34874716 original size:38 final size:38
Alignment explanation
Indices: 34874660--34874737 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
34874650 TATTGGATAG
*
34874660 AACTGAAAGAAAACCAGATTCACAGAGTTGACCTAGTT
1 AACTGAAAGAAAACCAGATTCACAGAGTTAACCTAGTT
* *
34874698 AACTTAAAGAAAACCAGATTCACGGAGTTAACCTAGTT
1 AACTGAAAGAAAACCAGATTCACAGAGTTAACCTAGTT
34874736 AA
1 AA
34874738 GGAAACTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.22
Consensus pattern (38 bp):
AACTGAAAGAAAACCAGATTCACAGAGTTAACCTAGTT
Found at i:34878296 original size:16 final size:16
Alignment explanation
Indices: 34878271--34878313 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34878261 ATGTATCGGC
34878271 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
34878287 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
34878303 AAAAGCTGAAA
1 AAAAGCCGAAA
34878314 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:34878313 original size:8 final size:8
Alignment explanation
Indices: 34878271--34878313 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
34878261 ATGTATCGGC
34878271 AAAAGCCG
1 AAAAGCCG
*
34878279 AAATGCCG
1 AAAAGCCG
*
34878287 AAAAGTCG
1 AAAAGCCG
*
34878295 AAATGCCG
1 AAAAGCCG
*
34878303 AAAAGCTG
1 AAAAGCCG
34878311 AAA
1 AAA
34878314 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:34878577 original size:29 final size:28
Alignment explanation
Indices: 34878538--34878608 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
34878528 AATGTGACTG
*
34878538 GGCCTAATGGGCCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAATATGA-TTA
* * *
34878567 GGCCTAATGGGTCATATGAATATGATTG
1 GGCCTAATGGGCCATATAAATATGATTA
*
34878595 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
34878609 GATACAGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAAATATGATTA
Found at i:34882427 original size:27 final size:27
Alignment explanation
Indices: 34882397--34882547 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
34882387 ATATTGAGTC
* *
34882397 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34882424 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34882451 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34882479 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34882506 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
34882533 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34882548 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
27 83 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34882489 original size:55 final size:54
Alignment explanation
Indices: 34882397--34882547 Score: 169
Period size: 55 Copynumber: 2.8 Consensus size: 54
34882387 ATATTGAGTC
* * *
34882397 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
* ** ** *
34882451 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAAT
* **
34882506 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCT
34882548 GTACAATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 37 0.45
55 45 0.55
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:34884437 original size:16 final size:16
Alignment explanation
Indices: 34884416--34884446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34884406 TTCATTATTA
*
34884416 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
34884432 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
34884447 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:34886187 original size:24 final size:23
Alignment explanation
Indices: 34886148--34886197 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
34886138 TTTTAATAAG
34886148 ATTTAATATTAAATTAATCTAAT
1 ATTTAATATTAAATTAATCTAAT
* *
34886171 ATTTAAATATTATATTAATTTAAT
1 ATTT-AATATTAAATTAATCTAAT
34886195 ATT
1 ATT
34886198 AAAGTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTAATATTAAATTAATCTAAT
Found at i:34886329 original size:23 final size:23
Alignment explanation
Indices: 34886302--34886345 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34886292 AAAGTTGTAG
34886302 AGAGAAAATTCTCTGAAGAGATT
1 AGAGAAAATTCTCTGAAGAGATT
34886325 AGAGAAAATTCTCTGAAGAGA
1 AGAGAAAATTCTCTGAAGAGA
34886346 AAATTCTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (23 bp):
AGAGAAAATTCTCTGAAGAGATT
Found at i:34890209 original size:83 final size:84
Alignment explanation
Indices: 34890079--34890247 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 84
34890069 AATTCCTTGT
* * * *
34890079 TTTTTTTTCACTCATTTGGGTATTTAAACTTTTAAAATACATCAAAAAGAC-CTTCAAACCTTTT
1 TTTTTTTTCACTCAATTGGATACTTAAACTTTTAAAATACATCAAAAAGACTC-TCAAACATTTT
34890143 -AAAAAAAACAATTAAGCCC
65 CAAAAAAAACAATTAAGCCC
* * *
34890162 TTTTTTTTCACTCAATTGGATACTTGAA-TTTTCAAACTGCATCAAAAAGACTCTCAAACATTTT
1 TTTTTTTTCACTCAATTGGATACTTAAACTTTT-AAAATACATCAAAAAGACTCTCAAACATTTT
* *
34890226 CAAATAAAACAATTAAGTCC
65 CAAAAAAAACAATTAAGCCC
34890246 TT
1 TT
34890248 GCTTTTATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 4 0.05
83 50 0.68
84 20 0.27
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (84 bp):
TTTTTTTTCACTCAATTGGATACTTAAACTTTTAAAATACATCAAAAAGACTCTCAAACATTTTC
AAAAAAAACAATTAAGCCC
Found at i:34890279 original size:18 final size:19
Alignment explanation
Indices: 34890256--34890306 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
34890246 TTGCTTTTAT
34890256 TAAAAATTAG-AAA-AAATA
1 TAAAAATT-GTAAATAAATA
*
34890274 TAAAAATTGTAAATATATA
1 TAAAAATTGTAAATAAATA
34890293 TAAAAATTGTAAAT
1 TAAAAATTGTAAAT
34890307 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 1 0.03
18 11 0.37
19 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TAAAAATTGTAAATAAATA
Found at i:34890293 original size:19 final size:19
Alignment explanation
Indices: 34890271--34890316 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
34890261 ATTAGAAAAA
34890271 ATATAAAAATTGTAAATAT
1 ATATAAAAATTGTAAATAT
*
34890290 ATATAAAAATTGTAAATTT
1 ATATAAAAATTGTAAATAT
*
34890309 TTATAAAA
1 ATATAAAA
34890317 TCGCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
ATATAAAAATTGTAAATAT
Found at i:34890599 original size:18 final size:18
Alignment explanation
Indices: 34890570--34890620 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
34890560 GTAGTTAATT
34890570 TTTTATCATTTTTATAAAA
1 TTTTATCATTTTT-TAAAA
*
34890589 TTTTA-CATTTTTTCAAAT
1 TTTTATCATTTTTT-AAAA
*
34890607 TTTTATGATTTTTT
1 TTTTATCATTTTTT
34890621 TTATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 15 0.54
19 12 0.43
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATCATTTTTTAAAA
Found at i:34891320 original size:26 final size:26
Alignment explanation
Indices: 34891284--34891335 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34891274 ACAAACTATA
34891284 TCAAAATAATCGTTTAATTTTATTAG
1 TCAAAATAATCGTTTAATTTTATTAG
34891310 TCAAAATAATCGTTTAATTTTATTAG
1 TCAAAATAATCGTTTAATTTTATTAG
34891336 ATAAACGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (26 bp):
TCAAAATAATCGTTTAATTTTATTAG
Found at i:34894028 original size:160 final size:160
Alignment explanation
Indices: 34893738--34894057 Score: 615
Period size: 160 Copynumber: 2.0 Consensus size: 160
34893728 TCCTTGGTAG
34893738 GAAAGGTAATGCTGGGAAGAAGCCTGTGGCTGACCCCCAAAATCCCATGTCTTGGAAAGCTTTCA
1 GAAAGGTAATGCTGGGAAGAAGCCTGTGGCTGACCCCCAAAATCCCATGTCTTGGAAAGCTTTCA
34893803 GCAGATCTCTACGGCTCTGATTAATTTTTTTTTAAAAAATGCTTGTTTATTCAATTTTGCATCCG
66 GCAGATCTCTACGGCTCTGATTAATTTTTTTTTAAAAAATGCTTGTTTATTCAATTTTGCATCCG
*
34893868 TGTTATAGCTATTTCTCTCTCTCTCTCTCT
131 TGTTATAGCTATTTCTCTCTCCCTCTCTCT
34893898 GAAAGGTAATGCTGGGAAGAAGCCTGTGGCTGACCCCCAAAATCCCATGTCTTGGAAAGCTTTCA
1 GAAAGGTAATGCTGGGAAGAAGCCTGTGGCTGACCCCCAAAATCCCATGTCTTGGAAAGCTTTCA
34893963 GCAGATCTCTACGGCTCTGATTAA-TTTTTTTTAAAAAATGCTTGTTTATTCAATTTTGCCATCC
66 GCAGATCTCTACGGCTCTGATTAATTTTTTTTTAAAAAATGCTTGTTTATTCAATTTTG-CATCC
34894027 GTGTTATAGCTATTTCTCTCTCCCTCTCTCT
130 GTGTTATAGCTATTTCTCTCTCCCTCTCTCT
34894058 AAAAATGCTA
Statistics
Matches: 158, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
159 34 0.22
160 124 0.78
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (160 bp):
GAAAGGTAATGCTGGGAAGAAGCCTGTGGCTGACCCCCAAAATCCCATGTCTTGGAAAGCTTTCA
GCAGATCTCTACGGCTCTGATTAATTTTTTTTTAAAAAATGCTTGTTTATTCAATTTTGCATCCG
TGTTATAGCTATTTCTCTCTCCCTCTCTCT
Found at i:34896801 original size:14 final size:14
Alignment explanation
Indices: 34896784--34896810 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34896774 AACCTTATGT
34896784 TTAAAGTCAATTCG
1 TTAAAGTCAATTCG
34896798 TTAAAGTCAATTC
1 TTAAAGTCAATTC
34896811 ATTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
TTAAAGTCAATTCG
Found at i:34905283 original size:9 final size:8
Alignment explanation
Indices: 34905261--34905305 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
34905251 TAAATAACAC
34905261 ATTTTTAA
1 ATTTTTAA
34905269 ATTTTTTGAA
1 A-TTTTT-AA
*
34905279 ATTTTTAT
1 ATTTTTAA
34905287 ATTTTTAA
1 ATTTTTAA
*
34905295 TTTTTTAA
1 ATTTTTAA
34905303 ATT
1 ATT
34905306 ATTTGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 18 0.58
9 10 0.32
10 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:34907992 original size:35 final size:35
Alignment explanation
Indices: 34907953--34908023 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
34907943 TTTTTGGGTT
*
34907953 AAATTGAATAAGTTAAATTGGTTATATATAGATCA
1 AAATTGAATAAGTTAAATTGATTATATATAGATCA
*
34907988 AAATTTAATAAGTTAAATTGATTATATATAGATCA
1 AAATTGAATAAGTTAAATTGATTATATATAGATCA
34908023 A
1 A
34908024 GAAAAGCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (35 bp):
AAATTGAATAAGTTAAATTGATTATATATAGATCA
Found at i:34910032 original size:43 final size:44
Alignment explanation
Indices: 34909912--34910068 Score: 162
Period size: 43 Copynumber: 3.6 Consensus size: 44
34909902 ATCTCGTACA
* *
34909912 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * **
34909955 ATGCCACTGTCCCAGACAGGGTCGTACA-CAAAATCAAAT-TCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
** *
34909997 ATGCTGCTGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATC-AAATATCG
* *
34910041 ATGCCAAC-GTCCCAGACGTGGTATTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
34910069 CGAAATTACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 27 0.29
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:34910635 original size:19 final size:19
Alignment explanation
Indices: 34910604--34910642 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34910594 TCATTTTCAC
34910604 AATTTAGTCCAAAATACTCA
1 AATTTAGTCCAAAAT-CTCA
34910624 AATTTA-TCCAAAATCTCA
1 AATTTAGTCCAAAATCTCA
34910642 A
1 A
34910643 TACAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (19 bp):
AATTTAGTCCAAAATCTCA
Found at i:34931124 original size:13 final size:13
Alignment explanation
Indices: 34931106--34931144 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
34931096 ATATTATAAT
*
34931106 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
34931119 TATTTTATGCTAA
1 TATTTTATGTTAA
34931132 TAATTTTATGTTA
1 T-ATTTTATGTTA
34931145 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:34934939 original size:13 final size:13
Alignment explanation
Indices: 34934917--34934949 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34934907 AAGGGTTTGT
34934917 TTAT-TAAACTAA
1 TTATCTAAACTAA
34934929 TTATCTAAACTAA
1 TTATCTAAACTAA
*
34934942 TTAACTAA
1 TTATCTAA
34934950 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:34937709 original size:6 final size:5
Alignment explanation
Indices: 34937680--34937741 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
34937670 TATGTCTTTC
*
34937680 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAA- AAAAT AAAAT -AAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
34937727 AAAAT AAGAAT AAAA
1 AAAAT AA-AAT AAAA
34937742 AGATAGGAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
3 3 0.06
4 10 0.21
5 21 0.45
6 13 0.28
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:34937722 original size:14 final size:14
Alignment explanation
Indices: 34937700--34937742 Score: 61
Period size: 13 Copynumber: 3.0 Consensus size: 14
34937690 AATAAAATTG
34937700 AAATGAAAATAAAAA
1 AAAT-AAAATAAAAA
34937715 AAATAAAAT-AAAA
1 AAATAAAATAAAAA
34937728 AAATAAGAATAAAAA
1 AAATAA-AATAAAAA
34937743 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.38
14 8 0.31
15 8 0.31
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:34937729 original size:13 final size:13
Alignment explanation
Indices: 34937700--34937742 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
34937690 AATAAAATTG
34937700 AAATGAAAATAAAAA
1 AAAT-AAAAT-AAAA
34937715 AAATAAAATAAAA
1 AAATAAAATAAAA
34937728 AAATAAGAATAAAA
1 AAATAA-AATAAAA
34937742 A
1 A
34937743 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 13 0.48
15 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:34941752 original size:12 final size:12
Alignment explanation
Indices: 34941698--34941755 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
34941688 TAGGTGCGTA
34941698 AAAAAAAAAGTTCG
1 AAAAAAAAA-TT-G
34941712 -AAAAAAAATTG
1 AAAAAAAAATTG
34941723 AAAAAAAAAATTG
1 -AAAAAAAAATTG
34941736 ----AAAAATTG
1 AAAAAAAAATTG
34941744 AAAAAAAAATTG
1 AAAAAAAAATTG
34941756 CATACGGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
8 8 0.21
11 1 0.03
12 10 0.26
13 19 0.50
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:34941752 original size:13 final size:13
Alignment explanation
Indices: 34941712--34941740 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34941702 AAAAAGTTCG
34941712 AAAAAAAATTGAA
1 AAAAAAAATTGAA
34941725 AAAAAAAATTGAA
1 AAAAAAAATTGAA
34941738 AAA
1 AAA
34941741 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:34942863 original size:17 final size:18
Alignment explanation
Indices: 34942831--34942864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34942821 AAAAGAGAGT
*
34942831 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
34942849 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
34942865 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:34952806 original size:31 final size:31
Alignment explanation
Indices: 34952771--34952868 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 31
34952761 ATGCAATTGT
34952771 AATGTGGTTGATTATTGTATGTATGTGATGG
1 AATGTGGTTGATTATTGTATGTATGTGATGG
* * *
34952802 AATGT-GTTG----TGGCTATGGATGTGCAATTGT
1 AATGTGGTTGATTATTG-TATGTATGTG--A-TGG
34952832 AATGTGGTTGATTATTGTATGTATGTGATGG
1 AATGTGGTTGATTATTGTATGTATGTGATGG
34952863 AATGTG
1 AATGTG
34952869 TTGTGGCTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
26 2 0.04
27 9 0.17
29 1 0.02
30 11 0.21
31 17 0.33
32 1 0.02
34 9 0.17
35 2 0.04
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (31 bp):
AATGTGGTTGATTATTGTATGTATGTGATGG
Found at i:34952830 original size:61 final size:61
Alignment explanation
Indices: 34952762--34952884 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
34952752 CATGTGTCTA
34952762 TGCAATTGTAATGTGGTTGATTATTGTATGTATGTGATGGAATGTGTTGTGGCTATGGATG
1 TGCAATTGTAATGTGGTTGATTATTGTATGTATGTGATGGAATGTGTTGTGGCTATGGATG
34952823 TGCAATTGTAATGTGGTTGATTATTGTATGTATGTGATGGAATGTGTTGTGGCTATGGATG
1 TGCAATTGTAATGTGGTTGATTATTGTATGTATGTGATGGAATGTGTTGTGGCTATGGATG
34952884 T
1 T
34952885 TTGATGATGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.43
Consensus pattern (61 bp):
TGCAATTGTAATGTGGTTGATTATTGTATGTATGTGATGGAATGTGTTGTGGCTATGGATG
Found at i:34958498 original size:24 final size:24
Alignment explanation
Indices: 34958471--34958518 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
34958461 TTGAAAAAAC
34958471 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
34958495 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
34958519 TCTCTTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
CATGTCAAACAAAGTTCTATTCCT
Found at i:34967884 original size:40 final size:40
Alignment explanation
Indices: 34967815--34968008 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
34967805 ATTCGGATTG
* *
34967815 ATAACCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
34967854 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGGGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
34967894 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
34967934 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
34967974 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
34968009 AAGCTATATC
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 128 0.91
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:34968016 original size:40 final size:40
Alignment explanation
Indices: 34967815--34968035 Score: 277
Period size: 40 Copynumber: 5.6 Consensus size: 40
34967805 ATTCGGATTG
* * *
34967815 ATAACCGGGCT-AAGCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTACT
* * *
34967854 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGGGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTACT
* *
34967894 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTACT
* *
34967934 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTACT
* * *
34967974 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-AAGCT
1 ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTA-CT
* *
34968014 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
34968036 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 26 0.16
40 136 0.84
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCAATTGTGCGAGTTACT
Found at i:34984979 original size:141 final size:142
Alignment explanation
Indices: 34984730--34985006 Score: 316
Period size: 141 Copynumber: 1.9 Consensus size: 142
34984720 TTCATCGAGG
34984730 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATGTATAAGTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC-CTAATGTATAAGTGCTGATGCATGTCCCA
* * * * *
34984795 GACATGTCTTACACTGGCTACCATCATTGAGGTCGATGTATGTCCTAGACA-CGTCTTACACTGG
65 GACACGTCTTACACTAGC-ACCATCATTAAGGTCGATGCATGTCCCAGACATCGTCTTACACTGG
34984859 CACTCATCTCTACA
129 CACTCATCTCTACA
* * *
34984873 CCGATGCCATGTGCCGGACATGGTCTTACAC-ATG-CT-ATCGTA-ATGTCGCTGATGCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA-GCCTAAT-GTATAAGT-GCTGATGCATGTCC
* * * *
34984934 CAGACACGTCTTACACTAGC-CC-TCGTCTCAATGTCGATGCCATGTCCCAGACATGGTCTTATA
63 CAGACACGTCTTACACTAGCACCATCAT-T-AAGGTCGATG-CATGTCCCAGACATCGTCTTACA
*
34984997 CTGGCTCTCA
125 CTGGCACTCA
34985007 CATAACCCCA
Statistics
Matches: 114, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
138 3 0.03
139 3 0.03
140 13 0.11
141 48 0.42
142 17 0.15
143 30 0.26
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCTAATGTATAAGTGCTGATGCATGTCCCAG
ACACGTCTTACACTAGCACCATCATTAAGGTCGATGCATGTCCCAGACATCGTCTTACACTGGCA
CTCATCTCTACA
Found at i:34986524 original size:24 final size:23
Alignment explanation
Indices: 34986497--34986549 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
34986487 TCAGTTTACC
34986497 TTTCCGACCAAATCTCAACACCCT
1 TTTCC-ACCAAATCTCAACACCCT
*
34986521 TTT-CACCAAATCTCAACACCTT
1 TTTCCACCAAATCTCAACACCCT
34986543 TTTCCAC
1 TTTCCAC
34986550 GGAGATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 20 0.74
23 4 0.15
24 3 0.11
ACGTcount: A:0.28, C:0.40, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTCCACCAAATCTCAACACCCT
Found at i:34989765 original size:19 final size:19
Alignment explanation
Indices: 34989741--34989778 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34989731 GAAAAGAGAG
34989741 GGGTAAGCATTTACATGCT
1 GGGTAAGCATTTACATGCT
34989760 GGGTAAGCATTTACATGCT
1 GGGTAAGCATTTACATGCT
34989779 TAGCAAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (19 bp):
GGGTAAGCATTTACATGCT
Found at i:34989786 original size:19 final size:19
Alignment explanation
Indices: 34989745--34989786 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34989735 AGAGAGGGGT
* *
34989745 AAGCATTTACATGCTGGGT
1 AAGCATTTACATGCTGAGC
*
34989764 AAGCATTTACATGCTTAGC
1 AAGCATTTACATGCTGAGC
34989783 AAGC
1 AAGC
34989787 TCGAATAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (19 bp):
AAGCATTTACATGCTGAGC
Found at i:34997615 original size:46 final size:47
Alignment explanation
Indices: 34997459--34997677 Score: 202
Period size: 46 Copynumber: 4.7 Consensus size: 47
34997449 TAAGTTACCG
* *
34997459 ATGCTATGTCCCGGACATGGTCTTACACTGGCTATCATCATC-GAGGCCG
1 ATGC-ATGTCCCAGACATGGTCTTACACTGGCTA-CATC-TCAGAGGCCA
* * * *
34997508 ATGCCATGTCCCAAACATGGTCTTACACTGAC-ACATCTCATA-GCCG
1 ATG-CATGTCCCAGACATGGTCTTACACTGGCTACATCTCAGAGGCCA
*
34997554 ATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCT-AGAGGCCA
1 ATGCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCAGAGGCCA
* * * *
34997600 ATGCATGTCCTAGACAT-GTCTTACACTAGC-ACTCGTCTCA-ATGCCA
1 ATGCATGTCCCAGACATGGTCTTACACTGGCTA--CATCTCAGAGGCCA
* *
34997646 TTCCATGTCCCAGACATGGTCTTACACTGGCT
1 ATGCATGTCCCAGACATGGTCTTACACTGGCT
34997678 CACACCAATG
Statistics
Matches: 144, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
44 13 0.09
45 15 0.10
46 69 0.48
47 18 0.12
48 1 0.01
49 27 0.19
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGGTCTTACACTGGCTACATCTCAGAGGCCA
Found at i:34997675 original size:93 final size:95
Alignment explanation
Indices: 34997464--34997677 Score: 255
Period size: 92 Copynumber: 2.3 Consensus size: 95
34997454 TACCGATGCT
* * *
34997464 ATGTCCCGGACATGGTCTTACACTGGC-TATCATCATCGAGGCCGATGCCATGTCCCAAACATGG
1 ATGTCCCAGACATGGTCTTACACTGGCTTATCATCATAGAGGCCAATGCCATGTCCCAAACATGG
*
34997528 TCTTACACTGACACATCTCATAGCCGATGC
66 TCTTACACTGACACATCTCATAGCCGATCC
* * *
34997558 ATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTC-TAGAGGCCAATG-CATGTCCTAGACAT-G
1 ATGTCCCAGACATGGTCTTACACTGGCTTATCATCATAGAGGCCAATGCCATGTCCCAAACATGG
* *
34997618 TCTTACACTAGCACTCGTCTCA-ATGCC-ATTCC
66 TCTTACACT-G-ACACATCTCATA-GCCGA-TCC
34997650 ATGTCCCAGACATGGTCTTACACTGGCT
1 ATGTCCCAGACATGGTCTTACACTGGCT
34997678 CACACCAATG
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
90 10 0.10
91 15 0.14
92 36 0.34
93 30 0.29
94 14 0.13
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
ATGTCCCAGACATGGTCTTACACTGGCTTATCATCATAGAGGCCAATGCCATGTCCCAAACATGG
TCTTACACTGACACATCTCATAGCCGATCC
Found at i:35013221 original size:43 final size:43
Alignment explanation
Indices: 35013088--35013237 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
35013078 TGAGATTACA
* * * *
35013088 TGTAAGACCATGTTTGGGACATTGGCATTGTATTGT-GATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGT-TTATCGATTTCG
* * ** * * * *
35013131 TGTAAGACCATGTTTGAGACATTGAAATC-ATTATACAATTACT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTTAT-CGATTTCG
*
35013174 TGTAAGGCCATGTCTGGGACATTGGCATCGTTTATCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTTATCGATTTCG
* *
35013217 TGTAAGACCCTGCCTGGGACA
1 TGTAAGACCATGTCTGGGACA
35013238 GAAGCATCGA
Statistics
Matches: 82, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 3 0.04
43 75 0.91
44 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTTATCGATTTCG
Found at i:35024558 original size:50 final size:49
Alignment explanation
Indices: 35024435--35024560 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 49
35024425 CTGGTACGCA
** ** *
35024435 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACG
* *
35024484 TAGTAGCCTGCACTTAGTACTACACACATGACTTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACACGAC--CAACAGTCTAATACACG
35024534 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
35024561 GTGATTACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 29 0.43
50 35 0.51
51 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACG
Found at i:35026768 original size:14 final size:15
Alignment explanation
Indices: 35026749--35026815 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
35026739 TAAAGATAAC
35026749 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
35026763 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
*
35026778 GA-AAAACCTAGAATA
1 AAGAAAACC-AGAATA
*
35026793 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
35026808 AA-AAAACC
1 AAGAAAACC
35026816 CAAGATACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 19 0.45
15 17 0.40
16 6 0.14
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:35026792 original size:30 final size:30
Alignment explanation
Indices: 35026758--35026815 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
35026748 CAAGAAAACC
*
35026758 GAATAAAGAAATCCA-AGATAGAAAAACCTA
1 GAATAAAGAAATCCAGA-ATAAAAAAACCTA
35026788 GAATAAAGAAATCCAGAATAAAAAAACC
1 GAATAAAGAAATCCAGAATAAAAAAACC
35026816 CAAGATACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAAAAACCTA
Found at i:35026807 original size:15 final size:15
Alignment explanation
Indices: 35026749--35026809 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
35026739 TAAAGATAAC
*
35026749 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35026763 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
35026778 GAA-AAA-CCTAGAATA
1 -AAGAAATCC-AGAATA
35026793 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
35026808 AA
1 AA
35026810 AAAACCCAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
14 13 0.33
15 21 0.54
16 5 0.13
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35029893 original size:49 final size:48
Alignment explanation
Indices: 35029820--35029963 Score: 180
Period size: 49 Copynumber: 2.9 Consensus size: 48
35029810 AGCCGAAGCT
* *
35029820 ATCTGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
* * * *
35029868 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
** *
35029919 ATCTAATACACATAGTAGCCTGCACTTAGTACTGCACATGCGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
35029964 TCACAATAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.02
49 38 0.47
50 37 0.46
51 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
Found at i:35029948 original size:50 final size:51
Alignment explanation
Indices: 35029830--35029967 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 51
35029820 ATCTGGTACG
* * **
35029830 CATAATAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
* * *
35029879 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
*
35029929 CATAGTAGCCTGCACTTAGTACTGCACATGCGACCTCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
35029968 AATAGATCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
49 29 0.38
50 43 0.57
51 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACA
Found at i:35036743 original size:43 final size:43
Alignment explanation
Indices: 35036696--35036852 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
35036686 TGAGATTACA
* * * * * *
35036696 TGTAAGACCATGTCTCGAACATTGGCATT-GTATTGTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATTATTA-TATAATTATG
* *
35036739 TGTAAGACCATGTTTGGGACATTGGTATTATTATATAATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATTATTATATAATTATG
** *
35036782 TGTAAGACCATGTCTGGGACATTGGCATCGTT-TATCGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATTATTATAT-AATTAT-G
* * *
35036825 TGCAAGACCCTGTCTGGGACAGTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
35036853 CGATATGTGA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.04
43 89 0.94
44 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTATTATATAATTATG
Found at i:35036872 original size:86 final size:86
Alignment explanation
Indices: 35036693--35036878 Score: 196
Period size: 86 Copynumber: 2.2 Consensus size: 86
35036683 AGATGAGATT
* * * * *
35036693 ACATGTAAGACCATGTCTCGAACATTGGCATTGTATTGTGATTTTGTGTAAGACCATGTTTGGGA
1 ACATGTAAGACCATGTCTCGAACATTGGCATCGTATTATGATTTCGTGCAAGACCATGTCTGGGA
* * * *
35036758 CATTGGTATTATTATATAATT
66 CAGTGGCATGATTATATAATA
** * * *
35036779 ATGTGTAAGACCATGTCTGGGACATTGGCATCGT-TTATCGATTTCGTGCAAGACCCTGTCTGGG
1 ACATGTAAGACCATGTCTCGAACATTGGCATCGTATTAT-GATTTCGTGCAAGACCATGTCTGGG
* *
35036843 ACAGTGGCATCGA-TATGTGATA
65 ACAGTGGCAT-GATTATATAATA
35036865 ACATGTAAGACCAT
1 ACATGTAAGACCAT
35036879 ATCTAGGATA
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
85 3 0.04
86 76 0.95
87 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (86 bp):
ACATGTAAGACCATGTCTCGAACATTGGCATCGTATTATGATTTCGTGCAAGACCATGTCTGGGA
CAGTGGCATGATTATATAATA
Found at i:35036875 original size:43 final size:43
Alignment explanation
Indices: 35036782--35036878 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
35036772 TATAATTATG
* * ** *
35036782 TGTAAGACCATGTCTGGGACATTGGCATCGTTTATCGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATCGATAACA
* * *
35036825 TGCAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATAT-CGATAACA
35036868 TGTAAGACCAT
1 TGTAAGACCAT
35036879 ATCTAGGATA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATCGATAACA
Found at i:35042232 original size:22 final size:22
Alignment explanation
Indices: 35042207--35042250 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
35042197 GACCATAACG
35042207 AATAT-AATCACATACATATCAA
1 AATATAAATCACA-ACATATCAA
*
35042229 AATATAAATCTCAACATATCAA
1 AATATAAATCACAACATATCAA
35042251 TCTTCATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AATATAAATCACAACATATCAA
Found at i:35044762 original size:48 final size:45
Alignment explanation
Indices: 35044597--35044909 Score: 220
Period size: 46 Copynumber: 6.6 Consensus size: 45
35044587 TCCATCAAGT
** * *
35044597 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCG-TGC
* * * * * *
35044646 CGACGCTATGTCCTAAACATGGTCTTACACTAGGTCTCACATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT--G--ACACATCTC-GTGC
* * *
35044696 CAATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTGC
* *
35044744 CGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCCTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGT-GC
* *
35044790 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCG-TGC
* * * *
35044836 CGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTGC
* *
35044882 TGACGCCATGTCCCAGACATGGTCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTAC
35044910 GCTGGCTCTC
Statistics
Matches: 214, Mismatches: 33, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.06
45 15 0.07
46 60 0.28
47 15 0.07
48 49 0.23
49 28 0.13
50 30 0.14
51 3 0.01
52 1 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTGC
Found at i:35044828 original size:46 final size:46
Alignment explanation
Indices: 35044597--35044958 Score: 183
Period size: 46 Copynumber: 7.6 Consensus size: 46
35044587 TCCATCAAGT
* * *
35044597 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAAT-T-GAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T--ACATCTCGTGGC
* * * * *
35044646 CGACGCTATGTCCTAAACATGGTCTTACACTAGGTCTCACATATC-TGTGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACT-GG-CTTACATCTCGTG-GC
* * * *
35044696 CAATGCCATGTCCCAGACATGGTCTTACATTGAC--ACCTCTATACGT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--T-CGTGGC
* * *
35044744 CGATGCCATGTCCTAGACATGGTCTTACACTGAC--ACATCTCCTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGTGGC
**
35044790 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTGGC
* * * *
35044836 CGATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTCTCAAT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-ACATCTC-GTGGC
* * * *
35044882 TGACGCCATGTCCCAGACATGGTCTTACGCTGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGTGGC
*
35044930 TGATGCATG-CTCCAGACATGTCTTACACT
1 CGATGCATGTC-CCAGACATGTCTTACACT
35044959 AGCGCACGAA
Statistics
Matches: 251, Mismatches: 39, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
44 12 0.05
45 17 0.07
46 70 0.28
47 27 0.11
48 61 0.24
49 32 0.13
50 29 0.12
51 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTGGC
Found at i:35047313 original size:20 final size:20
Alignment explanation
Indices: 35047290--35047338 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
35047280 GAACCACTCC
35047290 ATTTACTTACTTACCATTCA
1 ATTTACTTACTTACCATTCA
* *
35047310 ATTTACTTACTTTCCATTCC
1 ATTTACTTACTTACCATTCA
35047330 ATTTACTTA
1 ATTTACTTA
35047339 GCATAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCA
Found at i:35050345 original size:14 final size:14
Alignment explanation
Indices: 35050302--35050358 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
35050292 AACATTAAGT
*
35050302 AATTAAAGATAA-A
1 AATTAAAGAAAAGA
*
35050315 AATAACAAGAAAA-A
1 AATTA-AAGAAAAGA
*
35050329 AATTAAAGTAAAGA
1 AATTAAAGAAAAGA
35050343 AATTAAAGAAAAGA
1 AATTAAAGAAAAGA
35050357 AA
1 AA
35050359 AATAGAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 10 0.27
14 27 0.73
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.16
Consensus pattern (14 bp):
AATTAAAGAAAAGA
Found at i:35059465 original size:27 final size:26
Alignment explanation
Indices: 35059418--35059468 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
35059408 TGAGGCTGCT
*
35059418 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
35059444 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
35059469 TTTCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:35060181 original size:27 final size:27
Alignment explanation
Indices: 35060121--35060237 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
35060111 GGCAAAATGG
* * *
35060121 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
35060148 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
35060175 TATTTCTACCCTACAATGGTCTTTTGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
35060202 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
35060229 TAATTCTAC
1 TAATTCTAC
35060238 AACTTATCCA
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Done.