Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 218 of 318
Found at i:69117797 original size:47 final size:47
Alignment explanation
Indices: 69117678--69117857 Score: 272
Period size: 47 Copynumber: 3.8 Consensus size: 47
69117668 ATAAGGCCGA
*
69117678 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGATA-AGGCC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA-ACATG-C
*
69117726 GAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 --ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
69117775 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* **
69117822 ATATATGTGATAAGGTAGAATGGCCAATGTGATGAA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
69117858 CGTGGAAGTG
Statistics
Matches: 123, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
47 79 0.64
49 1 0.01
50 43 0.35
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:69117941 original size:46 final size:46
Alignment explanation
Indices: 69117881--69118007 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 46
69117871 ATATGTGGCG
* *
69117881 AAGCCGAATTGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * * *
69117927 AAGCCGAGTGGCTAATGCAAAACGTGTATGATATGGATACGTGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
69117973 AAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
69118008 TGTATATATA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
Found at i:69120668 original size:27 final size:27
Alignment explanation
Indices: 69120632--69120688 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
69120622 GTAATTAAGA
69120632 CCCCAGTTTGTAAAACTACCAAAATAC
1 CCCCAGTTTGTAAAACTACCAAAATAC
* * * *
69120659 CCCCGGTTTGTAAAATTACCCAATTAC
1 CCCCAGTTTGTAAAACTACCAAAATAC
69120686 CCC
1 CCC
69120689 TGTAAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (27 bp):
CCCCAGTTTGTAAAACTACCAAAATAC
Found at i:69122425 original size:28 final size:28
Alignment explanation
Indices: 69122362--69122512 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
69122352 ATATTAAGTC
*
69122362 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
69122389 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
69122417 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
69122445 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
69122473 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
69122502 CGCACACTTAG
1 CGCACACTTAG
69122513 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:69130575 original size:28 final size:28
Alignment explanation
Indices: 69130512--69130662 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
69130502 ATATTAAGTC
*
69130512 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
69130539 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
69130567 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
69130595 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
69130623 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
69130652 CGCACACTTAG
1 CGCACACTTAG
69130663 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:69134614 original size:40 final size:40
Alignment explanation
Indices: 69134382--69134607 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
69134372 TCGAATGATG
* * *
69134382 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
69134422 TCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
69134462 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
69134502 TCCGGACTAAGATCCGAAGGCAGTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
69134542 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69134583 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
69134608 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69141851 original size:26 final size:26
Alignment explanation
Indices: 69141795--69141851 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
69141785 AGAGCCCCTT
*
69141795 TCTCACTTTTTCAATCATCCCTCATC
1 TCTCACTTATTCAATCATCCCTCATC
* * *
69141821 CCTCACTTATTC-ATCATTCTCTCCTC
1 TCTCACTTATTCAATCA-TCCCTCATC
69141847 TCTCA
1 TCTCA
69141852 ATTCTCTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (26 bp):
TCTCACTTATTCAATCATCCCTCATC
Found at i:69143389 original size:25 final size:25
Alignment explanation
Indices: 69143334--69143391 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
69143324 ATGCTCATGT
* * * **
69143334 GAGCCATATAACGGGAAGCTTATCC
1 GAGCTATATAACAGGAAGCTCATAA
*
69143359 GGGCTATATAACAGGAAGCTCATAA
1 GAGCTATATAACAGGAAGCTCATAA
69143384 GAGCTATA
1 GAGCTATA
69143392 ATTGGGAAGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCTATATAACAGGAAGCTCATAA
Found at i:69146857 original size:15 final size:15
Alignment explanation
Indices: 69146837--69146866 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69146827 GCTATTTTTG
69146837 GTATATCTAATTCTT
1 GTATATCTAATTCTT
69146852 GTATATCTAATTCTT
1 GTATATCTAATTCTT
69146867 TCACCCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
GTATATCTAATTCTT
Found at i:69149988 original size:18 final size:18
Alignment explanation
Indices: 69149967--69150001 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69149957 TGTGGCCTGG
*
69149967 AACATGCCCGTGGGGCTC
1 AACATGCCCGTAGGGCTC
*
69149985 AACATGGCCGTAGGGCT
1 AACATGCCCGTAGGGCT
69150002 AGGCCATGGG
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:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (18 bp):
AACATGCCCGTAGGGCTC
Found at i:69151831 original size:12 final size:12
Alignment explanation
Indices: 69151806--69151838 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
69151796 AAACCCTAAA
*
69151806 TTTTTCTTT-TC
1 TTTTTCTTTCCC
69151817 TTTTTCTTTCCC
1 TTTTTCTTTCCC
69151829 TTTTTCTTTC
1 TTTTTCTTTC
69151839 TTTGTTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:69158136 original size:30 final size:30
Alignment explanation
Indices: 69158101--69158158 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
69158091 AGACTATTCC
* *
69158101 CACACGTGCTGAG-CACACGCCCATGTGGAT
1 CACACGGGCTG-GCCACACACCCATGTGGAT
69158131 CACACGGGCTGGCCACACACCCATGTGG
1 CACACGGGCTGGCCACACACCCATGTGG
69158159 CAGCTGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACACCCATGTGGAT
Found at i:69168096 original size:40 final size:40
Alignment explanation
Indices: 69168059--69168284 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
69168049 GCTACTCGTT
* *
69168059 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
69168099 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
69168139 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
69168179 CCAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
69168219 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
69168260 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
69168285 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:69169486 original size:56 final size:56
Alignment explanation
Indices: 69169419--69169535 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
69169409 TAGTTTATTG
69169419 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
* *
69169475 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
69169531 CCCAT
1 CCCAT
69169536 CATCCCTTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
Found at i:69176053 original size:40 final size:40
Alignment explanation
Indices: 69176016--69176241 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
69176006 GCTACTCGTT
* *
69176016 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
69176056 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
69176096 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
69176136 CCAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
69176176 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
69176217 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
69176242 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 149 0.90
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:69176225 original size:120 final size:120
Alignment explanation
Indices: 69176018--69176241 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 120
69176008 TACTCGTTCA
69176018 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
*
69176083 TTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * ** *
69176138 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 AATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* * * *
69176200 GATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGA
69176242 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
119 6 0.07
120 75 0.84
121 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:69177438 original size:56 final size:56
Alignment explanation
Indices: 69177371--69177490 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
69177361 TATTAGTTTA
69177371 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
69177427 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
69177483 TTGCCCAT
1 TTGCCCAT
69177491 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:69177701 original size:42 final size:42
Alignment explanation
Indices: 69177642--69177725 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
69177632 AAATTCACAT
69177642 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
69177684 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
69177726 TTCACATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (42 bp):
GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
Found at i:69188433 original size:50 final size:50
Alignment explanation
Indices: 69188133--69188493 Score: 272
Period size: 50 Copynumber: 7.5 Consensus size: 50
69188123 CATGTGTGCT
* *
69188133 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCC-AGAT-TATGAGA-TCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGT-C
* * * * * * * *
69188179 AGTATAAGATCATGTATGGGACATGGCATCGGCATTG--AGACGAGA-AC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * * *
69188226 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * * *
69188277 AGTCTAAAACCATGTCTGGGACATGGCATCGG-CTTGATAT-T---TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * *
69188322 AGTGTAAGACCATGCCTAGGG-CATGGCATCGGCAC-CGAT-GATGAGAGCC
1 AGTGTAAGACCATGTCT-GGGACATGGCATCGGC-CTCGATATATGAGAGTC
*
69188371 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * ** * * * * *
69188421 AGTGTAAGACCATGTCCGGGATATGGCATCAACTTTGATGTGTGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
*
69188469 AGTGTAAGACCATGTCCGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
69188494 ACGTTGGCAT
Statistics
Matches: 249, Mismatches: 48, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
45 27 0.11
46 15 0.06
47 15 0.06
48 71 0.29
49 42 0.17
50 79 0.32
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
Found at i:69195262 original size:36 final size:36
Alignment explanation
Indices: 69195222--69195293 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
69195212 TGTGCAGCAG
*
69195222 TATATCGTACTCATAACCAGTCATGCAAATGTCATT
1 TATATCATACTCATAACCAGTCATGCAAATGTCATT
69195258 TATATCATACTCATAACCAGTCATGCAAATGTCATT
1 TATATCATACTCATAACCAGTCATGCAAATGTCATT
69195294 CATCCACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (36 bp):
TATATCATACTCATAACCAGTCATGCAAATGTCATT
Found at i:69205798 original size:44 final size:44
Alignment explanation
Indices: 69205742--69205828 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
69205732 TTTGATATAG
*
69205742 AGAATGAACATGAAATTGGTTGAGGATATTATGGATTGATTGAA
1 AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGAA
* *
69205786 AGAATGAGCATGAAATTGGTTGATGATATTAGGGATTGATTGA
1 AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGA
69205829 TACATGTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (44 bp):
AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGAA
Found at i:69216366 original size:20 final size:20
Alignment explanation
Indices: 69216337--69216381 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
69216327 AGCACATGTA
* *
69216337 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
69216357 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
69216377 TTCAT
1 TTCAT
69216382 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:69219786 original size:48 final size:47
Alignment explanation
Indices: 69219725--69219832 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 47
69219715 CCATGTCTCG
* * * *
69219725 GACATGGTTTTACACTAGCTCACATGTCGAGGACGATGCCATGCCCTA
1 GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCC-A
* * * *
69219773 GACATGGTCTTACACTAGCTCTCATCTCCATGTCAATGCCATGTCCA
1 GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCCA
69219820 -ACATGGTCTTACA
1 GACATGGTCTTACA
69219833 TTGGCTCTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 13 0.25
47 1 0.02
48 38 0.73
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCCA
Found at i:69219872 original size:45 final size:45
Alignment explanation
Indices: 69219758--69220063 Score: 355
Period size: 45 Copynumber: 6.7 Consensus size: 45
69219748 ATGTCGAGGA
* * * * * *
69219758 CGATGCCATGCCCTAGACATGGTCTTACACTAGCTCTCATCTCCATGT
1 CGATGCCATGTCC-A-ACATGGTCTTACACTGGCTCTCA-ATCAACGC
* *
69219806 CAATGCCATGTCCAACATGGTCTTACATTGGCTCTCAATCAACGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
* * * *
69219851 TGATGCCACGTCCAACATGGTCTTACACTAGCTCTCAATCAATGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
*
69219896 CGATGCCATGTCCAACATGTTCTTACACTGGCTCTCAATCAACGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
* *
69219941 CGATGTCATGTCCAACATAGTCTTACACTGGCTCTCAATCAACGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
* * * *
69219986 CGATGTCATGTCCAACATGGTCTTACACTGGCTCT-TAT-AATTGT
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAA-CGC
* *
69220030 CAATGCCATGTTCCAAACATAGTCTTACACTGGC
1 CGATGCCATG-TCC-AACATGGTCTTACACTGGC
69220064 ACACGAAATG
Statistics
Matches: 226, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 162 0.72
46 39 0.17
47 1 0.00
48 11 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
Found at i:69230243 original size:21 final size:21
Alignment explanation
Indices: 69230217--69230265 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
69230207 CAGTTGAAGC
69230217 CGCACAAAAAAAATTATCCAA
1 CGCACAAAAAAAATTATCCAA
** *
69230238 CGCACAATCAGAATTATCCAA
1 CGCACAAAAAAAATTATCCAA
69230259 CGCACAA
1 CGCACAA
69230266 TTTAGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.49, C:0.29, G:0.08, T:0.14
Consensus pattern (21 bp):
CGCACAAAAAAAATTATCCAA
Found at i:69240606 original size:22 final size:22
Alignment explanation
Indices: 69240581--69240625 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
69240571 ATGAGAATAA
69240581 AGAGAG-GATTGAGAATGAATTG
1 AGAGAGAG-TTGAGAATGAATTG
* *
69240603 AGAGATAGTTGAGAGTGAATTG
1 AGAGAGAGTTGAGAATGAATTG
69240625 A
1 A
69240626 AAAAGTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (22 bp):
AGAGAGAGTTGAGAATGAATTG
Found at i:69241197 original size:7 final size:7
Alignment explanation
Indices: 69241176--69241236 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
69241166 TATTTTACCA
*
69241176 TGAATCT
1 TGAACCT
*
69241183 TGAGCCT
1 TGAACCT
69241190 TGAACCT
1 TGAACCT
*
69241197 TGGA-CT
1 TGAACCT
*
69241203 CGAACCT
1 TGAACCT
*
69241210 TGAAACT
1 TGAACCT
*
69241217 TAAACCT
1 TGAACCT
69241224 TGAACCT
1 TGAACCT
69241231 TGAACC
1 TGAACC
69241237 CTAAACCCCA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 4 0.10
7 38 0.90
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:69241230 original size:21 final size:21
Alignment explanation
Indices: 69241204--69241243 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69241194 CCTTGGACTC
*
69241204 GAACCTTGAAACTTAAACCTT
1 GAACCTTGAAACCTAAACCTT
*
69241225 GAACCTTGAACCCTAAACC
1 GAACCTTGAAACCTAAACC
69241244 CCAAGGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (21 bp):
GAACCTTGAAACCTAAACCTT
Found at i:69241280 original size:7 final size:7
Alignment explanation
Indices: 69241270--69241337 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
69241260 GGATTTGAGA
69241270 TTTAAGG
1 TTTAAGG
69241277 TTT-AGG
1 TTTAAGG
*
69241283 TTTAATG
1 TTTAAGG
*
69241290 TTAAAGG
1 TTTAAGG
*
69241297 TTTGAGG
1 TTTAAGG
*
69241304 -TTACGAG
1 TTTAAG-G
*
69241311 TTTACGG
1 TTTAAGG
*
69241318 TTTAGGG
1 TTTAAGG
69241325 TTTAAGG
1 TTTAAGG
69241332 ATTTAA
1 -TTTAA
69241338 TATTACAGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
6 9 0.19
7 29 0.60
8 10 0.21
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (7 bp):
TTTAAGG
Found at i:69244847 original size:23 final size:21
Alignment explanation
Indices: 69244809--69244850 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
69244799 TATAAATTTT
69244809 ATAAATTTTAATTAATTTCTA
1 ATAAATTTTAATTAATTTCTA
69244830 ATAATATTTATAATTAATTTC
1 ATAA-ATTT-TAATTAATTTC
69244851 ATGACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAATTTTAATTAATTTCTA
Found at i:69245553 original size:15 final size:15
Alignment explanation
Indices: 69245523--69245552 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
69245513 GTTAAAAATT
69245523 ATTAAAATTATAAAA
1 ATTAAAATTATAAAA
69245538 ATTAAAA-TATAAAA
1 ATTAAAATTATAAAA
69245552 A
1 A
69245553 AATTTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAATTATAAAA
Found at i:69245555 original size:16 final size:15
Alignment explanation
Indices: 69245523--69245556 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
69245513 GTTAAAAATT
*
69245523 ATTAAAATTATAAAA
1 ATTAAAATTAAAAAA
69245538 ATTAAAATATAAAAAA
1 ATTAAAAT-TAAAAAA
69245554 ATT
1 ATT
69245557 TACTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATTAAAAAA
Found at i:69254593 original size:12 final size:12
Alignment explanation
Indices: 69254576--69254633 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
69254566 TTATTTAACT
69254576 TACAAATCAGCC
1 TACAAATCAGCC
*
69254588 TACAAATC--CT
1 TACAAATCAGCC
69254598 TACAAATCAGCC
1 TACAAATCAGCC
69254610 TACAAATC--CC
1 TACAAATCAGCC
69254620 TACAAATCAGCC
1 TACAAATCAGCC
69254632 TA
1 TA
69254634 TATACAGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 19 0.47
12 21 0.52
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.21
Consensus pattern (12 bp):
TACAAATCAGCC
Found at i:69254599 original size:22 final size:22
Alignment explanation
Indices: 69254574--69254633 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
69254564 TATTATTTAA
69254574 CTTACAAATCAGCCTACAAATC
1 CTTACAAATCAGCCTACAAATC
69254596 CTTACAAATCAGCCTACAAATC
1 CTTACAAATCAGCCTACAAATC
*
69254618 CCTACAAATCAGCCTA
1 CTTACAAATCAGCCTA
69254634 TATACAGTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.22
Consensus pattern (22 bp):
CTTACAAATCAGCCTACAAATC
Found at i:69256218 original size:29 final size:29
Alignment explanation
Indices: 69256176--69256234 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
69256166 TACTTATGTA
69256176 TGAAACATACCTGTATCTGACACTCAAAC
1 TGAAACATACCTGTATCTGACACTCAAAC
* *
69256205 TGAAAGATACCTGTATCTGACTCTCAAAC
1 TGAAACATACCTGTATCTGACACTCAAAC
69256234 T
1 T
69256235 CGTGTAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (29 bp):
TGAAACATACCTGTATCTGACACTCAAAC
Found at i:69259897 original size:124 final size:124
Alignment explanation
Indices: 69259677--69259916 Score: 453
Period size: 124 Copynumber: 1.9 Consensus size: 124
69259667 GGGGACATCG
*
69259677 ATGACCTTAATTAATTAGCTTTGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
1 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
*
69259742 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAATAGAAAAAAAAAAAAGTTA
66 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAAAAAAGTTA
69259801 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
1 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
*
69259866 TTTGTCTGTGCAGGAAATTGCGTTCTCTTTAATAAACAAAAAGAAAAAAAA
66 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAA
69259917 GTTAATTGTT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 113 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (124 bp):
ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAAAAAAGTTA
Found at i:69270961 original size:32 final size:32
Alignment explanation
Indices: 69270920--69270982 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
69270910 ATATTCGTCC
69270920 ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
1 ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
* * * *
69270952 ATAAAAGTCACTTTGTCTCGGATCATTTGGT
1 ATAAAAGTCACCTAGGCTCAGATCATTTGGT
69270983 TGGACTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (32 bp):
ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
Found at i:69276328 original size:48 final size:48
Alignment explanation
Indices: 69276263--69276424 Score: 211
Period size: 48 Copynumber: 3.4 Consensus size: 48
69276253 GCTGACGCCG
69276263 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
* * ** *
69276311 TGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
* ** * *
69276357 TGTCCCAAACAGGTCTTACACGGGCTTGTATATCTCGAGGTTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
*
69276405 TGTCCCAGACATGTCTTACA
1 TGTCCCAGACAGGTCTTACA
69276425 TTGGCTCTCA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 36 0.38
47 4 0.04
48 55 0.58
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
Found at i:69276376 original size:94 final size:94
Alignment explanation
Indices: 69276263--69276433 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 94
69276253 GCTGACGCCG
* *
69276263 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
1 TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
69276328 ACACTAGCTCTCGTCTCAATGCTGATGCA
66 ACACTAGCTCTCGTCTCAATGCTGATGCA
* * *
69276357 TGTCCCAAACAGGTCTTACACGGGCTTGTATATCTCGAGGTTGATGCATGTCCCAGACATGTCTT
1 TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
* *
69276422 ACATTGGCTCTC
66 ACACTAGCTCTC
69276434 ATAATGTGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (94 bp):
TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCGTCTCAATGCTGATGCA
Found at i:69277160 original size:20 final size:20
Alignment explanation
Indices: 69277135--69277173 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
69277125 AAAATTTCAA
69277135 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
69277155 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
69277174 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:69281282 original size:28 final size:28
Alignment explanation
Indices: 69281242--69281451 Score: 368
Period size: 28 Copynumber: 7.5 Consensus size: 28
69281232 TAAATTGTAC
69281242 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
69281270 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
69281298 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69281326 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69281354 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69281382 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69281410 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69281437 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69281452 GACTTAATAT
Statistics
Matches: 178, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.13
28 154 0.87
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:69281359 original size:84 final size:83
Alignment explanation
Indices: 69281217--69281451 Score: 371
Period size: 84 Copynumber: 2.8 Consensus size: 83
69281207 GAGATTGGCG
* * * *
69281217 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGT
*
69281282 GCGAGTTTGATTATGTAGCA
64 GCGAGCTTGATTATGTAGCA
*
69281302 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTG
69281367 CGAGCTTGATTATGTAGCA
65 CGAGCTTGATTATGTAGCA
* *
69281386 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGC
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGC
69281451 G
66 G
69281452 GACTTAATAT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 23 0.16
84 102 0.73
85 15 0.11
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (83 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGC
GAGCTTGATTATGTAGCA
Found at i:69300839 original size:34 final size:33
Alignment explanation
Indices: 69300801--69300874 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
69300791 TCAGTTGCAA
*
69300801 TATCAGTGTGGGCCTTAACCCAATACAATAACAG
1 TATCAGTGTGAGCCTTAACCCAATACAAT-ACAG
* * * *
69300835 TATCAGTGTGAGCCTTAGCCCATTTCAGTACAG
1 TATCAGTGTGAGCCTTAACCCAATACAATACAG
69300868 TATCAGT
1 TATCAGT
69300875 AATGCATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 11 0.31
34 24 0.69
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (33 bp):
TATCAGTGTGAGCCTTAACCCAATACAATACAG
Found at i:69312700 original size:37 final size:37
Alignment explanation
Indices: 69312639--69312784 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
69312629 TACGTATGAT
* *
69312639 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
69312674 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
69312711 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
69312748 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
69312785 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:69312801 original size:46 final size:46
Alignment explanation
Indices: 69312748--69313016 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
69312738 TAAGTGTAGC
* **
69312748 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
69312794 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
69312840 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGTTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
69312892 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
69312938 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
69312990 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
69313017 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 82 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:69312867 original size:52 final size:52
Alignment explanation
Indices: 69312791--69313010 Score: 290
Period size: 52 Copynumber: 4.3 Consensus size: 52
69312781 TAGCTAAAGC
* *
69312791 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
69312844 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGTTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
69312896 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
69312942 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
69312994 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
69313011 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 85 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:69312913 original size:98 final size:98
Alignment explanation
Indices: 69312748--69313016 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
69312738 TAAGTGTAGC
* * *
69312748 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
69312813 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
** *
69312847 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGTTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
69312912 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
69312945 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
69313010 GATCAGA
66 GATCAGA
69313017 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 149 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:69319655 original size:53 final size:54
Alignment explanation
Indices: 69319587--69319789 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
69319577 TTCCTTTTTA
69319587 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
69319640 AACTCACCATTGCCATGACTTGGCATGGTCTTACATGGGATCTTTGTCTTATCG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
69319694 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
69319749 AACTTACCAATT-CCATGCCTTGGCATGGTCTTCCTTGGTAT
1 AACTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAT
69319790 TTTTAAACCC
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 46 0.40
54 29 0.25
55 41 0.35
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:69328624 original size:16 final size:16
Alignment explanation
Indices: 69328605--69328638 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
69328595 TGGAAAAGAC
69328605 TAATTTTGAGGGTTTT
1 TAATTTTGAGGGTTTT
69328621 TAATTTTGAGGGTTTT
1 TAATTTTGAGGGTTTT
69328637 TA
1 TA
69328639 GGCATTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (16 bp):
TAATTTTGAGGGTTTT
Found at i:69329736 original size:12 final size:12
Alignment explanation
Indices: 69329719--69329770 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
69329709 TTTAATATTA
69329719 TTATTTATTAAT
1 TTATTTATTAAT
* *
69329731 TTATTTTTTCATT
1 TTATTTATT-AAT
*
69329744 TTATTT-TTATT
1 TTATTTATTAAT
69329755 ATTATTTATTAAT
1 -TTATTTATTAAT
69329768 TTA
1 TTA
69329771 CTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.09
12 19 0.56
13 12 0.35
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:69329764 original size:37 final size:38
Alignment explanation
Indices: 69329702--69329777 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
69329692 TTGCAAATTA
*
69329702 ATTTTATTTTAATATTATTATTTATTAATTTATTTTTTC
1 ATTTTATTTT-ATATTATTATTTATTAATTTACTTTTTC
69329741 ATTTTATTTT-TATTATTATTTATTAATTTACTTTTTC
1 ATTTTATTTTATATTATTATTTATTAATTTACTTTTTC
69329778 TTTCTCTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 26 0.72
39 10 0.28
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (38 bp):
ATTTTATTTTATATTATTATTTATTAATTTACTTTTTC
Found at i:69333220 original size:11 final size:11
Alignment explanation
Indices: 69333206--69333306 Score: 202
Period size: 11 Copynumber: 9.2 Consensus size: 11
69333196 GTTTTTATAG
69333206 AAGATTTATTA
1 AAGATTTATTA
69333217 AAGATTTATTA
1 AAGATTTATTA
69333228 AAGATTTATTA
1 AAGATTTATTA
69333239 AAGATTTATTA
1 AAGATTTATTA
69333250 AAGATTTATTA
1 AAGATTTATTA
69333261 AAGATTTATTA
1 AAGATTTATTA
69333272 AAGATTTATTA
1 AAGATTTATTA
69333283 AAGATTTATTA
1 AAGATTTATTA
69333294 AAGATTTATTA
1 AAGATTTATTA
69333305 AA
1 AA
69333307 TAGCTAAGCC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 90 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (11 bp):
AAGATTTATTA
Found at i:69338744 original size:25 final size:25
Alignment explanation
Indices: 69338710--69338759 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
69338700 CCGTATAACA
* * *
69338710 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
69338735 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
69338760 GGTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:69338843 original size:11 final size:11
Alignment explanation
Indices: 69338807--69338862 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
69338797 CATGGTATGT
69338807 ATGATATGCAC
1 ATGATATGCAC
* *
69338818 ATGACATG--T
1 ATGATATGCAC
69338827 ATGATATGCAC
1 ATGATATGCAC
*
69338838 ATGATATG--T
1 ATGATATGCAC
69338847 ATGATATGCAC
1 ATGATATGCAC
69338858 ATGAT
1 ATGAT
69338863 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:69338862 original size:20 final size:20
Alignment explanation
Indices: 69338796--69338862 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
69338786 ATTTTAATAA
*
69338796 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69338816 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
69338836 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
69338856 ACATGAT
1 ACATGAT
69338863 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69338973 original size:24 final size:24
Alignment explanation
Indices: 69338912--69338992 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
69338902 GAGGAAGTGA
69338912 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
69338936 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
69338959 AAAAGGGATTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
69338983 CAAAGAGGCT
1 AAAAG-GGCT
69338993 AGGCTTCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
23 22 0.45
24 24 0.49
25 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:69339231 original size:7 final size:7
Alignment explanation
Indices: 69339219--69339246 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
69339209 GGCCCAGTGT
69339219 TATGAAA
1 TATGAAA
69339226 TATGAAA
1 TATGAAA
69339233 TATGAAA
1 TATGAAA
69339240 TATGAAA
1 TATGAAA
69339247 AGGGCTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:69358065 original size:28 final size:28
Alignment explanation
Indices: 69358025--69358180 Score: 269
Period size: 28 Copynumber: 5.6 Consensus size: 28
69358015 ATTCGATATT
69358025 TCGCACACTAAGTGCCATAC-CAAATGTC
1 TCGCACACTAAGTGCCATACTC-AATGTC
*
69358053 TCGCACACTAAGTGCCATATTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
69358081 TCGCACACTAAGTGTCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
69358109 TCACACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
69358137 TCGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
69358165 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
69358181 GTATATAGCT
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
28 120 0.99
29 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:69371614 original size:41 final size:41
Alignment explanation
Indices: 69371569--69371666 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
69371559 CGGATACTTA
69371569 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
1 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
*
69371610 ACAGCCTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
1 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
69371651 ACAGCTTGTGTGAGCA
1 ACAGCTTGTGTGAGCA
69371667 AGCCCGTCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (41 bp):
ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
Found at i:69372481 original size:15 final size:17
Alignment explanation
Indices: 69372451--69372482 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
69372441 TTGACACTTG
69372451 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
69372468 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
69372483 AAACATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:69383944 original size:40 final size:40
Alignment explanation
Indices: 69383861--69384035 Score: 226
Period size: 40 Copynumber: 4.3 Consensus size: 40
69383851 CGACTTCTCG
* * * *
69383861 CACACTAAGGGCCAATACATAGCTGAACCTAT-TTTAATCTCA
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGAA--TCA
* * *
69383903 CACACTAAGTGTCATATATAGCCGAAGCTATCTCGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
*
69383943 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
**
69383983 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATTG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
69384023 CACACTAAGTGCC
1 CACACTAAGTGCC
69384036 TTACTTAACT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 91 0.76
41 15 0.12
42 14 0.12
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
Found at i:69387315 original size:41 final size:41
Alignment explanation
Indices: 69387270--69387348 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
69387260 GGCTATATAT
* *
69387270 GGCACTTAGCGTGTGAGATTGA-GATAGCTTCAGCTATGAAA
1 GGCACTTAGCGTGCGAGATT-ATAATAGCTTCAGCTATGAAA
* *
69387311 GGCACTTAGTGTGCGAGATTATAATAGTTTCAGCTATG
1 GGCACTTAGCGTGCGAGATTATAATAGCTTCAGCTATG
69387349 TTTTGGCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCACTTAGCGTGCGAGATTATAATAGCTTCAGCTATGAAA
Found at i:69391663 original size:16 final size:16
Alignment explanation
Indices: 69391638--69391668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69391628 TAAGTAAATA
69391638 AAATAAAATAAAGAAT
1 AAATAAAATAAAGAAT
*
69391654 AAATATAATAAAGAA
1 AAATAAAATAAAGAA
69391669 ACAAAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:69394239 original size:64 final size:64
Alignment explanation
Indices: 69394159--69394341 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 64
69394149 AGACATTATG
* * *
69394159 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAGGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
69394223 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
69394288 AA
63 AA
* * * *
69394290 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
69394342 TCGAACTATA
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69396389 original size:27 final size:27
Alignment explanation
Indices: 69396359--69396432 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
69396349 TTAGTTTACC
*
69396359 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
69396386 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
69396413 AAATTATCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
69396433 TAGGGTAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:69396444 original size:27 final size:27
Alignment explanation
Indices: 69396414--69396635 Score: 286
Period size: 27 Copynumber: 8.3 Consensus size: 27
69396404 TTGTTTATAA
*
69396414 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69396441 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69396468 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69396495 AATTACCAAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
69396522 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
69396549 AACTACCGGAATACCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
**
69396576 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69396602 CAATTACCGAGATA-CCTTGTAGGGTAA
1 -AATTACCGAAATACCCCTGTAGGGTAG
69396629 AATTACC
1 AATTACC
69396636 ATTTTGCCCC
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 17 0.10
27 152 0.90
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:69396445 original size:54 final size:54
Alignment explanation
Indices: 69396360--69396608 Score: 227
Period size: 54 Copynumber: 4.6 Consensus size: 54
69396350 TAGTTTACCA
* ** * * ** *
69396360 AATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTTGT-TTATAA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACTAAAATACCC-CTGTAGGATAG
* ** *
69396414 AATTATCGAAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTGTAGGATAG
* *
69396468 AGTTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
* *** * * *
69396522 AATTACCGAAATACCCCTGTAGGGTAGAACTACCGGAATACCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
**
69396576 AATTACTAAAATACCCCTGTAGGGT-GCAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAG-AATTAC
69396609 CGAGATACCT
Statistics
Matches: 162, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
53 7 0.04
54 155 0.96
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
Found at i:69397315 original size:27 final size:27
Alignment explanation
Indices: 69397285--69397386 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
69397275 ATTCTGTTAA
* *
69397285 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
69397312 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
69397339 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
69397366 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
69397387 ATAACTGAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:69397560 original size:6 final size:6
Alignment explanation
Indices: 69397545--69397629 Score: 68
Period size: 6 Copynumber: 13.8 Consensus size: 6
69397535 ATTCTGTTAC
* * *
69397545 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTGATT CTGATT CTG-TCAC
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGAT--T
*
69397595 CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
69397630 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.08
6 50 0.78
7 5 0.08
8 4 0.06
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:69397576 original size:31 final size:32
Alignment explanation
Indices: 69397522--69397590 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
69397512 TTGCATTCAC
* *
69397522 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTATTACCTGATACTG
*
69397554 ATTCTGA-TTTTGATTCTATTACCTGATTCTG
1 ATTCTGATTTTTGATTCTATTACCTGATACTG
69397585 ATTCTG
1 ATTCTG
69397591 TCACCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 27 0.79
32 7 0.21
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTATTACCTGATACTG
Found at i:69397581 original size:19 final size:19
Alignment explanation
Indices: 69397557--69397608 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
69397547 GATACTGATT
* *
69397557 CTGATTTTGATTCTATTAC
1 CTGATTCTGATTCTATCAC
*
69397576 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTATCAC
*
69397595 CTAATTCTGATTCT
1 CTGATTCTGATTCT
69397609 GATTCTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTATCAC
Found at i:69404052 original size:40 final size:40
Alignment explanation
Indices: 69403963--69404091 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
69403953 CTTCTCGCCT
* *
69403963 ACTAAGTGCAAATACATAGCTGAAGCTAT-TTTAATCTCGCAC
1 ACTAAGTGC-CATACATAGCTGAAGCTATCTTGAA--TCGCAC
* *
69404005 ACTAAGTGCCATATATAGCTGAAGCTATCTTGAGTCGCAC
1 ACTAAGTGCCATACATAGCTGAAGCTATCTTGAATCGCAC
* *
69404045 ACTAAGTGCCATACATAG-TCGAAGCTATCTTGAATTGTAC
1 ACTAAGTGCCATACATAGCT-GAAGCTATCTTGAATCGCAC
69404085 ACTAAGT
1 ACTAAGT
69404092 ACCTTACTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 47 0.61
41 17 0.22
42 12 0.16
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCTGAAGCTATCTTGAATCGCAC
Found at i:69409309 original size:40 final size:40
Alignment explanation
Indices: 69409215--69409399 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
69409205 TATTCGAATG
* *
69409215 ATATTCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
69409256 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
69409296 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
69409336 ATATCCGGGCTAAG-TCTTGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
*
69409376 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
69409400 CTTGTGCAAG
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 88 0.74
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:69409380 original size:80 final size:81
Alignment explanation
Indices: 69409215--69409399 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
69409205 TATTCGAATG
* * * *
69409215 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
*
69409280 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* * * *
69409296 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCTTGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATC-CGAAGG
* *
69409359 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
69409376 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69409400 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 4 0.04
80 56 0.62
81 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:69412216 original size:17 final size:17
Alignment explanation
Indices: 69412194--69412235 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
69412184 AATAACATAC
69412194 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATAGCTT
*
69412211 AGTAAGCTTCATAGTTT
1 AGTAAGCTTCATAGCTT
69412228 AGTAAGCT
1 AGTAAGCT
69412236 CGTAAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTAAGCTTCATAGCTT
Found at i:69417941 original size:37 final size:37
Alignment explanation
Indices: 69417880--69417958 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
69417870 TTATTACGAA
* * *
69417880 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
69417917 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
69417954 GTCTT
1 GTCTT
69417959 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:69418155 original size:47 final size:47
Alignment explanation
Indices: 69418077--69418787 Score: 1102
Period size: 47 Copynumber: 14.7 Consensus size: 47
69418067 CCCTTCGGGA
* * * * * *
69418077 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69418124 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418171 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418218 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418267 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418314 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418363 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418410 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418459 CTTATCACATATATATACACTTTCACATTCATCACATCGACACCATCCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCG-------GCCATTAGGC
69418515 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418608 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418704 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69418753 CTTATCACATATATGCA-TATTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
69418788 AGAATCCTAA
Statistics
Matches: 626, Mismatches: 19, Indels: 38
0.92 0.03 0.06
Matches are distributed among these distances:
46 46 0.07
47 272 0.43
49 263 0.42
54 28 0.04
56 17 0.03
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69418251 original size:49 final size:49
Alignment explanation
Indices: 69418077--69418766 Score: 1099
Period size: 49 Copynumber: 14.3 Consensus size: 49
69418067 CCCTTCGGGA
* * * * *
69418077 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69418124 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418171 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418218 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418267 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418314 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418363 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418410 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418459 CTTATCACATATATATACACTTTCACATTCATCACATCGACACCATCCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCG-------GCCATTAGGC
69418515 CTTATCAC--ATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418561 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418608 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418657 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69418704 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418753 CTTATCACATATAT
1 CTTATCACATATAT
69418767 GCATATTCAC
Statistics
Matches: 607, Mismatches: 16, Indels: 38
0.92 0.02 0.06
Matches are distributed among these distances:
46 46 0.08
47 247 0.41
49 269 0.44
54 28 0.05
56 17 0.03
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69418274 original size:96 final size:96
Alignment explanation
Indices: 69418077--69418787 Score: 1164
Period size: 96 Copynumber: 7.4 Consensus size: 96
69418067 CCCTTCGGGA
* * * * * * * *
69418077 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
69418140 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69418171 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
69418236 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69418267 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
69418332 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
69418363 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
69418428 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
69418459 CTTATCACATATATATACACTTTCACATTCATCACATCGACACCATCCCATTAGGCCTTATCAC-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCG-------GCCATTAGGCCTTATCACA
69418523 -ATATATACACTTTCACATTCATCACATC-GCCATTAGGC
57 TATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69418561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
69418626 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
69418657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
69418722 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
69418753 CTTATCACATATATGCA-TATTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
69418788 AGAATCCTAA
Statistics
Matches: 585, Mismatches: 17, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
93 17 0.03
94 47 0.08
95 29 0.05
96 372 0.64
98 29 0.05
100 29 0.05
102 18 0.03
103 28 0.05
105 16 0.03
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69421097 original size:85 final size:85
Alignment explanation
Indices: 69420966--69421144 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
69420956 TATTTTATTG
* *
69420966 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACTCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
69421031 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
69421051 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
69421116 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
69421136 CCCATGCTC
1 CCCATGCTC
69421145 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:69421497 original size:27 final size:27
Alignment explanation
Indices: 69421466--69421616 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
69421456 TTAGTTTACC
* * *
69421466 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
69421493 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
69421520 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
69421547 AAATTACTAAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
*
69421574 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
69421602 AAATTACTAAAATAC
1 AAATTACTAAAATAC
69421617 TCCTGTAAGA
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 83 0.80
28 20 0.19
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:69421656 original size:27 final size:27
Alignment explanation
Indices: 69421628--69421770 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
69421618 CCTGTAAGAT
* *
69421628 AGAATTACCACTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
69421655 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
69421682 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
69421709 AAAATTACCGTCTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
69421736 AGAATTATCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
69421763 AAAATTAC
1 AGAATTAC
69421771 TGAAATACCC
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:69421690 original size:54 final size:54
Alignment explanation
Indices: 69421626--69421770 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
69421616 CTCCTGTAAG
* * * * *
69421626 ATAGAATTACCACTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
*
69421680 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTTGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
* *
69421734 ACAGAATTATCATTTTACCCTCGATTTACAAAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTAC
69421771 TGAAATACCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
Found at i:69421779 original size:27 final size:27
Alignment explanation
Indices: 69421460--69421797 Score: 118
Period size: 27 Copynumber: 12.5 Consensus size: 27
69421450 AATACTTTAG
* * *
69421460 TTTACCAAATTACTGAAATACCTTCGA
1 TTTACAAAATTACTGAATTACCCTCGA
* ** ** *
69421487 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTGAATTACCCTCGA
* ** * *
69421514 TTTATAAAATTACCCAAATATCCTCGA
1 TTTACAAAATTACTGAATTACCCTCGA
** * *
69421541 TTTGTAAAATTACTAAAATACCCTC-A
1 TTTACAAAATTACTGAATTACCCTCGA
* *
69421567 GTTTGCAAAATTACTGAAATACCCTCGA
1 -TTTACAAAATTACTGAATTACCCTCGA
** * *
69421595 TTTTGTAAAATTACTAAAATACTCCT-G-
1 -TTTACAAAATTACTGAATTAC-CCTCGA
* * * *
69421622 -TAAGATAGAATTAC-CACTTTACCCTCGA
1 TTTACA-A-AATTACTGA-ATTACCCTCGA
* * **
69421650 TTTATAGAATTA-TCGTTTTACCCTCGA
1 TTTACAAAATTACT-GAATTACCCTCGA
* * * *
69421677 TTTATAGAATTAC-CATTTTACCCTCGA
1 TTTACAAAATTACTGA-ATTACCCTCGA
* ** *
69421704 TTTACAAAATTACCGTCTTACCCTTGA
1 TTTACAAAATTACTGAATTACCCTCGA
* * *
69421731 TTTACAGAATTA-TCATTTTACCCTCGA
1 TTTACAAAATTACTGA-ATTACCCTCGA
* *
69421758 TTTACAAAATTACTGAAATACCCT-TA
1 TTTACAAAATTACTGAATTACCCTCGA
69421784 GTTTACAAAATTAC
1 -TTTACAAAATTAC
69421798 CAAAATAGCC
Statistics
Matches: 242, Mismatches: 52, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.01
26 7 0.03
27 204 0.84
28 23 0.10
29 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAATTACCCTCGA
Found at i:69421780 original size:54 final size:54
Alignment explanation
Indices: 69421628--69421799 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 54
69421618 CCTGTAAGAT
* * * * * *
69421628 AGAATTACCACTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACT-GTATTACCCTTGATTTAC
* *
69421682 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTATTACCCTTGATTTAC
* * *
69421736 AGAATTATCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTT-AGTTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTATTACCCTTGA-TTTAC
*
69421790 AAAATTACCA
1 AGAATTACCA
69421800 AAATAGCCCT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 101 0.99
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTATTACCCTTGATTTAC
Found at i:69421780 original size:81 final size:81
Alignment explanation
Indices: 69421640--69421798 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
69421630 AATTACCACT
* * * * **
69421640 TTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-
1 TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCATAATACCCT-GAG
69421704 TTTACAAAATTACCGTC
65 TTTACAAAATTACCGTC
* * *
69421721 TTACCCTTGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACTGA-AATACCCTTAG
1 TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTAC-CATAATACCCTGAG
69421785 TTTACAAAATTACC
65 TTTACAAAATTACC
69421799 AAAATAGCCC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.97
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCATAATACCCTGAGT
TTACAAAATTACCGTC
Found at i:69421803 original size:27 final size:26
Alignment explanation
Indices: 69421749--69421834 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
69421739 ATTATCATTT
* **
69421749 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTAG-TTTACAAAATTACCAAAA
69421776 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCC-TAGTTTACAAAATTACCAAAA
* **
69421803 TAGCCCTGGTTTGTAAAATTACCAAAA
1 TA-CCCTAGTTTACAAAATTACCAAAA
69421830 TACCC
1 TACCC
69421835 CTAATTTGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.06
27 43 0.84
28 5 0.10
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
TACCCTAGTTTACAAAATTACCAAAA
Found at i:69421836 original size:27 final size:27
Alignment explanation
Indices: 69421758--69421837 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
69421748 TTACCCTCGA
** *
69421758 TTTACAAAATTACTGAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCCTAG
* *
69421785 TTTACAAAATTACCAAAATAGCCCTGG
1 TTTACAAAATTACCAAAATACCCCTAG
**
69421812 TTTGTAAAATTACCAAAATACCCCTA
1 TTTACAAAATTACCAAAATACCCCTA
69421838 ATTTGTGATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCTAG
Found at i:69421842 original size:27 final size:27
Alignment explanation
Indices: 69421763--69421861 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 27
69421753 CTCGATTTAC
** * **
69421763 AAAATTACTGAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
69421790 AAAATTACCAAAATAGCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
69421817 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* ** *
69421844 GATTTTACCGAAATACCC
1 AAAATTACCAAAATACCC
69421862 TTGTAGGGTA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:69421930 original size:28 final size:27
Alignment explanation
Indices: 69421852--69422068 Score: 310
Period size: 27 Copynumber: 8.0 Consensus size: 27
69421842 GTGATTTTAC
*
69421852 CGAAATACCCTTGTAGGGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
69421878 CTGAAATACCCCTGTAGGGTAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAT
*
69421906 CGAAATACCCCTTGTAGGGTAGAATTAC
1 CGAAATACCCC-TGTAGGGTAGAATTAT
69421934 CGAAATACCCCTTGTAGGGTAGAATTAT
1 CGAAATACCCC-TGTAGGGTAGAATTAT
*
69421962 CGAAATACTCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
* *
69421989 CGAAATACCCCTATAGGGTAGAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
*
69422016 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAT
* * * *
69422043 CGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
69422069 CCATTTTGCC
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 120 0.69
28 53 0.30
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAT
Found at i:69422495 original size:6 final size:6
Alignment explanation
Indices: 69422464--69422563 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
69422454 TTGCATTCAC
* *
69422464 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
69422513 -TCACCTT ATTCTG ATTCTG ATTCTG ATTCTG ATTATG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
69422562 AT
1 AT
69422564 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:69422499 original size:31 final size:31
Alignment explanation
Indices: 69422464--69422543 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
69422454 TTGCATTCAC
* *
69422464 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
69422495 ATTCTGATTCTGATTCTGTCACCTTATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
69422526 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
69422544 ATTATGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:69422572 original size:18 final size:18
Alignment explanation
Indices: 69422517--69422584 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
69422507 ATTCTGTCAC
**
69422517 CTTATTCTGATTCTGATT
1 CTTATTCTGATAATGATT
* *
69422535 CTGATTCTGATTATGATT
1 CTTATTCTGATAATGATT
*
69422553 C-TAGTTCTGATAATGTTT
1 CTTA-TTCTGATAATGATT
69422571 CTTATTCTG-TAATG
1 CTTATTCTGATAATG
69422585 GGTTAAAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.14
18 35 0.81
19 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (18 bp):
CTTATTCTGATAATGATT
Found at i:69424495 original size:28 final size:28
Alignment explanation
Indices: 69424460--69424515 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
69424450 GGCCGAGAAG
69424460 GGCTTTAGGCCCATTCGTATTGTTATCC
1 GGCTTTAGGCCCATTCGTATTGTTATCC
69424488 GGCTTTAGGCCCATTCGTATTGTTATCC
1 GGCTTTAGGCCCATTCGTATTGTTATCC
69424516 CTGTTCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (28 bp):
GGCTTTAGGCCCATTCGTATTGTTATCC
Found at i:69424829 original size:27 final size:27
Alignment explanation
Indices: 69424543--69424911 Score: 185
Period size: 27 Copynumber: 13.6 Consensus size: 27
69424533 TTAGTTTACC
* * * *
69424543 AAATTACTGAAATACGCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
* *
69424570 AAATTACC-AAAGTACCCCCAATTTATA
1 AAATTACCGAAA-TACCCTCGATTTATA
* * * *
69424597 AAATTACCCAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
* **
69424624 AAATTACCGAAATACCCTCAATTTGCA
1 AAATTACCGAAATACCCTCGATTTATA
** * *
69424651 AAATTATTGAAATACCTTCGATTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* **
69424679 AAATTACTGAAATACTCCT--ATAAGATA
1 AAATTACCGAAATAC-CCTCGAT-TTATA
* ** *
69424706 GAATTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTATA
* ***
69424733 GAATTACCGCTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* ** *
69424760 GAATTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTATA
* *** *
69424787 GAATTACCGTCTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* * * *
69424814 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* *
69424841 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCGAAATACCCTCGA-TTTATA
* * * *
69424868 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCGAAATACCCTC-GATTTATA
*
69424895 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
69424912 CTATAGGGTA
Statistics
Matches: 272, Mismatches: 57, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
26 8 0.03
27 237 0.87
28 25 0.09
29 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:69424912 original size:27 final size:27
Alignment explanation
Indices: 69424807--69424940 Score: 108
Period size: 27 Copynumber: 5.0 Consensus size: 27
69424797 CTTACCCTCG
* * *
69424807 ATTTACAAAATTACTGAAATACCCTTG
1 ATTTATAAAATTACTGAAATACCCCTA
* * **
69424834 GTTTACAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACTGAAATACCCCTA
* **
69424861 GTTTATAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACTGAAATACCCCTA
* *
69424888 ATTTGTGAAATTACTGAAATACCCCT-
1 ATTTATAAAATTACTGAAATACCCCTA
*** *
69424914 ATAGGGTAGAATTACTGAAATACCCCT
1 AT-TTATAAAATTACTGAAATACCCCT
69424941 GTAGGGTAGA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.02
27 89 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTATAAAATTACTGAAATACCCCTA
Found at i:69424927 original size:81 final size:80
Alignment explanation
Indices: 69424842--69425119 Score: 229
Period size: 81 Copynumber: 3.4 Consensus size: 80
69424832 TGGTTTACAA
* ** * *
69424842 AATTACCAAAATACCCCTAGT-TTATAAAATTACCAAAATACCC-CTAATTTGT-GAAATTACTG
1 AATTACTAAAATACCCCT-GTAGGATAAAATTACCAAAATACCCTCTAA--GGTAG-AATTACCG
69424904 AAATACCCCTATAGGGTAG
62 AAATACCCCTATAGGGTAG
* * * * *
69424923 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATACCC-TCTAAGGTAGAATTACCGAAA
*
69424988 TACCCCTGTAGGGTAG
65 TACCCCTATAGGGTAG
** * * * * * * *
69425004 AATTACTAAAATACCCCTGTAGGGCAGAATTACCGAAATACTCTTGTAGGGTAGAAATACCAAAA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATAC-CCTCTAAGGTAGAATTACCGAAA
* *
69425069 TACCCCTGTAGGGTAA
65 TACCCCTATAGGGTAG
** * * * *
69425085 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCA
69425120 TTTTGCCCCT
Statistics
Matches: 166, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 159 0.96
82 2 0.01
83 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (80 bp):
AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATACCCTCTAAGGTAGAATTACCGAAAT
ACCCCTATAGGGTAG
Found at i:69424945 original size:27 final size:27
Alignment explanation
Indices: 69424896--69425118 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
69424886 TAATTTGTGA
* *
69424896 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69424923 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69424950 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
69424977 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
69425004 AATTACTAAAATACCCCTGTAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69425031 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69425058 AAATACCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
69425085 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
69425112 AATTACC
1 AATTACC
69425119 ATTTTGCCCC
Statistics
Matches: 172, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:69425543 original size:6 final size:6
Alignment explanation
Indices: 69425513--69425605 Score: 66
Period size: 6 Copynumber: 15.2 Consensus size: 6
69425503 TGCATTCACG
* *
69425513 TTCTGA TTTTGA TTCT-A TTACCTGA TACTGA TTCTGA TTCTGA TTCTG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * *
69425561 TCACCTGA TTCTGA TTTTGA TTTTGA TTTTGA TTCT-A GTTCTGA T
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA -TTCTGA T
69425606 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 57 0.80
7 6 0.08
8 3 0.04
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TTCTGA
Found at i:69425551 original size:31 final size:31
Alignment explanation
Indices: 69425513--69425588 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
69425503 TGCATTCACG
*
69425513 TTCTGATTTTGATTCTATTACCTGATACTGA
1 TTCTGATTTTGATTCTATCACCTGATACTGA
* * *
69425544 TTCTGATTCTGATTCTGTCACCTGATTCTGA
1 TTCTGATTTTGATTCTATCACCTGATACTGA
*
69425575 TTTTGATTTTGATT
1 TTCTGATTTTGATT
69425589 TTGATTCTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
TTCTGATTTTGATTCTATCACCTGATACTGA
Found at i:69444088 original size:93 final size:93
Alignment explanation
Indices: 69443929--69444099 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
69443919 GCCCATAAGC
* *
69443929 GAACTCAGACTCAACACAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69443994 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* * *
69444022 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69444087 CGAGTTCGGATGC
66 CGAGTTCGGATGC
69444100 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:69444096 original size:46 final size:46
Alignment explanation
Indices: 69443921--69444096 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
69443911 TGTAACCCGC
* * * * * *
69443921 CCATAAGCGAACTCAGACTCAACACAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
69443967 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
69444017 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
69444060 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69444097 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 30 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:69444115 original size:46 final size:44
Alignment explanation
Indices: 69443972--69444115 Score: 150
Period size: 46 Copynumber: 3.1 Consensus size: 44
69443962 CGCATCCATA
69443972 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * *
69444019 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
69444065 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
69444111 AGTGA
1 AGTGA
69444116 CATGTCACTT
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 34 0.41
47 32 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:69449848 original size:31 final size:31
Alignment explanation
Indices: 69449806--69449869 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
69449796 CCTTTTCATA
* *
69449806 TTTCATTTTTCATAACACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
69449837 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
69449868 TT
1 TT
69449870 AATTGTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:69450116 original size:24 final size:24
Alignment explanation
Indices: 69450064--69450252 Score: 262
Period size: 24 Copynumber: 8.0 Consensus size: 24
69450054 GCTTTATCAT
*
69450064 ATAACTGGAGGC-TTAGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
69450089 ATAACTGGGGCGA-AAGCCCTTTTT
1 ATAACTGGGGC-ATAAGCCCTTTTA
69450113 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
69450136 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
69450160 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
69450184 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
69450207 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
69450230 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
69450253 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
23 66 0.44
24 72 0.48
25 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:69450140 original size:47 final size:48
Alignment explanation
Indices: 69450063--69450252 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 48
69450053 TGCTTTATCA
*
69450063 TATAACTGGAGGC-TTAGCCTCTTTTAATAACTGGGGCGA-AAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGC-ATAAGCCCTTTT
*
69450112 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
69450159 GATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
69450206 AATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
69450253 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
46 21 0.16
47 69 0.54
48 24 0.19
49 14 0.11
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:69450143 original size:23 final size:23
Alignment explanation
Indices: 69450085--69450251 Score: 246
Period size: 23 Copynumber: 7.1 Consensus size: 23
69450075 CTTAGCCTCT
69450085 TTTAATAACTGGGGCGA-AAGCCC
1 TTTAATAACTGGGGC-ATAAGCCC
*
69450108 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
69450132 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
69450155 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
69450179 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
69450203 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69450226 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69450249 TTT
1 TTT
69450252 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
23 69 0.52
24 64 0.48
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:69450326 original size:20 final size:20
Alignment explanation
Indices: 69450298--69450348 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
69450288 GCATTTATGA
*
69450298 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
69450318 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
69450338 ACATATCATGT
1 ACATATCATGT
69450349 TTATCAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:69451670 original size:27 final size:27
Alignment explanation
Indices: 69451573--69451656 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
69451563 GGGCATATTC
* * *
69451573 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
69451600 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
69451627 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
69451654 GTC
1 GTC
69451657 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:69451831 original size:27 final size:27
Alignment explanation
Indices: 69451703--69451974 Score: 181
Period size: 27 Copynumber: 10.0 Consensus size: 27
69451693 TACAAGAGTG
* * * *
69451703 TTTTGGTAAATCTACAAACCAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * *
69451730 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
69451757 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTA
* * ** *
69451786 TTTTTGTAACTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
69451813 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
69451840 TTTCGGTAATTTCACAAA-CTAAGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
69451867 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
69451894 TTTTGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* ** *
69451921 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*** * * *
69451948 AAATAGTAATTCTATAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
69451975 AAACAGTAAT
Statistics
Matches: 195, Mismatches: 44, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
27 167 0.86
28 15 0.08
29 13 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:69451919 original size:81 final size:81
Alignment explanation
Indices: 69451726--69451932 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 81
69451716 ACAAACCAAA
** ** * * * *
69451726 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTC-AGTAA-TTTCACAAACT-AAGGGTATTTT
* *
69451790 TGTAACTTTGTAAATCAGG
63 GGTAACTTTGTAAAACAGG
*** *
69451809 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGT
69451874 AA-TTT-TACAAACTAGG
66 AACTTTGTA-AAAC-AGG
*
69451890 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
69451933 TGTAAATCGA
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
79 2 0.02
80 6 0.06
81 56 0.55
82 8 0.08
83 30 0.29
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGT
AACTTTGTAAAACAGG
Found at i:69451957 original size:54 final size:54
Alignment explanation
Indices: 69451808--69452012 Score: 153
Period size: 54 Copynumber: 3.8 Consensus size: 54
69451798 TGTAAATCAG
* * * ** * * *
69451808 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATTTCACAAACTAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAT-AGTAATTTTACAAACCAA
* * * *** *
69451862 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAATAGTAATTTTACAAACCAA
* * * *
69451916 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTACAAACCAA
**** * *
69451970 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATT
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATT
69452013 CTGTAAATCG
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 119 0.95
55 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTACAAACCAA
Found at i:69451975 original size:27 final size:27
Alignment explanation
Indices: 69451925--69452082 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
69451915 AGGGTATTTT
* *
69451925 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69451952 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
69451979 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
69452006 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69452033 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69452060 -GATAATTATGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
69452083 CCTTGGTAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 118 0.99
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:69451984 original size:81 final size:81
Alignment explanation
Indices: 69451899--69452059 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
69451889 GGGTATTTTG
* **** * *
69451899 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
69451964 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * *
69451980 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* *
69452045 AGTCGAGGGTAAAAC
66 AATCAAGGGTAAAAC
69452060 GATAATTATG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:69452102 original size:54 final size:54
Alignment explanation
Indices: 69451939--69452136 Score: 173
Period size: 54 Copynumber: 3.7 Consensus size: 54
69451929 ATTTTGTAAA
* * * * * * *
69451939 TCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* **
69451993 TCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAG
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* **** *
69452047 TCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTACCTTGGTAATTTTACAAG
1 TCGAGGGTAAAACAG-TAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* *** * **
69452101 TCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTA
69452137 TTTCAGTATT
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.98
55 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (54 bp):
TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
Found at i:69452184 original size:28 final size:27
Alignment explanation
Indices: 69452088--69452186 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
69452078 GGGTACCTTG
* *
69452088 GTAATTTTACAAGTCGAA-GGTATTTCA
1 GTAATTTTACAA-ACTAAGGGTATTTCA
*
69452115 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGGGTATTTCA
* *
69452142 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
*
69452169 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
69452187 AGTATTCTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 51 0.85
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCA
Found at i:69456447 original size:27 final size:27
Alignment explanation
Indices: 69456417--69456668 Score: 276
Period size: 27 Copynumber: 9.3 Consensus size: 27
69456407 GGGGTAAAAT
* * *
69456417 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
69456444 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
69456471 AGTAATATTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
69456498 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
69456525 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
69456552 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
69456579 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
69456606 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
69456633 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
69456660 GGTAATTTT
1 GGTAATTTT
69456669 GTAAATCGAG
Statistics
Matches: 191, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.04
27 174 0.91
28 9 0.05
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:69456465 original size:54 final size:54
Alignment explanation
Indices: 69456417--69456666 Score: 306
Period size: 54 Copynumber: 4.6 Consensus size: 54
69456407 GGGGTAAAAT
* * * *
69456417 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
69456471 AGTAATATTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** *
69456525 GGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
69456579 GGT-ATTTCTACCCTACAGGGGTATTTCGGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
69456633 GGT-ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTT-TACCCTACAGGGGTATTTCGGTAATT
69456667 TTGTAAATCG
Statistics
Matches: 169, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.02
54 166 0.98
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:69456545 original size:81 final size:81
Alignment explanation
Indices: 69456421--69456659 Score: 338
Period size: 81 Copynumber: 3.0 Consensus size: 81
69456411 TAAAATGGTA
* *
69456421 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATAT-TACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAAT-TCTACCC
*
69456484 TACAGGGGTATTTTAGT
65 TACAGGGGTATTTCAGT
* *
69456501 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
*
69456566 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCAGT
* * * ** *
69456582 ATTTCTACCCTACAGGGGTATTTCGGTAGTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
*
69456647 ACAAGGGTATTTC
66 ACAGGGGTATTTC
69456660 GGTAATTTTG
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.04
81 137 0.96
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:69456735 original size:27 final size:28
Alignment explanation
Indices: 69456703--69456829 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 28
69456693 TCTATAAATT
*
69456703 AGGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGGTATTTTGGTAATTTTACAAGTCG
** *
69456731 A-GGGTATTTTAATAATTTTACAGGTCG
1 AGGGGTATTTTGGTAATTTTACAAGTCG
** * *
69456758 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAGTCG
* *
69456784 AGGGGTATTTTGGTAATTTTACAA-ACT
1 AGGGGTATTTTGGTAATTTTACAAGTCG
69456811 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
69456830 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 81 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAGTCG
Done.