Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 120 of 186
Found at i:39833841 original size:37 final size:37
Alignment explanation
Indices: 39833791--39833869 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39833781 TTATTACGAA
* *
39833791 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
39833828 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
39833865 GTCTT
1 GTCTT
39833870 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:39834066 original size:47 final size:47
Alignment explanation
Indices: 39833988--39834476 Score: 807
Period size: 47 Copynumber: 10.4 Consensus size: 47
39833978 CCCTTCGGGA
* * * * * * *
39833988 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39834035 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39834082 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39834129 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39834176 CCTGTCACATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39834223 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39834270 CTTATGACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39834317 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39834364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39834411 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39834458 CTTATCACATATATACACT
1 CTTATCACATATATACACT
39834477 GTCTTGGCTG
Statistics
Matches: 411, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 411 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39834208 original size:25 final size:25
Alignment explanation
Indices: 39834180--39834257 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
39834170 CTCGGCCCTG
39834180 TCACATATATACACTTTGACATTCA
1 TCACATATATACACTTTGACATTCA
**** * * *
39834205 TCACAT-CGGCCA-TTAGGCCTT-A
1 TCACATATATACACTTTGACATTCA
*
39834227 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTGACATTCA
39834252 TCACAT
1 TCACAT
39834258 CGGCCATTAG
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
22 7 0.20
23 8 0.23
24 7 0.20
25 13 0.37
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATATACACTTTGACATTCA
Found at i:39838383 original size:21 final size:21
Alignment explanation
Indices: 39838353--39838429 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
39838343 CAACGTCACA
39838353 GAAT-GGAAGAAGCTACTTGG
1 GAATCGGAAGAAGCTACTTGG
*
39838373 GAATCAGAAG-A-CTACTTGG
1 GAATCGGAAGAAGCTACTTGG
*
39838392 GAATTGGAAGAAGCTACTTGG
1 GAATCGGAAGAAGCTACTTGG
*
39838413 GAATCGGAAGAATCTAC
1 GAATCGGAAGAAGCTAC
39838430 GAAAGTGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.33
20 6 0.12
21 27 0.55
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (21 bp):
GAATCGGAAGAAGCTACTTGG
Found at i:39841739 original size:27 final size:26
Alignment explanation
Indices: 39841709--39841769 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
39841699 TTTTAGTAAC
39841709 TTATTATTTCATCTTTATTTTTAT-TTT
1 TTATTATTT--TCTTTATTTTTATATTT
* *
39841736 TTATTATTTTTTTTATTTTTCTATTT
1 TTATTATTTTCTTTATTTTTATATTT
*
39841762 TTCTTATT
1 TTATTATT
39841770 AATTAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.37
26 10 0.33
27 9 0.30
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (26 bp):
TTATTATTTTCTTTATTTTTATATTT
Found at i:39841751 original size:9 final size:9
Alignment explanation
Indices: 39841726--39841769 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
39841716 TTCATCTTTA
39841726 TTTTTATTT
1 TTTTTATTT
39841735 TTTATTATTT
1 TTT-TTATTT
39841745 TTTTTA-TT
1 TTTTTATTT
*
39841753 TTTCTATTT
1 TTTTTATTT
*
39841762 TTCTTATT
1 TTTTTATT
39841770 AATTAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:39849263 original size:51 final size:51
Alignment explanation
Indices: 39849176--39849282 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
39849166 ATCGAACCTA
**
39849176 TTCTAACAAAAGTTTAAAACCTTCATATACTCTCTTTTATAAAATCATGGT
1 TTCTAACAAAAGTTTAAAACCTTCATATACAATCTTTTATAAAATCATGGT
* * *
39849227 TTCTAACAATAGTTTAAAACCTTCA-AGTACAATCTTTTTTAAAATCGTGGT
1 TTCTAACAAAAGTTTAAAACCTTCATA-TACAATCTTTTATAAAATCATGGT
39849278 TTCTA
1 TTCTA
39849283 TTGTTAACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (51 bp):
TTCTAACAAAAGTTTAAAACCTTCATATACAATCTTTTATAAAATCATGGT
Found at i:39855744 original size:50 final size:49
Alignment explanation
Indices: 39855669--39855907 Score: 256
Period size: 50 Copynumber: 4.9 Consensus size: 49
39855659 TGATGCTAGG
* *
39855669 GATATATGTGGGCTAGTGTAAGACCATGTCTTGGG-CATGGCATCGGCCT
1 GATATATGAGAGCTAGTGTAAGACCATGTC-TGGGACATGGCATCGGCCT
*
39855718 AGATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTT
1 -GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * *
39855768 G--ATATGAG-TC-AGTGTAAGACCATGTTTGGGACATGACATCGGCACCT
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CCT
* * * *
39855815 -ATAGACGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCT
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * *
39855863 CGGTATACGAGAGTTAGTGTAAGAGCATGCCTGGGACATGGCATC
1 -GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
39855908 AACTTTAATG
Statistics
Matches: 160, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
45 30 0.19
46 1 0.01
47 9 0.06
48 8 0.05
49 6 0.04
50 106 0.66
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:39855846 original size:95 final size:94
Alignment explanation
Indices: 39855683--39855860 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 94
39855673 TATGTGGGCT
* * * *
39855683 AGTGTAAGACCATGTCTTGGGCATGGCATCGGCCTAGATATATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTTGGGCATGACATCGGCCTA-ATAGACGAGAGCCAGTGTAAGACCATGT
39855748 CTGGGACATGGCATCGGCTTGATATGAGTC
65 CTGGGACATGGCATCGGCTTGATATGAGTC
39855778 AGTGTAAGACCATGT-TTGGGACATGACATCGGCACCT-ATAGACGAGAGCCAGTGTAAGACCAT
1 AGTGTAAGACCATGTCTTGGG-CATGACATCGG--CCTAATAGACGAGAGCCAGTGTAAGACCAT
*
39855841 GTCTGGGATATGGCATCGGC
63 GTCTGGGACATGGCATCGGC
39855861 CTCGGTATAC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
94 5 0.07
95 67 0.89
97 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTTGGGCATGACATCGGCCTAATAGACGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTTGATATGAGTC
Found at i:39855901 original size:95 final size:91
Alignment explanation
Indices: 39855726--39855905 Score: 193
Period size: 95 Copynumber: 1.9 Consensus size: 91
39855716 CTAGATATAT
* * *
39855726 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGTCAGTGTAAGACCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTGGATAAGAGTCAGTGTAAGACCAT
**
39855791 GTTTGGGACATGACATCGGCACCTATAGAC
66 GCCTGGG--A-GACAT-GGCACCTATAGAC
* *
39855821 GAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGGTATACGAGAGTTAGTGTAAG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT-GG-ATA--AGAGTCAGTGTAAG
*
39855886 AGCATGCCT-GG-GACATGGCA
61 ACCATGCCTGGGAGACATGGCA
39855906 TCAACTTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
94 4 0.06
95 42 0.58
96 2 0.03
97 1 0.01
98 3 0.04
99 2 0.03
100 18 0.25
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (91 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTGGATAAGAGTCAGTGTAAGACCAT
GCCTGGGAGACATGGCACCTATAGAC
Found at i:39859962 original size:27 final size:27
Alignment explanation
Indices: 39859905--39860015 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
39859895 AGCATGGCTG
* * *
39859905 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTATGGCAGAGCCA
*
39859931 CCAGAACAGATAATTATGGTAGAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
*
39859958 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TATGGCAGAGCCA
* *
39859985 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
39860012 CCAG
1 CCAG
39860016 GACACTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTATGGCAGAGCCA
Found at i:39859989 original size:54 final size:53
Alignment explanation
Indices: 39859905--39860015 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
39859895 AGCATGGCTG
* *
39859905 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTATGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
* * *
39859958 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
39860012 CCAG
1 CCAG
39860016 GACACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
Found at i:39862550 original size:15 final size:15
Alignment explanation
Indices: 39862523--39862566 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
39862513 TATAGTATCG
39862523 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
39862539 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
39862554 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
39862567 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:39865310 original size:50 final size:50
Alignment explanation
Indices: 39865232--39865470 Score: 267
Period size: 50 Copynumber: 4.9 Consensus size: 50
39865222 TGATGCTAGG
* *
39865232 GATATATGAGGGCTAGTGTAAGATCATGTCTAGGACATGGCATCAGCCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTC
*
39865282 GATATAGGAGAGCTAGTGTAAGACCATGTCT-GGTACATGGCATCAGCCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGCCTC
* * * * *
39865332 GATATATGAGAGCTAGTGTAGGACCATGTCTGGGATATGGCATC-GGCTT
1 GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTC
** * * *
39865381 G--ATATGA-TTC-AATGTAAGACCATGTCTGGGACATGACATCAGCAC-C
1 GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTC
* * *
39865427 GATAGATGAGATCTAGTGTAAGACCATGTCTAGGACATGACATC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
39865471 GACTTTGATG
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
45 26 0.16
46 3 0.02
47 7 0.04
48 5 0.03
49 8 0.05
50 110 0.68
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (50 bp):
GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTC
Found at i:39865430 original size:95 final size:95
Alignment explanation
Indices: 39865232--39865471 Score: 266
Period size: 95 Copynumber: 2.5 Consensus size: 95
39865222 TGATGCTAGG
* * * * * * **
39865232 GATATATGAGGGCTAGTGTAAGATCATGTCTAGGACATGGCATCAGCCTCGATATAGGAGAGCTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGACATC-GGCTTGATAT--GA-TTC-A
* * *
39865297 GTGTAAGACCATGTCTGGTACATGGCATCAGCCTC
61 ATGTAAGACCATGTCTGGGACATGACATCAGCCTC
* * * * *
39865332 GATATATGAGAGCTAGTGTAGGACCATGTCTGGGATATGGCATCGGCTTGATATGATTCAATGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCTTGATATGATTCAATGTA
39865397 AGACCATGTCTGGGACATGACATCAGCAC-C
66 AGACCATGTCTGGGACATGACATCAGC-CTC
*
39865427 GATAGATGAGATCTAGTGTAAGACCATGTCTAGGACATGACATCG
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGACATCG
39865472 ACTTTGATGT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
95 70 0.58
96 2 0.02
97 2 0.02
99 8 0.07
100 39 0.32
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (95 bp):
GATAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCTTGATATGATTCAATGTA
AGACCATGTCTGGGACATGACATCAGCCTC
Found at i:39866778 original size:26 final size:26
Alignment explanation
Indices: 39866742--39866794 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
39866732 CACGAGGCAT
39866742 TACCATACTTAACCACATGCATATAA
1 TACCATACTTAACCACATGCATATAA
39866768 TACCATACTTAACCACATGCATATAA
1 TACCATACTTAACCACATGCATATAA
39866794 T
1 T
39866795 CACTTCCGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (26 bp):
TACCATACTTAACCACATGCATATAA
Found at i:39867331 original size:13 final size:13
Alignment explanation
Indices: 39867313--39867337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39867303 ACGTGCAGGG
39867313 GACACACGGCCAA
1 GACACACGGCCAA
39867326 GACACACGGCCA
1 GACACACGGCCA
39867338 TGTGTCTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
GACACACGGCCAA
Found at i:39868093 original size:47 final size:47
Alignment explanation
Indices: 39868024--39868199 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 47
39868014 GTATAATGCT
* *
39868024 GACGCCATGTCCCAAACATGGTCTTACACTGGCTTATCTATCAAGTC
1 GACGCCATGTCCTAGACATGGTCTTACACTGGCTTATCTATCAAGTC
* ** *
39868071 GACGCCAAGTCCTAGACATGGTCTTACACTAAC-TA-CTGAGATCGAGGTC
1 GACGCCATGTCCTAGACATGGTCTTACACTGGCTTATCT---ATC-AAGTC
* * **
39868120 GACGCTATGTCC-AGGACATGGTCTTACACTGG-TTCATCTCTCCGTGTC
1 GACGCCATGTCCTA-GACATGGTCTTACACTGGCTT-ATCTAT-CAAGTC
* *
39868168 GATGCCATGTCCTAGA-ATGGACTTACACTGGC
1 GACGCCATGTCCTAGACATGGTCTTACACTGGC
39868200 ACATCTCATA
Statistics
Matches: 102, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
45 2 0.02
46 2 0.02
47 42 0.41
48 20 0.20
49 33 0.32
50 1 0.01
51 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (47 bp):
GACGCCATGTCCTAGACATGGTCTTACACTGGCTTATCTATCAAGTC
Found at i:39875799 original size:44 final size:45
Alignment explanation
Indices: 39875740--39875848 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 45
39875730 TGCCATATCT
39875740 CAGACATGGTCTTACACTA-ACACATCTCAC-A-GCTGATGCATGTCC
1 CAGACAT-GTCTTACACTACACACAT-TC-CGAGGCTGATGCATGTCC
* *
39875785 CAGACATGTCTTACACTAGCTCACATTCCGAGGCTGATGTATGTCC
1 CAGACATGTCTTACACTA-CACACATTCCGAGGCTGATGCATGTCC
39875831 CAGACATGTCTTACACTA
1 CAGACATGTCTTACACTA
39875849 GCATACAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
44 12 0.21
45 10 0.17
46 36 0.62
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (45 bp):
CAGACATGTCTTACACTACACACATTCCGAGGCTGATGCATGTCC
Found at i:39876734 original size:47 final size:47
Alignment explanation
Indices: 39876683--39876776 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
39876673 AGATGATATC
* *
39876683 TTTTTCTCCTTATTTTATTTTTTATTCTAGTCAAAATAGGTCACCAA
1 TTTTTCTCCTTATTTTATTTTTCATTATAGTCAAAATAGGTCACCAA
39876730 TTTTTCTCCTTATTTTATTTTTCATTATAGTCAAAATAGGTCACCAA
1 TTTTTCTCCTTATTTTATTTTTCATTATAGTCAAAATAGGTCACCAA
39876777 CTCACCTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (47 bp):
TTTTTCTCCTTATTTTATTTTTCATTATAGTCAAAATAGGTCACCAA
Found at i:39877814 original size:301 final size:301
Alignment explanation
Indices: 39877272--39877869 Score: 1124
Period size: 301 Copynumber: 2.0 Consensus size: 301
39877262 AGGAATTGTT
*
39877272 TTTTTTTTTCTTATGATATGTGTTAACATGACTAGCCAAATGTATTGGCCTATATTGAGTTATTT
1 TTTTTTTTTCTTATGATATGTGTTAACATGACTAACCAAATGTATTGGCCTATATTGAGTTATTT
*
39877337 GTATATGGCCATGAAGGGTGGCTCACATTGATTATGGTTTGTGAACCTATCTATCTATGCTATGT
66 GTATATGGCCATGAAGGGTGGCTCACATTGATTATGGTTTGTGAACCTATATATCTATGCTATGT
39877402 TCTAATGCTTGTGATGTGATTACGCTTGTTGGCCATATATGGTTGGTGTTATGAAATATGTGCAT
131 TCTAATGCTTGTGATGTGATTACGCTTGTTGGCCATATATGGTTGGTGTTATGAAATATGTGCAT
*
39877467 GATGAATGTTTTATGACCAATCTACATTGTCATGGCCATGAATTAAATGTGTACTATGGAAATAA
196 GATGAATGTTTTATGACCAATCTAAATTGTCATGGCCATGAATTAAATGTGTACTATGGAAATAA
*
39877532 AGATGTAAAGGATTAAGGGTAAGTTAAAGGCTTGGAAGGAA
261 AGATGTAAAGGATTAAGGGTAACTTAAAGGCTTGGAAGGAA
*
39877573 TTTTTTTTTCTTATGATATGTGTTAACATGACTAACCAAATGTATTGGCCTATATTGTGTTATTT
1 TTTTTTTTTCTTATGATATGTGTTAACATGACTAACCAAATGTATTGGCCTATATTGAGTTATTT
39877638 GTATATGGCCATGAAGGGTGGCTCACATTGATTATGGTTTGTGAACCTATATATCTATGCTATGT
66 GTATATGGCCATGAAGGGTGGCTCACATTGATTATGGTTTGTGAACCTATATATCTATGCTATGT
* *
39877703 TCTAATGCTTGTGATGTGATTATGTTTGTTGGCCATATATGGTTGGTGTTATGAAATATGTGCAT
131 TCTAATGCTTGTGATGTGATTACGCTTGTTGGCCATATATGGTTGGTGTTATGAAATATGTGCAT
39877768 GATGAATGTTTTATGACCAATCTAAATTGTCATGGCCATGAATTAAATGTGTACTATGGAAATAA
196 GATGAATGTTTTATGACCAATCTAAATTGTCATGGCCATGAATTAAATGTGTACTATGGAAATAA
*
39877833 AGATGTGAAGGATTAAGGGTAACTTAAAGGCTTGGAA
261 AGATGTAAAGGATTAAGGGTAACTTAAAGGCTTGGAA
39877870 AATAGCCTAA
Statistics
Matches: 289, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
301 289 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (301 bp):
TTTTTTTTTCTTATGATATGTGTTAACATGACTAACCAAATGTATTGGCCTATATTGAGTTATTT
GTATATGGCCATGAAGGGTGGCTCACATTGATTATGGTTTGTGAACCTATATATCTATGCTATGT
TCTAATGCTTGTGATGTGATTACGCTTGTTGGCCATATATGGTTGGTGTTATGAAATATGTGCAT
GATGAATGTTTTATGACCAATCTAAATTGTCATGGCCATGAATTAAATGTGTACTATGGAAATAA
AGATGTAAAGGATTAAGGGTAACTTAAAGGCTTGGAAGGAA
Found at i:39883970 original size:23 final size:23
Alignment explanation
Indices: 39883944--39883987 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39883934 TATATCCATA
* *
39883944 CCAAAATCATGCCAAATCATAAG
1 CCAAAATCATACCAAAACATAAG
*
39883967 CCAAAGTCATACCAAAACATA
1 CCAAAATCATACCAAAACATA
39883988 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.07, T:0.16
Consensus pattern (23 bp):
CCAAAATCATACCAAAACATAAG
Found at i:39884856 original size:44 final size:43
Alignment explanation
Indices: 39884706--39884877 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
39884696 AACTCGTACA
* * * *
39884706 ATGCCAA-CTCCTAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAAATATCG
* * *
39884748 ATGCCATTGTACC-AGATAG-GGTCTTACATGAAATCAAATAT-G
1 ATGCCAATGT-CCTAGA-CGTGGTCTTACACGAAATCAAATATCG
* * * *
39884790 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACG-AAATC-AAATATCG
*
39884834 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAAATATCG
39884877 A
1 A
39884878 AATCCTATGC
Statistics
Matches: 106, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.27
43 42 0.40
44 33 0.31
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:39886456 original size:26 final size:25
Alignment explanation
Indices: 39886424--39886483 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
39886414 CATGCTTAAT
*
39886424 ACAGTCATACATCTCATAAGGGCATA
1 ACAGTCATACACCTCAT-AGGGCATA
* **
39886450 ATAGTCATTTTACCTCATAGGGCATA
1 ACAGTCA-TACACCTCATAGGGCATA
39886476 ACAGTCAT
1 ACAGTCAT
39886484 TTATCAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 20 0.71
27 7 0.25
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (25 bp):
ACAGTCATACACCTCATAGGGCATA
Found at i:39893772 original size:25 final size:25
Alignment explanation
Indices: 39893724--39893774 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
39893714 TACCCTTATA
* * *
39893724 ATGTGAAAATGACCTTTTTGCCCCT
1 ATGTGAAAATGACCATTATACCCCT
39893749 ATGTGAAAATGACCATTATACCCCT
1 ATGTGAAAATGACCATTATACCCCT
39893774 A
1 A
39893775 GGGTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (25 bp):
ATGTGAAAATGACCATTATACCCCT
Found at i:39893832 original size:10 final size:10
Alignment explanation
Indices: 39893817--39893855 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
39893807 TGCTTTTGTA
39893817 CATGATATGC
1 CATGATATGC
39893827 CATGATATGC
1 CATGATATGC
39893837 ACATGATATGC
1 -CATGATATGC
39893848 CATGATAT
1 CATGATAT
39893856 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:39893841 original size:21 final size:21
Alignment explanation
Indices: 39893816--39893855 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
39893806 CTGCTTTTGT
39893816 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
39893837 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
39893856 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:39900376 original size:25 final size:25
Alignment explanation
Indices: 39900348--39900398 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
39900338 CCCTCATAAT
* * * *
39900348 GTGAAAGTGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
39900373 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
39900398 G
1 G
39900399 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:39900465 original size:11 final size:11
Alignment explanation
Indices: 39900438--39900470 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
39900428 CTACTTTTGT
39900438 ACATGATATGC
1 ACATGATATGC
39900449 -CATGATATGC
1 ACATGATATGC
39900459 ACATGATATGC
1 ACATGATATGC
39900470 A
1 A
39900471 TGGGTTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (11 bp):
ACATGATATGC
Found at i:39909813 original size:43 final size:43
Alignment explanation
Indices: 39909725--39909834 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
39909715 ATCGAGATGC
* * *
39909725 GATTACATGTAAGACCATGTCT-GGGCATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGGCATTGCCATTGTATTAT
39909767 GATTACGTGTAAGACCATGTCTGGGGCATTGCCATTGCTA-TAT
1 GATTACGTGTAAGACCATGTCTGGGGCATTGCCATTG-TATTAT
** * *
39909810 GATTTTGTTTAAGACCCTGTCTGGG
1 GATTACGTGTAAGACCATGTCTGGG
39909835 ATAGTTGCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 21 0.36
43 36 0.61
44 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGGCATTGCCATTGTATTAT
Found at i:39917029 original size:6 final size:6
Alignment explanation
Indices: 39917008--39917117 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
39916998 TATTAGAACT
* * * *
39917008 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
39917057 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C AAAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC
39917107 AGAATC AGAAT
1 AGAATC AGAAT
39917118 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:39917056 original size:25 final size:25
Alignment explanation
Indices: 39917020--39917117 Score: 106
Period size: 25 Copynumber: 3.7 Consensus size: 25
39917010 AATCAAAATG
39917020 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
39917045 AGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AG------AATCAGAATCAGAATCAGGTGAC
* *
39917076 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
39917101 AAAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
39917118 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 37 0.61
31 24 0.39
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:39917060 original size:31 final size:31
Alignment explanation
Indices: 39917022--39917095 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
39917012 TCAAAATGAG
39917022 AATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
* *
39917053 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
*
39917084 AATCAGTATCAG
1 AATCAGAATCAG
39917096 GTAACAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATCAA
Found at i:39917110 original size:31 final size:30
Alignment explanation
Indices: 39917013--39917117 Score: 103
Period size: 31 Copynumber: 3.6 Consensus size: 30
39917003 GAACTAGAAT
*
39917013 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGAATCAGAATCAGGT-A
* * *
39917044 CAGAATCAAAATCAGAATCAGAATTAGGT-
1 CAAAATCAGAATCAGAATCAGAATCAGGTA
* *
39917073 ---GA-CAGAATCAGAATCAGTATCAGGTAA
1 CAAAATCAGAATCAGAATCAGAATCAGGT-A
39917100 CAAAATCAGAATCAGAAT
1 CAAAATCAGAATCAGAAT
39917118 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
25 20 0.34
26 1 0.02
30 1 0.02
31 37 0.63
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (30 bp):
CAAAATCAGAATCAGAATCAGAATCAGGTA
Found at i:39917824 original size:27 final size:27
Alignment explanation
Indices: 39917784--39917842 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
39917774 ACAATCACAG
39917784 TAATTCTACACTACAGGGGTATTTCAA
1 TAATTCTACACTACAGGGGTATTTCAA
* *
39917811 TAATTCTACCCTACAGGGGTATTTTAA
1 TAATTCTACACTACAGGGGTATTTCAA
39917838 TAATT
1 TAATT
39917843 TTGTAAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (27 bp):
TAATTCTACACTACAGGGGTATTTCAA
Found at i:39917911 original size:27 final size:27
Alignment explanation
Indices: 39917876--39918085 Score: 221
Period size: 27 Copynumber: 7.9 Consensus size: 27
39917866 AATTCTGTAG
* *
39917876 ATCGGGGGTACTTTGGTAATTTTACAA
1 ATCGAGGGTATTTTGGTAATTTTACAA
* * **
39917903 GTTGAGGGTATTTCAGTAATTTTACAA
1 ATCGAGGGTATTTTGGTAATTTTACAA
*
39917930 ATTGA-GGTATTTTGGTAATTTTACAA
1 ATCGAGGGTATTTTGGTAATTTTACAA
*
39917956 ATCG-GAGGTATTTTGGTAATTTTGCAA
1 ATCGAG-GGTATTTTGGTAATTTTACAA
* *
39917983 ATCGGGGGTATTTTTGTAATTTTACAA
1 ATCGAGGGTATTTTGGTAATTTTACAA
* * *
39918010 A-CCATGGGTATTTTGGTAATTTTGCTA
1 ATCGA-GGGTATTTTGGTAATTTTACAA
* * *
39918037 ATCGAGGGTATTTTAGTAATTTTTCTA
1 ATCGAGGGTATTTTGGTAATTTTACAA
*
39918064 ATCGAGGGTA-TTTAGTAATTTT
1 ATCGAGGGTATTTTGGTAATTTT
39918086 GTAAACCAAT
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
26 35 0.22
27 119 0.76
28 3 0.02
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
ATCGAGGGTATTTTGGTAATTTTACAA
Found at i:39917971 original size:80 final size:78
Alignment explanation
Indices: 39917876--39918085 Score: 235
Period size: 80 Copynumber: 2.6 Consensus size: 78
39917866 AATTCTGTAG
* * * *
39917876 ATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAA-TTGAGGTAT
1 ATCGGAGGTATTTTGGTAATTTTACAA-TCGAGGGTATTT-AGTAATTTTACAAACATG-GGTAT
39917940 TTTGGTAATTTTACAA
63 TTTGGTAATTTTACAA
* * *
39917956 ATCGGAGGTATTTTGGTAATTTTGCAAATCGGGGGTATTTTTGTAATTTTACAAACCATGGGTAT
1 ATCGGAGGTATTTTGGTAATTTTAC-AATCGAGGGTA-TTTAGTAATTTTACAAA-CATGGGTAT
* *
39918021 TTTGGTAATTTTGCTA
63 TTTGGTAATTTTACAA
* *
39918037 ATC-GAGGGTATTTTAGTAATTTTTCTAATCGAGGGTATTTAGTAATTTT
1 ATCGGA-GGTATTTTGGTAATTTTAC-AATCGAGGGTATTTAGTAATTTT
39918086 GTAAACCAAT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
80 55 0.50
81 54 0.49
82 2 0.02
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (78 bp):
ATCGGAGGTATTTTGGTAATTTTACAATCGAGGGTATTTAGTAATTTTACAAACATGGGTATTTT
GGTAATTTTACAA
Found at i:39931731 original size:51 final size:49
Alignment explanation
Indices: 39931672--39931877 Score: 149
Period size: 41 Copynumber: 4.4 Consensus size: 49
39931662 TCCTAGACGT
*
39931672 GGTCTTACATGCAATCACATATTGATAAATCGATGCCACTGTCCCAGGCAG
1 GGTCTTACATG-AATCACATA-TGATAAATCGATGCCACTGTCCCAGACAG
* * * *
39931723 GGTTTTACACGAAT--CA-A--AT--A-CGATGTCGAC-GTCCCAGACAT
1 GGTCTTACATGAATCACATATGATAAATCGATG-CCACTGTCCCAGACAG
*
39931764 GGTCTTACATGTAATCACATATCGATAAATCGGTGCCACTGTCCCAGACAG
1 GGTCTTACATG-AATCACATAT-GATAAATCGATGCCACTGTCCCAGACAG
* * *
39931815 GGTCTTACACGAAT--CA-A--AT--A-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAATCACATATGATAAATCGATGCCACTGTCCCAGACAG
*
39931856 GGTCTTACACTTAATCACATAT
1 GGTCTTACA-TGAATCACATAT
39931878 CGATGCCAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
41 50 0.41
42 11 0.09
44 8 0.07
45 2 0.02
47 2 0.02
48 6 0.05
50 10 0.08
51 33 0.27
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
GGTCTTACATGAATCACATATGATAAATCGATGCCACTGTCCCAGACAG
Found at i:39931772 original size:41 final size:42
Alignment explanation
Indices: 39931700--39931908 Score: 156
Period size: 41 Copynumber: 4.8 Consensus size: 42
39931690 ATATTGATAA
* * *
39931700 ATCGATGCC-ACTGTCCCAGGCAGGGTTTTACACGAATCAAAT
1 ATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAATCAAAT
* * *
39931742 A-CGATGTCGACGTCCCAGACATGGTCTTACATGTAATCACATATCGAT
1 ATCGATGCCAACGTCCCAGACATGGTCTTACACG-AAT--CA-A---AT
* *
39931790 AAATCGGTGCC-ACTGTCCCAGACAGGGTCTTACACGAATCAAAT
1 --ATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAATCAAAT
* * *
39931834 A-CGATGCCAATGTCCCAGACATGGTCTTACACTTAATCACAT
1 ATCGATGCCAACGTCCCAGACATGGTCTTACAC-GAATCAAAT
* * *
39931876 ATCGATGCCAATGTTCCAGACGTGGTCTTACAC
1 ATCGATGCCAACGTCCCAGACATGGTCTTACAC
39931909 AAAAACACAT
Statistics
Matches: 136, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
41 50 0.37
42 16 0.12
43 29 0.21
44 4 0.03
45 1 0.01
47 1 0.01
48 4 0.03
50 6 0.04
51 25 0.18
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATCGATGCCAACGTCCCAGACATGGTCTTACACGAATCAAAT
Found at i:39931816 original size:92 final size:92
Alignment explanation
Indices: 39931653--39931881 Score: 352
Period size: 92 Copynumber: 2.5 Consensus size: 92
39931643 ATATCGTACA
* * * *
39931653 ATGCCAACGTCCTAGACGTGGTCTTACATGCAATCACATATTGATAAATCGATGCCACTGTCCCA
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCGATAAATCGATGCCACTGTCCCA
* *
39931718 GGCAGGGTTTTACACGAATCAAATACG
66 GACAGGGTCTTACACGAATCAAATACG
* * *
39931745 ATGTCGACGTCCCAGACATGGTCTTACATGTAATCACATATCGATAAATCGGTGCCACTGTCCCA
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCGATAAATCGATGCCACTGTCCCA
39931810 GACAGGGTCTTACACGAATCAAATACG
66 GACAGGGTCTTACACGAATCAAATACG
*
39931837 ATGCCAATGTCCCAGACATGGTCTTACACT-TAATCACATATCGAT
1 ATGCCAACGTCCCAGACATGGTCTTACA-TGTAATCACATATCGAT
39931882 GCCAATGTTC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 123 0.99
93 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (92 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCGATAAATCGATGCCACTGTCCCA
GACAGGGTCTTACACGAATCAAATACG
Found at i:39931895 original size:43 final size:42
Alignment explanation
Indices: 39931792--39931908 Score: 155
Period size: 43 Copynumber: 2.8 Consensus size: 42
39931782 ATATCGATAA
* * *
39931792 ATCGGTGCCACTGTCCCAGACAGGGTCTTACACGAATCAAAT
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCAAAT
* *
39931834 A-CGATGCCAATGTCCCAGACATGGTCTTACACTTAATCACAT
1 ATCGATGCCAATGTCCCAGACATGGTCTTACAC-GAATCAAAT
* *
39931876 ATCGATGCCAATGTTCCAGACGTGGTCTTACAC
1 ATCGATGCCAATGTCCCAGACATGGTCTTACAC
39931909 AAAAACACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 28 0.42
42 9 0.14
43 29 0.44
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCAAAT
Found at i:39937293 original size:14 final size:14
Alignment explanation
Indices: 39937274--39937300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39937264 CTAGGTTAAG
39937274 GAAAGAGTGAACTT
1 GAAAGAGTGAACTT
39937288 GAAAGAGTGAACT
1 GAAAGAGTGAACT
39937301 CTGTTTACTT
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:0.44, C:0.07, G:0.30, T:0.19
Consensus pattern (14 bp):
GAAAGAGTGAACTT
Found at i:39937944 original size:27 final size:27
Alignment explanation
Indices: 39937914--39937965 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39937904 GACCAAAATA
39937914 CCCCTAAAGGGTAAAATGACT-ATTTTG
1 CCCCTAAAGGG-AAAATGACTGATTTTG
**
39937941 CCCCTCGAGGGAAAATGACTGATTT
1 CCCCTAAAGGGAAAATGACTGATTT
39937966 GTTTGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (27 bp):
CCCCTAAAGGGAAAATGACTGATTTTG
Found at i:39940861 original size:39 final size:39
Alignment explanation
Indices: 39940807--39940886 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
39940797 ATGGGTTACG
39940807 ATGTATTACCAGATGAGACACAGCTTTCTGGATATCACA
1 ATGTATTACCAGATGAGACACAGCTTTCTGGATATCACA
39940846 ATGTATTACCAGATGAGACACAGCTTTCTGGATATCACA
1 ATGTATTACCAGATGAGACACAGCTTTCTGGATATCACA
39940885 AT
1 AT
39940887 CATACTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (39 bp):
ATGTATTACCAGATGAGACACAGCTTTCTGGATATCACA
Found at i:39942521 original size:51 final size:49
Alignment explanation
Indices: 39942466--39942624 Score: 131
Period size: 51 Copynumber: 3.3 Consensus size: 49
39942456 TCCTAGAGGT
39942466 GGTCTTACATGCAATCACATATTGATAAATTGATGCCACTGTCCCAGACAG
1 GGTCTTACATG-AATCACATA-TGATAAATTGATGCCACTGTCCCAGACAG
* *
39942517 GGTCTTACATGAAT--CA-A--AT--A-TGATGCCGA-TGT-CCTGAACAT
1 GGTCTTACATGAATCACATATGATAAATTGATGCC-ACTGTCCCAG-ACAG
* * * *
39942558 GGTCTTAGACGTAATCACATATCGATAAATCGATGCCACTTTCCCAGACAG
1 GGTCTTACATG-AATCACATAT-GATAAATTGATGCCACTGTCCCAGACAG
*
39942609 GGTCTTACACGAATCA
1 GGTCTTACATGAATCA
39942625 AAAACAATGC
Statistics
Matches: 85, Mismatches: 9, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
40 3 0.04
41 22 0.26
42 5 0.06
44 4 0.05
45 1 0.01
47 1 0.01
48 4 0.05
50 10 0.12
51 32 0.38
52 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (49 bp):
GGTCTTACATGAATCACATATGATAAATTGATGCCACTGTCCCAGACAG
Found at i:39942604 original size:92 final size:92
Alignment explanation
Indices: 39942444--39942675 Score: 322
Period size: 92 Copynumber: 2.5 Consensus size: 92
39942434 CATATATCGT
* * ** * * * *
39942444 ACAATGCCAACGTCCTAGAGGTGGTCTTACATGCAATCACATATTGATAAATTGATGCCACTGTC
1 ACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATAAATCGATGCCACTGTC
* *
39942509 CCAGACAGGGTCTTACATGAATCAAAT
66 CCAGACAGGGTCTTACACGAATCAAAA
** * *
39942536 ATGATGCCGATGTCCT-GAACATGGTCTTAGACGTAATCACATATCGATAAATCGATGCCACTTT
1 ACAATGCCGATGTCCTAG-ACATGGTCTTACACGTAATCACATATCGATAAATCGATGCCACTGT
39942600 CCCAGACAGGGTCTTACACGAATCAAAA
65 CCCAGACAGGGTCTTACACGAATCAAAA
39942628 ACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGAT
1 ACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGAT
39942676 GCCAACGTTC
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
91 1 0.01
92 119 0.98
93 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (92 bp):
ACAATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATAAATCGATGCCACTGTC
CCAGACAGGGTCTTACACGAATCAAAA
Found at i:39942697 original size:43 final size:40
Alignment explanation
Indices: 39942584--39942701 Score: 105
Period size: 41 Copynumber: 2.8 Consensus size: 40
39942574 ACATATCGAT
*
39942584 AAATCGATGCCACTTTCCCAGACAG-GGTCTTACACGAATCA
1 AAATCGATGCCACGTT-CCAGAC-GTGGTCTTACACGAATCA
* * * *
39942625 AAAACAATGCCGATG-TCCTAGACATGGTCTTACACGTAATCA
1 AAATCGATGCC-ACGTTCC-AGACGTGGTCTTACACG-AATCA
*
39942667 CATATCGATGCCAACGTTCCAGACGTGGTCTTACA
1 -AAATCGATGCC-ACGTTCCAGACGTGGTCTTACA
39942702 TGAGAACACA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.03
41 25 0.42
42 6 0.10
43 24 0.40
44 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (40 bp):
AAATCGATGCCACGTTCCAGACGTGGTCTTACACGAATCA
Found at i:39945150 original size:90 final size:93
Alignment explanation
Indices: 39944901--39945233 Score: 284
Period size: 96 Copynumber: 3.5 Consensus size: 93
39944891 TGGTTAATGA
* * * **
39944901 GATCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCATTCAAAATGAGATCCCATGTAAGACC
1 GATCCTGTATAAGACCATGTCTGGGACATGGCATCGGCA-TCAGTATGAGATCCCATGTAAGACC
*
39944966 ATATTTGGGACATGGCATCCGCATCTAGATGT
65 ATATATGGGACATGGCATCCGCATC-AGA--T
* * * * * * ** *
39944998 GATCCTGTATAAGACCATATCAGGGATATGGCTTCGGCATC-GTTAAGTGATTTCGTGTAAGACC
1 GATCCTGTATAAGACCATGTCTGGGACATGGCATCGGCATCAG-TATGAGATCCCATGTAAGACC
*
39945062 ATGTATGGGACATGGCAT-CG-AT-ACGA-
65 ATATATGGGACATGGCATCCGCATCA-GAT
* * * * *
39945088 GATCTTGTATAAGACCATGTCTGGGACATGGAATCGACATCAGTATGAGATCCCAAGTAAGACCG
1 GATCCTGTATAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCA
* * **
39945153 TATCTGGGATATGGCATTGGCATCA-ATGT
66 TATATGGGACATGGCATCCGCATCAGA--T
*
39945182 GAGGTCCTGTATAAGACCATGTCTAGGACATGGCATCGGCATC-GATATGAGA
1 GA--TCCTGTATAAGACCATGTCTGGGACATGGCATCGGCATCAG-TATGAGA
39945234 CTTCGTATAA
Statistics
Matches: 186, Mismatches: 38, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
90 63 0.34
91 3 0.02
92 3 0.02
93 3 0.02
94 4 0.02
95 3 0.02
96 75 0.40
97 32 0.17
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (93 bp):
GATCCTGTATAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCA
TATATGGGACATGGCATCCGCATCAGAT
Found at i:39945267 original size:48 final size:48
Alignment explanation
Indices: 39944897--39945267 Score: 210
Period size: 48 Copynumber: 7.8 Consensus size: 48
39944887 ACCATGGTTA
* * * * *
39944897 ATGAGA-TCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCATTCAAA
1 ATGAGACT-CCGTATAAGACCATATCTGGGACATGGCATCGGCA-TCGAT
* * * * * *
39944946 ATGAGA-TCCCATGTAAGACCATATTTGGGACATGGCATCCGCATCTAG
1 ATGAGACT-CCGTATAAGACCATATCTGGGACATGGCATCGGCATCGAT
* * * * *
39944994 ATGTGA-TCCTGTATAAGACCATATCAGGGATATGGCTTCGGCATCGTT
1 ATGAGACTCC-GTATAAGACCATATCTGGGACATGGCATCGGCATCGAT
* * * * * * *
39945042 AAGTGATTTCGTGTAAGACCATGTATGGG--A---CAT-GGCATCGAT
1 ATGAGACTCCGTATAAGACCATATCTGGGACATGGCATCGGCATCGAT
* * * * *
39945084 ACGAGA-TCTTGTATAAGACCATGTCTGGGACATGGAATCGACATC-AGT
1 ATGAGACTC-CGTATAAGACCATATCTGGGACATGGCATCGGCATCGA-T
** * * * *
39945132 ATGAGA-TCCCAAGTAAGACCGTATCTGGGATATGGCATTGGCATCAAT
1 ATGAGACTCCGTA-TAAGACCATATCTGGGACATGGCATCGGCATCGAT
* * * *
39945180 GTGAG-GTCCTGTATAAGACCATGTCTAGGACATGGCATCGGCATCGAT
1 ATGAGACTCC-GTATAAGACCATATCTGGGACATGGCATCGGCATCGAT
* * *
39945228 ATGAGACTTCGTATAACACCATATCTGGGATATGGCATCG
1 ATGAGACTCCGTATAAGACCATATCTGGGACATGGCATCG
39945268 ATATGTGGTC
Statistics
Matches: 247, Mismatches: 60, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
41 1 0.00
42 29 0.12
43 2 0.01
44 1 0.00
46 1 0.00
47 6 0.02
48 163 0.66
49 44 0.18
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
ATGAGACTCCGTATAAGACCATATCTGGGACATGGCATCGGCATCGAT
Found at i:39945289 original size:186 final size:187
Alignment explanation
Indices: 39944899--39945304 Score: 469
Period size: 186 Copynumber: 2.2 Consensus size: 187
39944889 CATGGTTAAT
* * * *
39944899 GAGATCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCATTCAAAATGAGATCCCATGTAAGA
1 GAGATCCCGTGTAAGACCATGTCTGGGACATGGAATCGACATTCAAAATGAGATCCCAAGTAAGA
* *
39944964 CCATATTTGGGACATGGCATCCGCATCTAGATGTGATCCTGTATAAGACCATATCAGGGATATGG
66 CCATATCTGGGACATGGCATCCGCATCTAGATGTGATCCTGTATAAGACCATATCAGGGACATGG
* * * * * * *
39945029 CTTCGGCATCGTTAAGTGATTTCGTGTAAGACCATGTATGGGACATGGCATCGATAC
131 CATCGGCATCGATAAGAGACTTCGTATAACACCATATATGGGACATGGCATCGATAC
** * **
39945086 GAGATCTTGTATAAGACCATGTCTGGGACATGGAATCGACA-TCAGTATGAGATCCCAAGTAAGA
1 GAGATCCCGTGTAAGACCATGTCTGGGACATGGAATCGACATTCAAAATGAGATCCCAAGTAAGA
* * ** *
39945150 CCGTATCTGGGATATGGCATTGGCATC-A-ATGTGAGGTCCTGTATAAGACCATGTCTA-GGACA
66 CCATATCTGGGACATGGCATCCGCATCTAGATGTGA--TCCTGTATAAGACCATATC-AGGGACA
* * * *
39945212 TGGCATCGGCATCGATATGAGACTTCGTATAACACCATATCTGGGATATGGCATCGATAT
128 TGGCATCGGCATCGATAAGAGACTTCGTATAACACCATATATGGGACATGGCATCGATAC
* * * **
39945272 GTGGTCCCATGTAAGACCATGTCCAGGACATGG
1 GAGATCCCGTGTAAGACCATGTCTGGGACATGG
39945305 CTTTGGAACT
Statistics
Matches: 181, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
184 6 0.03
185 1 0.01
186 138 0.76
187 36 0.20
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (187 bp):
GAGATCCCGTGTAAGACCATGTCTGGGACATGGAATCGACATTCAAAATGAGATCCCAAGTAAGA
CCATATCTGGGACATGGCATCCGCATCTAGATGTGATCCTGTATAAGACCATATCAGGGACATGG
CATCGGCATCGATAAGAGACTTCGTATAACACCATATATGGGACATGGCATCGATAC
Found at i:39953536 original size:26 final size:27
Alignment explanation
Indices: 39953507--39953572 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
39953497 TTAGTTTACC
*
39953507 AAATTACTAAAATACCCCCA-ATTATA
1 AAATTACCAAAATACCCCCAGATTATA
* *
39953533 AAATTACCAAAGTACCCCCAGTTTATA
1 AAATTACCAAAATACCCCCAGATTATA
* *
39953560 AAACTACCCAAAT
1 AAATTACCAAAAT
39953573 TCCTTGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCAGATTATA
Found at i:39953635 original size:53 final size:52
Alignment explanation
Indices: 39953578--39953796 Score: 244
Period size: 53 Copynumber: 4.1 Consensus size: 52
39953568 CAAATTCCTT
39953578 GATTTGTAAAATTACCGAAATACCGTTGATTGTAAAATTACTGAAATACCCTC
1 GATTTGTAAAATTACCGAAATACC-TTGATTGTAAAATTACTGAAATACCCTC
* * * *
39953631 GATTTGTAAAATTATCAAAATATCATTGATTGTAAAATTATTGAAATACCCTC
1 GATTTGTAAAATTACCGAAATA-CCTTGATTGTAAAATTACTGAAATACCCTC
* * * * *
39953684 AATTTGTAAAATTATCGAAATACCCTCAGTT-TACAAAATTACTAAAATACCCTC
1 GATTTGTAAAATTACCGAAATACCTTGA-TTGT--AAAATTACTGAAATACCCTC
* * *
39953738 GATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTA-TCAAAGTACCCCC
1 GATTTGTAAAATTACCGAAATACCTT-GA-TTGTAAAATTACTGAAA-TACCCTC
39953792 GATTT
1 GATTT
39953797 ACAGAATTAC
Statistics
Matches: 140, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.03
53 73 0.52
54 59 0.42
55 3 0.02
56 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (52 bp):
GATTTGTAAAATTACCGAAATACCTTGATTGTAAAATTACTGAAATACCCTC
Found at i:39953651 original size:27 final size:27
Alignment explanation
Indices: 39953578--39953796 Score: 209
Period size: 27 Copynumber: 8.2 Consensus size: 27
39953568 CAAATTCCTT
* * *
39953578 GATTTGTAAAATTACCGAAATACCGTT
1 GATTTGTAAAATTATCGAAATACCCTC
39953605 GA-TTGTAAAATTA-CTGAAATACCCTC
1 GATTTGTAAAATTATC-GAAATACCCTC
* * * *
39953631 GATTTGTAAAATTATCAAAATATCATT
1 GATTTGTAAAATTATCGAAATACCCTC
*
39953658 GA-TTGTAAAATTATTGAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTC
*
39953684 AATTTGTAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTC
** *
39953711 -AGTTTACAAAATTA-CTAAAATACCCTC
1 GA-TTTGTAAAATTATC-GAAATACCCTC
*
39953738 GATTTGTAAAATTA-CTGAAATACCTTC
1 GATTTGTAAAATTATC-GAAATACCCTC
* *
39953765 GACTTGTAAAATTATC-AAAGTACCCCC
1 GATTTGTAAAATTATCGAAA-TACCCTC
39953792 GATTT
1 GATTT
39953797 ACAGAATTAC
Statistics
Matches: 159, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 47 0.30
27 108 0.68
28 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTC
Found at i:39953816 original size:81 final size:81
Alignment explanation
Indices: 39953507--39953843 Score: 224
Period size: 81 Copynumber: 4.2 Consensus size: 81
39953497 TTAGTTTACC
* * * * * * * *
39953507 AAATTACTAAAATACCCCCAA-TTATAAAATTA-CCAAAGTACCCCCAGTTTATAAAACTACCCA
1 AAATTATTGAAATACCCTCAACTTGTAAAATTATCGAAA-TACCCCCAGTTTACAAAATTACCAA
* **
39953570 AAT-TCCTTGATTTGTA
65 AATACCCTCAATTTGTA
** * ** * ** *
39953586 AAATTACCGAAATACCGTTGA-TTGTAAAATTA-CTGAAATACCCTC-GATTTGTAAAATTATCA
1 AAATTATTGAAATACCCTCAACTTGTAAAATTATC-GAAATACCCCCAG-TTTACAAAATTACCA
* * **
39953648 AAATATCATTGA-TTGTA
64 AAATACCCTCAATTTGTA
* * *
39953665 AAATTATTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCAGTTTACAAAATTACTAAA
1 AAATTATTGAAATACCCTCAACTTGTAAAATTATCGAAATACCCCCAGTTTACAAAATTACCAAA
*
39953730 ATACCCTCGATTTGTA
66 ATACCCTCAATTTGTA
* * * * *
39953746 AAATTACTGAAATACCTTCGACTTGTAAAATTATC-AAAGTACCCCC-GATTTACAGAATTACCG
1 AAATTATTGAAATACCCTCAACTTGTAAAATTATCGAAA-TACCCCCAG-TTTACAAAATTACCA
*** **
39953809 TTTTACCCTCAATTTACA
64 AAATACCCTCAATTTGTA
39953827 AAATTATTGAAATACCC
1 AAATTATTGAAATACCC
39953844 CTGTAGGGTA
Statistics
Matches: 207, Mismatches: 42, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
78 1 0.00
79 68 0.33
80 55 0.27
81 83 0.40
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTATTGAAATACCCTCAACTTGTAAAATTATCGAAATACCCCCAGTTTACAAAATTACCAAA
ATACCCTCAATTTGTA
Found at i:39953842 original size:27 final size:27
Alignment explanation
Indices: 39953664--39953843 Score: 130
Period size: 27 Copynumber: 6.7 Consensus size: 27
39953654 CATTGATTGT
* **
39953664 AAAATTATTGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTCAATTTAC
*
39953691 AAAATTA-TCGAAATACCCTCAGTTTAC
1 AAAATTACT-GAAATACCCTCAATTTAC
* * **
39953718 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACTGAAATACCCTCAATTTAC
* * * **
39953745 AAAATTACTGAAATACCTTCGACTTGT
1 AAAATTACTGAAATACCCTCAATTTAC
* * *
39953772 AAAATTA-TCAAAGTACCCCCGATTTAC
1 AAAATTACTGAAA-TACCCTCAATTTAC
* * ***
39953799 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACTGAAATACCCTCAATTTAC
*
39953826 AAAATTATTGAAATACCC
1 AAAATTACTGAAATACCC
39953844 CTGTAGGGTA
Statistics
Matches: 118, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
26 5 0.04
27 112 0.95
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCAATTTAC
Found at i:39953858 original size:27 final size:27
Alignment explanation
Indices: 39953835--39954239 Score: 488
Period size: 27 Copynumber: 15.0 Consensus size: 27
39953825 CAAAATTATT
* * *
39953835 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
39953862 AAAATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
**
39953889 GAAATACCCTTGTAGGGTAGAAATGTC
1 GAAATACCCTTGTAGGGTAGAAATACC
39953916 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
39953943 GAAATACCCCTGTAGAGTAGAATTGCT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
39953970 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
39953997 GAAATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* ** **
39954024 GAAACA-CCTCTACAGGGTAGAAATGTC
1 GAAATACCCT-TGTAGGGTAGAAATACC
39954051 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
39954078 GAAATACCCCTGTAGGGTAGAATTGCT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
39954105 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
39954132 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
39954159 GAAATACCCCTATAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
39954186 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
39954213 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
39954240 ATTTTGCCCC
Statistics
Matches: 323, Mismatches: 53, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.01
27 317 0.98
28 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:39954060 original size:135 final size:134
Alignment explanation
Indices: 39953834--39954234 Score: 622
Period size: 135 Copynumber: 3.0 Consensus size: 134
39953824 ACAAAATTAT
*
39953834 TGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGTAGGGTAAAAATACCGAAATACCCT
1 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACCGAAATACCC-
* *
39953899 TGTAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGAGTAGA
65 TATAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGA
39953964 ATTGC
130 ATTGC
*
39953969 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACCGAAACACCTC
1 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACCGAAATACC-C
*
39954034 TACAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGA
65 TATAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGA
39954099 ATTGC
130 ATTGC
* * * * * **
39954104 TGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCC
1 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACCGAAATA-CCC
* ** * *
39954169 TATAGGATAGAAATACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCTTGTAGGGTAGA
65 TATAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGA
39954234 A
130 A
39954235 ATACCATTTT
Statistics
Matches: 245, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
135 242 0.99
136 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (134 bp):
TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCT
ATAGGGTAGAAATGTCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAA
TTGC
Found at i:39954718 original size:22 final size:22
Alignment explanation
Indices: 39954665--39954730 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
39954655 CTTAAAGCCT
* *
39954665 TCTGATTATGGCTTTGCGCCAA
1 TCTGATTATGGCTCTGTGCCAA
* *
39954687 CCT-ACATATGGCTCTGTGCCAA
1 TCTGA-TTATGGCTCTGTGCCAA
* *
39954709 TCTGATTATGGTTGTGTGCCAA
1 TCTGATTATGGCTCTGTGCCAA
39954731 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (22 bp):
TCTGATTATGGCTCTGTGCCAA
Found at i:39955126 original size:25 final size:25
Alignment explanation
Indices: 39955090--39955152 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
39955080 ATTCACATTC
*
39955090 TAATTCTAATTCTATTACCTGATAT
1 TAATTCTAATTCTATCACCTGATAT
* *
39955115 TAATTCTGATTCTGTCACCTGAT-T
1 TAATTCTAATTCTATCACCTGATAT
*
39955139 CTGATTCTAATTCT
1 -TAATTCTAATTCT
39955153 CATTTTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (25 bp):
TAATTCTAATTCTATCACCTGATAT
Found at i:39957199 original size:27 final size:26
Alignment explanation
Indices: 39957145--39957211 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
39957135 TTAGTTTACC
* *
39957145 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCCAGTTATA
* *
39957171 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCCCAG-TTATA
* *
39957198 AAACTACCCAAATA
1 AAATTACCAAAATA
39957212 TCCTTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.24
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCAGTTATA
Found at i:39957280 original size:80 final size:81
Alignment explanation
Indices: 39957145--39957435 Score: 306
Period size: 80 Copynumber: 3.6 Consensus size: 81
39957135 TTAGTTTACC
* * * * ** * * *
39957145 AAATTACTAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAACTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTGTAAAATTACCGAA
39957209 ATATCCTTAATTTGTA
66 ATATCCTTAATTTGTA
*** *
39957225 AAATTACTGAAATATGGTCGA-TTGTAAAATTACCGAAA-TACCCTCAATTTGTAAAATTATCGA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCAATTTGTAAAATTACCGA
* *
39957288 AATATCATTTA-TTGTA
65 AATATCCTTAATTTGTA
* * * * * *
39957304 AAATTATTGAAATACCCTCAATTTGTAAAATTACCGAAA-TACCCTCAGTTTGCAAAATTACTGA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCAATTTGTAAAATTACCGA
*
39957368 AATA-CCTTCGATTTGTA
65 AATATCCTT-AATTTGTA
*
39957385 AAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCAATTT
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTT
39957436 ACAGAATTAC
Statistics
Matches: 175, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
79 24 0.14
80 99 0.57
81 52 0.30
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTGTAAAATTACCGAA
ATATCCTTAATTTGTA
Found at i:39957415 original size:54 final size:53
Alignment explanation
Indices: 39957145--39957435 Score: 257
Period size: 53 Copynumber: 5.5 Consensus size: 53
39957135 TTAGTTTACC
* * * * * * *
39957145 AAATTACTAAAATACCC-CCAGTTGTAAAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAA-TACCCTC-GATTGTA
* ** * * ***
39957198 AAACTACCCAAATATCCTTAATTTGTAAAATTACTGAAATATGGTCGATTGTA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCTCGATTGTA
* * * **
39957251 AAATTACCGAAATACCCTCAATTTGTAAAATTA-TCGAAATATCATTTATTGTA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACT-GAAATACCCTCGATTGTA
* * * *
39957304 AAATTATTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCTC-GATTGTA
* *
39957358 AAATTACTGAAATACCTTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCTCGA-TTGTA
*
39957412 AAATTA-TCAAAGTACCCTCAATTT
1 AAATTACTGAAA-TACCCTCAATTT
39957436 ACAGAATTAC
Statistics
Matches: 191, Mismatches: 40, Indels: 13
0.78 0.16 0.05
Matches are distributed among these distances:
52 1 0.01
53 105 0.55
54 82 0.43
55 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCTCGATTGTA
Found at i:39957469 original size:81 final size:81
Alignment explanation
Indices: 39957139--39957482 Score: 241
Period size: 80 Copynumber: 4.3 Consensus size: 81
39957129 AATACTTTAG
* * * * * * ** * *
39957139 TTTACCAAATTACTAAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCCCCGGTTTATAAAAC
1 TTTACAAAATTATTGAAATACCCTCAACTTGTAAAATTACCGAAA-TACCCTCAATTTACAAAAT
* * *
39957202 TACCCAAATATCCTTAA
65 TACCGAAATACCCTCAA
** * *** * **
39957219 TTTGTAAAATTACTGAAATATGGTCGA-TTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
1 TTTACAAAATTATTGAAATACCCTCAACTTGTAAAATTACCGAAATACCCTCAATTTACAAAATT
* * * **
39957283 ATCGAAATATCATTTA
66 ACCGAAATACCCTCAA
* * *
39957299 TTGT--AAAATTATTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAAT
1 TT-TACAAAATTATTGAAATACCCTCAACTTGTAAAATTACCGAAATACCCTCAATTTACAAAAT
* * *
39957362 TACTGAAATACCTTCGA
65 TACCGAAATACCCTCAA
** * * * *
39957379 TTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTATC-AAAGTACCCTCAATTTACAGAAT
1 TTTACAAAATTATTGAAATACCCTCAACTTGTAAAATTACCGAAA-TACCCTCAATTTACAAAAT
***
39957443 TACCGTTTTACCCTCAA
65 TACCGAAATACCCTCAA
39957460 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATTGAAATACCC
39957483 CTGTAGGGTA
Statistics
Matches: 211, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
79 18 0.09
80 108 0.51
81 85 0.40
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
TTTACAAAATTATTGAAATACCCTCAACTTGTAAAATTACCGAAATACCCTCAATTTACAAAATT
ACCGAAATACCCTCAA
Found at i:39957481 original size:27 final size:27
Alignment explanation
Indices: 39957145--39957482 Score: 238
Period size: 27 Copynumber: 12.6 Consensus size: 27
39957135 TTAGTTTACC
* * *
39957145 AAATTACTAAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * ** *
39957171 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
* ** * *
39957198 AAACTACCCAAATATCCTTAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*** *
39957225 AAATTACTGAAATATGGTCGA-TTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*
39957251 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * **
39957278 AAATTA-TCGAAATATCATTTA-TTGTA
1 AAATTACT-GAAATACCCTCAATTTGTA
*
39957304 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
39957331 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
39957358 AAATTACTGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
39957385 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* **
39957412 AAATTA-TCAAAGTACCCTCAATTTACA
1 AAATTACTGAAA-TACCCTCAATTTGTA
* * *** **
39957439 GAATTACCGTTTTACCCTCAATTTACA
1 AAATTACTGAAATACCCTCAATTTGTA
*
39957466 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
39957483 CTGTAGGGTA
Statistics
Matches: 242, Mismatches: 61, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
25 3 0.01
26 57 0.24
27 178 0.74
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:39957497 original size:27 final size:27
Alignment explanation
Indices: 39957474--39958283 Score: 1107
Period size: 27 Copynumber: 30.0 Consensus size: 27
39957464 CAAAATTATT
*
39957474 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39957501 GAAATACCCTTGTAGGGTAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * **
39957528 GAAATACCCTTGTAGGGTAGAAATGTC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957555 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957582 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
39957609 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957636 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957663 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
39957690 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957717 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957744 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
39957771 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957798 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957825 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957852 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957879 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957906 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39957933 GAAATACCCCTGTAGGGTAGAATTCCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957960 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39957987 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39958014 AAAATACCCCTTTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39958041 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39958068 AAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
39958095 AAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39958122 AAAATACCCCAGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39958149 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
39958176 GAAATACCCCTGTAGAGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39958203 GAAATGCCCCTATAAGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
39958230 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
39958257 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
39958284 ATTTTGCCCC
Statistics
Matches: 700, Mismatches: 83, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 700 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:39958993 original size:27 final size:26
Alignment explanation
Indices: 39958943--39959012 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
39958933 GTGGCTTTGC
* *
39958943 CACATTATCTGTTCTGGTGGCTCTGT
1 CACAATATCTGTTCTGGTGACTCTGT
*
39958969 TACAATATCTGTATCTGGTGACTCTGT
1 CACAATATCTGT-TCTGGTGACTCTGT
*
39958996 CACAATATCTATTCTGG
1 CACAATATCTGTTCTGG
39959013 CAGCCATGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 15 0.39
27 23 0.61
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (26 bp):
CACAATATCTGTTCTGGTGACTCTGT
Found at i:39959129 original size:25 final size:25
Alignment explanation
Indices: 39959097--39959163 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
39959087 TTGCATTCAC
* *
39959097 ATTCTGATTCTAATTCTGTTACTTG
1 ATTCTGATTCTAATTCTGTCACCTG
39959122 ATAT-TGATTCTAATTCTGTCACCTG
1 AT-TCTGATTCTAATTCTGTCACCTG
39959147 ATTCTGATTCTAATTCT
1 ATTCTGATTCTAATTCT
39959164 CATTTTGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTG
Found at i:39975150 original size:20 final size:20
Alignment explanation
Indices: 39975125--39975166 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
39975115 ATCGACAAAG
39975125 GAATAAAGGAAGAAAATGAA
1 GAATAAAGGAAGAAAATGAA
* **
39975145 GAATAATGGAAGGGAATGAA
1 GAATAAAGGAAGAAAATGAA
39975165 GA
1 GA
39975167 GAGAAAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (20 bp):
GAATAAAGGAAGAAAATGAA
Found at i:39988010 original size:48 final size:48
Alignment explanation
Indices: 39987939--39988113 Score: 171
Period size: 48 Copynumber: 3.6 Consensus size: 48
39987929 TATGTGTGCT
*
39987939 AGTGTAAGACCATGTATGGGACATGGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
* * *
39987987 AGTGTAAGACCATGTCTAGGACATGGCATCG---ACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT---ATGAGAGCC
* * * *
39988035 AGTGTAAGACCATGTTTGGGACATGGCATC-AGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAC-ATTATGAGAGCC
* * *
39988083 AATGTAAAACCATGTCTGGGACAGGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
39988114 GCATTTTACC
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
45 5 0.05
48 96 0.93
51 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
Found at i:39988105 original size:96 final size:96
Alignment explanation
Indices: 39987936--39988118 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
39987926 TGATATGTGT
* * *
39987936 GCTAGTGTAAGACCATGTATGGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCGACCACATCATGAGAGCCAATGTAAAACCATG
*
39988001 TCTAGGACATGGCATCGACATTGAGACGAGA
66 TCTAGGACAGGGCATCGACATTGAGACGAGA
* * *
39988032 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCCTCGA-CATGTGAGCCAATGTAAAACCA
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCGA-CCAC-ATCATGAGAGCCAATGTAAAACCA
* *
39988095 TGTCTGGGACAGGGCATCGGCATT
64 TGTCTAGGACAGGGCATCGACATT
39988119 TTACCCTCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
95 1 0.01
96 74 0.97
97 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTATGGGACATGGCATCGACCACATCATGAGAGCCAATGTAAAACCATG
TCTAGGACAGGGCATCGACATTGAGACGAGA
Found at i:39994085 original size:27 final size:27
Alignment explanation
Indices: 39994055--39994231 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
39994045 AAATTGTACA
* *
39994055 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
39994082 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
39994109 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
39994136 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
39994164 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
39994191 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
39994218 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39994232 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:39994168 original size:82 final size:81
Alignment explanation
Indices: 39994055--39994210 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
39994045 AAATTGTACA
* * * *
39994055 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
39994119 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39994136 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
39994201 TGCGAGTTGA
65 TGCGAATTGA
39994211 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39994222 original size:82 final size:81
Alignment explanation
Indices: 39994051--39994231 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
39994041 GATTAAATTG
* * * * *
39994051 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39994116 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39994132 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39994196 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39994214 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39994232 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39996891 original size:26 final size:26
Alignment explanation
Indices: 39996857--39996912 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
39996847 CCAGCACACT
* *
39996857 AATATCGCAGCAAAGCTACCAGTAAC
1 AATAACGCAACAAAGCTACCAGTAAC
* * *
39996883 AATAACGCAATAAAGCTACTAGTATC
1 AATAACGCAACAAAGCTACCAGTAAC
39996909 AATA
1 AATA
39996913 TATGGCACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.20
Consensus pattern (26 bp):
AATAACGCAACAAAGCTACCAGTAAC
Found at i:39996945 original size:20 final size:20
Alignment explanation
Indices: 39996916--39997094 Score: 180
Period size: 20 Copynumber: 8.9 Consensus size: 20
39996906 ATCAATATAT
*
39996916 GGCACAAAGCCATGAGTAGC
1 GGCACAAAGCCATCAGTAGC
* * *
39996936 GGCACGAAGCCGTCAGTAGT
1 GGCACAAAGCCATCAGTAGC
*
39996956 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
*
39996976 GGCACAAAGCCATCAGTAGT
1 GGCACAAAGCCATCAGTAGC
* *
39996996 GGCACAAAGACATCAATAGC
1 GGCACAAAGCCATCAGTAGC
* *
39997016 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* * * **
39997036 GGTACACAA-CAATCAATAAT
1 GGCACA-AAGCCATCAGTAGC
* *
39997056 GGCACAAATCCATCTGTAGC
1 GGCACAAAGCCATCAGTAGC
*
39997076 GGCACAAACCCATCAGTAG
1 GGCACAAAGCCATCAGTAG
39997095 GTCCACAATC
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.14
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGC
Found at i:39996976 original size:40 final size:40
Alignment explanation
Indices: 39996915--39997090 Score: 210
Period size: 40 Copynumber: 4.4 Consensus size: 40
39996905 TATCAATATA
* * * *
39996915 TGGCACAAAGCCATGAGTAGCGGCACGAAGCCGTCAGTAG
1 TGGCACAAAGCCATCAATAGCGGCACAAAGCCATCAGTAG
39996955 TGGCACAAAGCCATCAATAGCGGCACAAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAGCGGCACAAAGCCATCAGTAG
* *
39996995 TGGCACAAAGACATCAATAGCGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGCGGCACAAAGCCATCAGTAG
* * ** * *
39997035 TGGTACACAA-CAATCAATAATGGCACAAATCCATCTGTAG
1 TGGCACA-AAGCCATCAATAGCGGCACAAAGCCATCAGTAG
* *
39997075 CGGCACAAACCCATCA
1 TGGCACAAAGCCATCA
39997091 GTAGGTCCAC
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 113 0.97
41 2 0.02
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (40 bp):
TGGCACAAAGCCATCAATAGCGGCACAAAGCCATCAGTAG
Found at i:40000779 original size:37 final size:37
Alignment explanation
Indices: 40000727--40000833 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
40000717 ATGGCAAAGT
* *
40000727 ATGGAATGTAAGACCATAGCTAGGCTATGGCATCGTA
1 ATGGCATGTAAGACCATAGCTGGGCTATGGCATCGTA
40000764 ATGGCATGTAAGACCATAGCTGGGCTATGGCATCGTA
1 ATGGCATGTAAGACCATAGCTGGGCTATGGCATCGTA
*
40000801 ATGGCATGTAAGACCATAGTTGGGCTATGGCAT
1 ATGGCATGTAAGACCATAGCTGGGCTATGGCAT
40000834 TTTGATTTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (37 bp):
ATGGCATGTAAGACCATAGCTGGGCTATGGCATCGTA
Found at i:40000848 original size:37 final size:37
Alignment explanation
Indices: 40000699--40000871 Score: 186
Period size: 37 Copynumber: 4.7 Consensus size: 37
40000689 AATTGACGGA
* * * ** *
40000699 TAAGACCATGGTTGGACCATGGCAAAGT-ATGGAATG
1 TAAGACCATAGTTGGGCTATGGCATCGTAATGGCATG
* *
40000735 TAAGACCATAGCTAGGCTATGGCATCGTAATGGCATG
1 TAAGACCATAGTTGGGCTATGGCATCGTAATGGCATG
*
40000772 TAAGACCATAGCTGGGCTATGGCATCGTAATGGCATG
1 TAAGACCATAGTTGGGCTATGGCATCGTAATGGCATG
** * ****
40000809 TAAGACCATAGTTGGGCTATGGCATTTTGATTTTGTG
1 TAAGACCATAGTTGGGCTATGGCATCGTAATGGCATG
*
40000846 TAAGACCATAGTTGGACTATGGCATC
1 TAAGACCATAGTTGGGCTATGGCATC
40000872 AAGTAAACAA
Statistics
Matches: 117, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
36 21 0.18
37 96 0.82
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (37 bp):
TAAGACCATAGTTGGGCTATGGCATCGTAATGGCATG
Found at i:40004354 original size:48 final size:48
Alignment explanation
Indices: 40004289--40004461 Score: 187
Period size: 48 Copynumber: 3.6 Consensus size: 48
40004279 TATGTGTGCT
*
40004289 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
40004337 AGTGCAGGACCATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
**
40004385 AGTGTAAGACCATGTCTCAGACATGGCATCGGCCTCGACA-TAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-C-ACATTATGAGAGCC
*
40004433 AGTGTAAGACCATGTCTGGGATATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
40004462 TGGCATTTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 4 0.04
48 96 0.92
50 1 0.01
53 1 0.01
54 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:40004412 original size:96 final size:96
Alignment explanation
Indices: 40004289--40004468 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
40004279 TATGTGTGCT
** * *
40004289 AGTGTAAGACCATGTCTGGGACATGGCATTGG-C-C-ACATTATGAGAGCCAGTGCAGGACCATG
1 AGTGTAAGACCATGTCTCAGACATGGCATCGGCCTCGACA-TAT--GAGCCAGTGCAAGACCATG
40004351 TCTGGGACATGGCATCGGCATTGAGACGAGAGCC
63 TCTGGGACATGGCATCGGCATTGAGACGAGAGCC
*
40004385 AGTGTAAGACCATGTCTCAGACATGGCATCGGCCTCGACATATGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTCAGACATGGCATCGGCCTCGACATATGAGCCAGTGCAAGACCATGTCT
* *
40004450 GGGATATGGCATTGGCATT
66 GGGACATGGCATCGGCATT
40004469 TTACCCTCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
96 66 0.89
97 1 0.01
98 4 0.05
99 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTCAGACATGGCATCGGCCTCGACATATGAGCCAGTGCAAGACCATGTCT
GGGACATGGCATCGGCATTGAGACGAGAGCC
Found at i:40010157 original size:55 final size:53
Alignment explanation
Indices: 40010031--40010217 Score: 164
Period size: 55 Copynumber: 3.5 Consensus size: 53
40010021 CTTACCATTT
** *
40010031 CCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACTAATG
1 CCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACTAATG
* * * *
40010084 CCATGCCTTGGCATGGTCTTACATGG-GGCCTTTGCCTTATTGTAAGTCA-TCAATG
1 CCATGTCTTGACATGGTCTTACATGGTAGCC-TTGCCTTA-TG-AACTCACT-AATG
* ** * *
40010139 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTA-TCAATG
1 CCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTAT-GAACTCACT-AATG
** *
40010193 CCATACCTTGGCATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
40010218 AGATCCTTAT
Statistics
Matches: 110, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 30 0.27
54 36 0.33
55 40 0.36
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACTAATG
Found at i:40010214 original size:54 final size:53
Alignment explanation
Indices: 40010059--40010225 Score: 176
Period size: 54 Copynumber: 3.1 Consensus size: 53
40010049 TTATGTGGTA
*
40010059 TCCTTGCCTTATGAACTCA-CTAATGCCATGCCTTGGCATGGTCTTACATG-GG
1 TCCTTGCCTTATAAACTCATC-AATGCCATGCCTTGGCATGGTCTTACATGAGG
* * * * * **
40010111 GCCTTTGCCTTATTGTAAGTCATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 TCC-TTGCCTTA-T-AAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGG
* * *
40010167 TCCTTGCCTTATAAAACTTATCAATGCCATACCTTGGCATGGTCTTACATGAGA
1 TCCTTGCCTTAT-AAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGG
40010221 TCCTT
1 TCCTT
40010226 ATCTTACCAA
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 8 0.09
54 40 0.43
55 40 0.43
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TCCTTGCCTTATAAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGG
Found at i:40014190 original size:40 final size:39
Alignment explanation
Indices: 40014092--40014354 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
40014082 TCCTCGTTCA
* * * *
40014092 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
40014131 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
40014170 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
40014210 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
40014250 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
40014290 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
40014331 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40014355 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:40014314 original size:120 final size:119
Alignment explanation
Indices: 40014092--40014354 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
40014082 TCCTCGTTCA
* * *
40014092 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
40014157 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
40014210 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
40014275 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
40014331 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40014355 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:40014363 original size:41 final size:41
Alignment explanation
Indices: 40014286--40014363 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
40014276 TTTGTATCTC
* * *
40014286 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
40014327 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
40014364 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:40022087 original size:39 final size:40
Alignment explanation
Indices: 40022044--40022173 Score: 199
Period size: 40 Copynumber: 3.3 Consensus size: 40
40022034 TCCTCGTTCA
* * * *
40022044 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
40022083 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
40022123 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
40022163 AATGCCTTCGG
1 AATGCCTTCGG
40022174 ATCTTAATCC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.41
40 49 0.59
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:40022142 original size:40 final size:39
Alignment explanation
Indices: 40022044--40022226 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 39
40022034 TCCTCGTTCA
* * * ** *
40022044 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
40022083 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
40022122 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * *
40022162 GAATGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
40022203 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40022227 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 37 0.30
40 79 0.64
41 8 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:40022213 original size:80 final size:78
Alignment explanation
Indices: 40022042--40022226 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 78
40022032 GCTCCTCGTT
* * *
40022042 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* *
40022107 TTTAACAACTCGCA
65 TATAACAACTAGCA
* * * * *
40022121 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGATCTTAATCCG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGA-CATAACCCG
*
40022185 GATATATTC-ACTTAGCA
63 GATATA-ACAAC-TAGCA
40022202 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
40022227 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
79 35 0.40
80 47 0.53
81 6 0.07
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
ATAACAACTAGCA
Found at i:40035046 original size:584 final size:584
Alignment explanation
Indices: 40033938--40035147 Score: 2222
Period size: 584 Copynumber: 2.1 Consensus size: 584
40033928 CTTGAGGATT
*
40033938 TGTAACACCCCAAACCCGGCCTAGATGTTATGGCCAAATCTGGTGCGTCACATCAAACCATTTTT
1 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCAAATCTGGTGCGTCACATCAAACCATTTTT
40034003 CAAATTTGATCTTTCCGATGAAAATCCATTACTGAATATAAATTCCTTTATTATTGTTAAACTAA
66 CAAATTTGATCTTTCCGATGAAAATCCATTACTGAATATAAATTCCTTTATTATTGTTAAACTAA
*
40034068 AGTTCTCATCAAAACGTTTACCAATTTGTTTGCCTCTGGTATATTACCTCATTTAAAATCACGGA
131 AGTTATCATCAAAACGTTTACCAATTTGTTTGCCTCTGGTATATTACCTCATTTAAAATCACGGA
*
40034133 AGCATTTTGAAAGCTTTGTTGTTGGAAGCTAGTGTTCCTTAGAAAAATCATGCCATTTTGAAATC
196 AGCATTTTGAAAACTTTGTTGTTGGAAGCTAGTGTTCCTTAGAAAAATCATGCCATTTTGAAATC
40034198 TCGAGTTTTCCTAGACTAGCAGTTTAGTATAAGAAATCACAATCCAAATTAAAACTTAAAACCCA
261 TCGAGTTTTCCTAGACTAGCAGTTTAGTATAAGAAATCACAATCCAAATTAAAACTTAAAACCCA
*
40034263 CCTACGGCCTTATTACATAATTTAAAAACACAAAACGAAATCTAATTGCAATTAAAAAAAACAGA
326 CCTACGGCCTTATTACATAATTTAAAAACACAAAACGAAATCTAATTACAATTAAAAAAAACAGA
* *
40034328 AACAGTAGTGTGGCCATCTCCGAGTCCCTCGCAGGTCCAAACCATCTAAGCTTAGGGATTACCTG
391 AACAGTAGTGTGGCCATCTCCGAGTCCCCCGCAGCTCCAAACCATCTAAGCTTAGGGATTACCTG
*
40034393 CACAGTTAGAAACGGGGTGAGTTAACGAAAACTCAGTGTGTAATCCCAATAACAAACAAAGATTG
456 CACAGTTAGAAACGGGGTGAGTTAACGAAAACTCAGTGTGTAATCCCAATAACAAACAAACATTG
* *
40034458 AATAACACGGTATCAGTACAATCTGGGCCAAAGCCCTATTCATTCTTGACATATACTAGGCTGA
521 AATAACACGGTATCAATACAATCTGGGCCAAAGCCCTATTCATTCTTGACATATACTAGGCCGA
40034522 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCAAATCTGGTGCGTCACATCAAACCATTTTT
1 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCAAATCTGGTGCGTCACATCAAACCATTTTT
* *
40034587 CAAATTTGATCTTTCCGGTGAAAATCCATTACTGAATCTAAATTCCTTTATTATTGTTAAACTAA
66 CAAATTTGATCTTTCCGATGAAAATCCATTACTGAATATAAATTCCTTTATTATTGTTAAACTAA
*
40034652 AGTTATCATCAAAACGTTTACCAATTTGTTTGCCTCTGGTATATTACCTCATTTAAAATCGCGGA
131 AGTTATCATCAAAACGTTTACCAATTTGTTTGCCTCTGGTATATTACCTCATTTAAAATCACGGA
*
40034717 AGCATTTTGAAAACTTTGTTGTTGGAAGCTTGTGTTCCTTAGAAAAATCATGCCATTTTGAAATC
196 AGCATTTTGAAAACTTTGTTGTTGGAAGCTAGTGTTCCTTAGAAAAATCATGCCATTTTGAAATC
*
40034782 TCGAGTTTTCCTAGACTAGCAGTTTAGTATAAGTAATCACAATCCAAATTAAAACTTAAAACCCA
261 TCGAGTTTTCCTAGACTAGCAGTTTAGTATAAGAAATCACAATCCAAATTAAAACTTAAAACCCA
* * *
40034847 CCTACGGCCTTATTACATAATTTAAAAACACAAAATGAAATCTAATTACAATTAAAAGAAATAGA
326 CCTACGGCCTTATTACATAATTTAAAAACACAAAACGAAATCTAATTACAATTAAAAAAAACAGA
40034912 AACAGTAGTGTGGCCATCTCCGAGTCCCCCGCAGCTCCAAACCATCTAAGCTTAGGGATTACCTG
391 AACAGTAGTGTGGCCATCTCCGAGTCCCCCGCAGCTCCAAACCATCTAAGCTTAGGGATTACCTG
* *
40034977 CATAGTTAGAAACGGGGTGAGTTTACGAAAACTCAGTGTGTAATCCCAATAACAAACAAACATTG
456 CACAGTTAGAAACGGGGTGAGTTAACGAAAACTCAGTGTGTAATCCCAATAACAAACAAACATTG
40035042 AATAACACGGTATCAATACAATCTGGGCCAAAGCCCTATTCATTCTTGACATATACTAGGCCGA
521 AATAACACGGTATCAATACAATCTGGGCCAAAGCCCTATTCATTCTTGACATATACTAGGCCGA
* * *
40035106 TGTAACACCCCAAACCCGGCCCAGACGTTATGGTCGAATCTG
1 TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCAAATCTG
40035148 ACGTGCCACA
Statistics
Matches: 604, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
584 604 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (584 bp):
TGTAACACCCCAAACCCGGCCTAGACGTTATGGCCAAATCTGGTGCGTCACATCAAACCATTTTT
CAAATTTGATCTTTCCGATGAAAATCCATTACTGAATATAAATTCCTTTATTATTGTTAAACTAA
AGTTATCATCAAAACGTTTACCAATTTGTTTGCCTCTGGTATATTACCTCATTTAAAATCACGGA
AGCATTTTGAAAACTTTGTTGTTGGAAGCTAGTGTTCCTTAGAAAAATCATGCCATTTTGAAATC
TCGAGTTTTCCTAGACTAGCAGTTTAGTATAAGAAATCACAATCCAAATTAAAACTTAAAACCCA
CCTACGGCCTTATTACATAATTTAAAAACACAAAACGAAATCTAATTACAATTAAAAAAAACAGA
AACAGTAGTGTGGCCATCTCCGAGTCCCCCGCAGCTCCAAACCATCTAAGCTTAGGGATTACCTG
CACAGTTAGAAACGGGGTGAGTTAACGAAAACTCAGTGTGTAATCCCAATAACAAACAAACATTG
AATAACACGGTATCAATACAATCTGGGCCAAAGCCCTATTCATTCTTGACATATACTAGGCCGA
Found at i:40035435 original size:18 final size:18
Alignment explanation
Indices: 40035409--40035443 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40035399 TCGTAACGTT
*
40035409 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
40035427 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
40035444 CGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:40035956 original size:26 final size:26
Alignment explanation
Indices: 40035878--40036007 Score: 198
Period size: 26 Copynumber: 5.2 Consensus size: 26
40035868 GGCCTGGCCT
40035878 CTTTT-AAT-AACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
40035901 CTTTT-GATAAACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
40035925 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
40035951 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
* *
40035977 CTTTTCAATAAACTAGGGTATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
40036003 CTTTT
1 CTTTT
40036008 GCATTTCCTC
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 7 0.07
24 20 0.20
25 13 0.13
26 60 0.60
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:40036124 original size:20 final size:20
Alignment explanation
Indices: 40036058--40036114 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
40036048 TTATGAATAC
*
40036058 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
40036078 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40036098 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
40036115 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40036187 original size:25 final size:25
Alignment explanation
Indices: 40036159--40036206 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40036149 TATAAGTAAA
* *
40036159 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGTAAAATAGTCATTTTT
40036184 ACCTAGGGGTAAAATAGTCATTT
1 ACCTAGGGGTAAAATAGTCATTT
40036207 CCATATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
ACCTAGGGGTAAAATAGTCATTTTT
Found at i:40043355 original size:18 final size:18
Alignment explanation
Indices: 40043329--40043363 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40043319 TCGTAACGTT
*
40043329 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
40043347 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
40043364 CGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:40043999 original size:25 final size:25
Alignment explanation
Indices: 40043931--40044039 Score: 152
Period size: 26 Copynumber: 4.4 Consensus size: 25
40043921 CTGGAGGCCT
40043931 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
40043955 AGCCCTTTTGATAAACTGGGGCA-A
1 AGCCCTTTTAATAAACTGGGGCATA
40043979 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
40044005 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
*
40044031 AGCCATTTT
1 AGCCCTTTT
40044040 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
23 7 0.09
24 24 0.30
25 13 0.16
26 35 0.44
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:40044155 original size:20 final size:20
Alignment explanation
Indices: 40044089--40044145 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
40044079 TTATGAATAC
*
40044089 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
40044109 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40044129 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
40044146 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40045881 original size:215 final size:215
Alignment explanation
Indices: 40045510--40045939 Score: 806
Period size: 215 Copynumber: 2.0 Consensus size: 215
40045500 ATCTCTCCCT
40045510 TTATCCCTCCTTAATCCATGCATCTGACTGTTTCAAACTCTCTCCCACAGAGTTCCATCCAACTT
1 TTATCCCTCCTTAATCCATGCATCTGACTGTTTCAAACTCTCTCCCACAGAGTTCCATCCAACTT
* *
40045575 TAAACTCTAGCATGCACAACCATAAAAATAACATTACTTTTGCCATCCCAGGGAATCGAACCCAA
66 TAAACTCTAGCATGCACAACCATAAAAATAACATTACCTTTGCCACCCCAGGGAATCGAACCCAA
40045640 GTCTTCCCCCCAACACTTACACGCCACCTTTATAGCTCCCTAGTGGCGTCACTTAGCCACTTTAC
131 GTCTTCCCCCCAACACTTACACGCCACCTTTATAGCTCCCTAGTGGCGTCACTTAGCCACTTTAC
40045705 CAAAGGCTCATTTGTGTTAC
196 CAAAGGCTCATTTGTGTTAC
*
40045725 TTATCCCTCCTTAATCCATGCATCTGACTGTTTCAAACTCTCTCCCACAGAGTTCCATCCAGCTT
1 TTATCCCTCCTTAATCCATGCATCTGACTGTTTCAAACTCTCTCCCACAGAGTTCCATCCAACTT
* *
40045790 TAAACTCTAGCATGCACAAGCATAAAAATAACATTACCTTTGCCACCCCAGGGAATCGAACCCAG
66 TAAACTCTAGCATGCACAACCATAAAAATAACATTACCTTTGCCACCCCAGGGAATCGAACCCAA
*
40045855 GTCTTTCCCCCAACACTTACACGCCACCTTTATAGCTCCCTAGTGGCGTCACTTAGCCACTTTAC
131 GTCTTCCCCCCAACACTTACACGCCACCTTTATAGCTCCCTAGTGGCGTCACTTAGCCACTTTAC
40045920 CAAAGGCTCATTTGTGTTAC
196 CAAAGGCTCATTTGTGTTAC
40045940 ATTTTATGTG
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 209 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (215 bp):
TTATCCCTCCTTAATCCATGCATCTGACTGTTTCAAACTCTCTCCCACAGAGTTCCATCCAACTT
TAAACTCTAGCATGCACAACCATAAAAATAACATTACCTTTGCCACCCCAGGGAATCGAACCCAA
GTCTTCCCCCCAACACTTACACGCCACCTTTATAGCTCCCTAGTGGCGTCACTTAGCCACTTTAC
CAAAGGCTCATTTGTGTTAC
Found at i:40047814 original size:40 final size:40
Alignment explanation
Indices: 40047617--40047823 Score: 271
Period size: 40 Copynumber: 5.2 Consensus size: 40
40047607 TGGATGATAA
*
40047617 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTATA-T
* *
40047657 TCGGGCTAAG-CCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
40047696 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
40047736 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
40047776 CCGAGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
40047816 CC-GGCTAA
1 CCGGGCTAA
40047824 ATTTCGAAGG
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.26
40 112 0.74
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:40055772 original size:40 final size:39
Alignment explanation
Indices: 40055667--40055883 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 39
40055657 TGGATGATAA
*
40055667 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
40055707 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
40055746 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACTATAT
* * *
40055786 CCCGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
40055826 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* * *
40055866 -CTGGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40055884 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 52 0.33
40 106 0.67
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:40057771 original size:25 final size:25
Alignment explanation
Indices: 40057743--40057811 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
40057733 CTCTTTTAAT
*
40057743 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
40057768 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
40057793 AACTGGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
40057812 CAGCACTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:40058046 original size:27 final size:27
Alignment explanation
Indices: 40058016--40058230 Score: 274
Period size: 27 Copynumber: 8.0 Consensus size: 27
40058006 GGGCAAAATG
* *
40058016 GTAATTTTACCCCACAAGGGTATCTT-A
1 GTAATTCTACCCTACAAGGGTAT-TTCA
*
40058043 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
40058070 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
40058097 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
40058124 GTAATTCTACCCTAC-AGGGTTATTTCA
1 GTAATTCTACCCTACAAGGG-TATTTCA
** * *
40058151 GTAATTCTACCCTACTGGGGTTTTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
40058178 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
40058204 GATAATTCTATCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAAGGGTATTTC
40058231 GATATTTTAC
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.04
27 159 0.94
28 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:40058280 original size:27 final size:27
Alignment explanation
Indices: 40058192--40058291 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
40058182 TTCTACCCTA
**
40058192 CAGGGGTATTTCGATAA-TTC-TATCCT
1 CAGGGGTATTTCGATAATTTCATA-AAT
* *
40058218 ACAGGGGTATTTCGAT-ATTTTACAAAT
1 -CAGGGGTATTTCGATAATTTCATAAAT
*
40058245 C-GAGAGTATTTCGATAATTTCATAAAT
1 CAG-GGGTATTTCGATAATTTCATAAAT
* *
40058272 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
40058292 TACAAGCTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.02
26 13 0.22
27 42 0.72
28 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCATAAAT
Found at i:40058303 original size:27 final size:27
Alignment explanation
Indices: 40058273--40058454 Score: 231
Period size: 27 Copynumber: 6.7 Consensus size: 27
40058263 TTCATAAATC
*
40058273 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACT
40058300 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
40058327 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
40058354 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* **
40058381 AGAGGTATTTTGGTAATTTTACTGA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
40058407 CGAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* **
40058435 AAGGGTATTTCAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
40058455 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 133 0.99
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:40058358 original size:81 final size:81
Alignment explanation
Indices: 40058234--40058454 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 81
40058224 GTATTTCGAT
* * * * * * * * *
40058234 ATTTTACAAATCGAGAGTATTTCGATAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAGC
1 ATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAAC
* *
40058299 TAGGGGTATTTTGGTA
66 CAGAGGTATTTTGGTA
*
40058315 ATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA
1 ATTTTACAAA-TAGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA
40058379 CCAGAGGTATTTTGGTA
65 CCAGAGGTATTTTGGTA
** * ** * *
40058396 ATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTT
1 ATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
40058455 GTAAATCGAG
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.02
81 114 0.97
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
ATTTTACAAATAGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAAC
CAGAGGTATTTTGGTA
Found at i:40058455 original size:27 final size:27
Alignment explanation
Indices: 40058409--40058486 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
40058399 TTACTGATCG
**
40058409 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
* *
40058436 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAACCA
*** *
40058463 AGGGTAAAACAGTAATTCTGTAAA
1 AGGGTATTTCAGTAATTTTGTAAA
40058487 TTGAGGGTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:40058463 original size:54 final size:54
Alignment explanation
Indices: 40058234--40058468 Score: 208
Period size: 54 Copynumber: 4.4 Consensus size: 54
40058224 GTATTTCGAT
* * * * * * * *
40058234 ATTTTACAAATCGAGAGTATTTCGATAATTTCATAAATCAGGGGTATTTTGGTA
1 ATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTA
* * * * *
40058288 ATTTTA-CAAGCTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTA
* * *
40058342 ATTTTACAAA-CTAGGGGTATTTTAGTAATTTTACAAACC-AGAGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGTA
* ** **
40058396 ATTTTACT-GATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTA
1 ATTTTA-TAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTA
*
40058450 ATTTTGTAAATCGAGGGTA
1 ATTTTATAAATCGAGGGTA
40058469 AAACAGTAAT
Statistics
Matches: 150, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
53 6 0.04
54 138 0.92
55 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
ATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTA
Found at i:40058722 original size:27 final size:27
Alignment explanation
Indices: 40058447--40058711 Score: 386
Period size: 27 Copynumber: 9.8 Consensus size: 27
40058437 GGGTATTTCA
* **
40058447 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
40058474 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
40058501 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
40058528 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
40058555 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
40058582 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
40058609 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
40058636 GTAATTCTGTAAACCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
40058663 GTAATTCTATAAATTGAGGGTAAAAAA
1 GTAATTCTGTAAATCGAGGGTAAAATG
40058690 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
40058712 CTTTGGTAAT
Statistics
Matches: 214, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 214 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:40058916 original size:27 final size:27
Alignment explanation
Indices: 40058885--40058968 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
40058875 CACCTAGCCT
40058885 AGTCCAATATTTACTACACAATCAAAC
1 AGTCCAATATTTACTACACAATCAAAC
* * **
40058912 AGTCCAATATTTACTACTTC-ACCTAGCC
1 AGTCCAATATTTACTAC-ACAATC-AAAC
40058940 TAGTCCAATATTTACTACACAATCAAAC
1 -AGTCCAATATTTACTACACAATCAAAC
40058968 A
1 A
40058969 ACTTATCCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
27 20 0.44
28 6 0.13
29 19 0.42
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (27 bp):
AGTCCAATATTTACTACACAATCAAAC
Found at i:40058954 original size:29 final size:29
Alignment explanation
Indices: 40058873--40058957 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 29
40058863 AAATATGAGA
40058873 TTCACCTAGCCTAGTCCAATATTTACTAC
1 TTCACCTAGCCTAGTCCAATATTTACTAC
* * **
40058902 -ACA-ATCAAAC-AGTCCAATATTTACTAC
1 TTCACCT-AGCCTAGTCCAATATTTACTAC
40058929 TTCACCTAGCCTAGTCCAATATTTACTAC
1 TTCACCTAGCCTAGTCCAATATTTACTAC
40058958 ACAATCAAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
27 18 0.41
28 8 0.18
29 18 0.41
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (29 bp):
TTCACCTAGCCTAGTCCAATATTTACTAC
Found at i:40059300 original size:56 final size:56
Alignment explanation
Indices: 40059223--40059340 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
40059213 TATGTTAGCT
*
40059223 TCCCAATGTGGGATCCCTCCAACATCAGAGTTTAAATTCAACACCAACTCTTTCCG
1 TCCCAATGTGGGATCCCTCCAACATCAGAGTTTAAATTCAACACCAACTCTTGCCG
40059279 TCCCAATGTGGGATCCCTCCAACATCAGAGTTTAAATTCAACACCAACTCTTGCCG
1 TCCCAATGTGGGATCCCTCCAACATCAGAGTTTAAATTCAACACCAACTCTTGCCG
40059335 TCCCAA
1 TCCCAA
40059341 CATAGCAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (56 bp):
TCCCAATGTGGGATCCCTCCAACATCAGAGTTTAAATTCAACACCAACTCTTGCCG
Found at i:40061751 original size:30 final size:30
Alignment explanation
Indices: 40061695--40061752 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
40061685 TAGGCACTTC
*
40061695 CACACAGGTGACGCACACGCCCGTGTGTGA
1 CACACAGGTGACGCACACGCCAGTGTGTGA
* *
40061725 CACACGGGTAGAC-CACATGCCAGTGTGT
1 CACACAGGT-GACGCACACGCCAGTGTGT
40061753 CATGGCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16
Consensus pattern (30 bp):
CACACAGGTGACGCACACGCCAGTGTGTGA
Found at i:40062846 original size:27 final size:27
Alignment explanation
Indices: 40062808--40063123 Score: 246
Period size: 27 Copynumber: 11.7 Consensus size: 27
40062798 TTAGTTTACC
*
40062808 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
*
40062835 AAATTACTAAAATACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTC-AATTTGTA
* * *
40062862 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTA
* * *
40062889 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTA
* *
40062916 AAATTACTAAAATACCCTTAACTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *** **
40062943 AAATTACCAAAGTACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCAATTTGTA
* **
40062970 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-AATTTGTA
* * *
40062997 AAATTACCAAAATACTCAT-AATTTGTG
1 AAATTACTAAAATAC-CCTCAATTTGTA
* *
40063024 AAATTACTGAAATACCCTCAGTTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
40063051 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
40063078 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTAAAATACCCTCAATTTGT-A
* *
40063106 AAATTACCAAAGTACCCT
1 AAATTACTAAAATACCCT
40063124 GGATTTATAG
Statistics
Matches: 242, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 217 0.90
28 20 0.08
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAATTTGTA
Found at i:40062874 original size:54 final size:54
Alignment explanation
Indices: 40062808--40063122 Score: 278
Period size: 54 Copynumber: 5.8 Consensus size: 54
40062798 TTAGTTTACC
* *
40062808 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
40062862 AAATTACCAAAATACCC-CTAGTTTGTGAAATTACCAAAATACCTCT-GATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
* * * * * **
40062916 AAATTACTAAAATACCCTTAACTTGTAAAATTACCAAAGTACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* ** * * * *
40062970 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACTCATAATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * *** *
40063024 AAATTACTGAAATACCCTCAGTTTGTAAAATTATTGAAATA-CCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
* * * *
40063078 AAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTACCC
1 AAATTACTAAAATACCCTCAATTTGT-AAAATTACCAAAATACCC
40063123 TGGATTTATA
Statistics
Matches: 203, Mismatches: 49, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
53 4 0.02
54 184 0.91
55 13 0.06
56 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:40062942 original size:81 final size:80
Alignment explanation
Indices: 40062808--40063122 Score: 317
Period size: 81 Copynumber: 3.9 Consensus size: 80
40062798 TTAGTTTACC
* * * * **
40062808 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAA
*
40062873 ATACCCCTAGTTTGTG
65 ATACCCCTAGTTTGTA
*
40062889 AAATTACCAAAATACCTCTGATTTGTGAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAA
1 AAATTACCAAAATACC-CTGATTTGTAAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAA
* * * **
40062954 GTACCCTTGGTTTAAA
65 ATACCCCTAGTTTGTA
* * * * * * **
40062970 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCATAATTTGTGAAATTACTGAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAA
40063035 ATA-CCCTCAGTTTGTA
65 ATACCCCT-AGTTTGTA
*** * **
40063051 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCTTAACTTGT-AAAATTACCAA
*
40063116 AGTACCC
64 AATACCC
40063123 TGGATTTATA
Statistics
Matches: 186, Mismatches: 42, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
80 7 0.04
81 162 0.87
82 15 0.08
83 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAAA
TACCCCTAGTTTGTA
Found at i:40063191 original size:27 final size:27
Alignment explanation
Indices: 40063161--40063328 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
40063151 CGATTTACAA
*
40063161 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
40063188 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40063215 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
40063242 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40063269 AATTACTGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * ** *
40063296 AATTACCGAGATACCTTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
40063323 AATTAC
1 AATTAC
40063329 CATTTTGCCC
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:40063219 original size:54 final size:54
Alignment explanation
Indices: 40063161--40063328 Score: 264
Period size: 54 Copynumber: 3.1 Consensus size: 54
40063151 CGATTTACAA
* **
40063161 AATTATTGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
*
40063215 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
40063269 AATTACTGAAATATCCCTGTAGGGTAGAATTACCGAGATACCTTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
40063323 AATTAC
1 AATTAC
40063329 CATTTTGCCC
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:40063567 original size:25 final size:25
Alignment explanation
Indices: 40063534--40063628 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
40063524 AGGAAGTGCT
*
40063534 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40063559 AAAAGGGCTTTGCCCCAGTTTACCT
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40063584 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
40063609 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
40063629 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:40063641 original size:24 final size:25
Alignment explanation
Indices: 40063533--40063641 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
40063523 GAGGAAGTGC
* *
40063533 TAAAAG-GGCTTTGCCCTAGTTTAC
1 TAAAAGAGGCTTTGCCCCAGTTTAT
* *
40063557 CAAAA-AGGGCTTTGCCCCAGTTTACC
1 TAAAAGA-GGCTTTGCCCCAGTTTA-T
40063583 TAAAAG-GGCTTTGCCCCAGTTTAT
1 TAAAAGAGGCTTTGCCCCAGTTTAT
*
40063607 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 TAAAAGA-GGCTTTGCCCCAGTTTAT
40063631 TAAAAGAGGCT
1 TAAAAGAGGCT
40063642 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
24 20 0.28
25 47 0.65
26 5 0.07
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (25 bp):
TAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:40063652 original size:50 final size:50
Alignment explanation
Indices: 40063532--40063653 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 50
40063522 GGAGGAAGTG
** *
40063532 CTAAAAGGGCTTTGCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
** *
40063582 CTAAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
*
40063630 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTAGGCC-CCAGTT
40063654 ATATGATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 6 0.09
49 10 0.15
50 49 0.75
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (50 bp):
CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:40066389 original size:18 final size:20
Alignment explanation
Indices: 40066366--40066409 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
40066356 TGTGGCTAGG
40066366 CCGTGT-GATCA-CACACGC
1 CCGTGTGGATCAGCACACGC
* *
40066384 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGATCAGCACACGC
40066404 CCGTGT
1 CCGTGT
40066410 CTTCCACCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.36, G:0.30, T:0.18
Consensus pattern (20 bp):
CCGTGTGGATCAGCACACGC
Done.