Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 19 of 276
Found at i:5840341 original size:120 final size:120
Alignment explanation
Indices: 5840126--5840386 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
5840116 TATTCGAATG
* * *
5840126 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * * *
5840191 ATTCGTGTGAGTTGCTATATCGGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGTGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
5840247 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
5840310 CATTTATGCT-AG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATG-TGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
5840366 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
5840387 ATTTCTTGAG
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 55 0.45
121 32 0.26
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGTGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:5851347 original size:33 final size:34
Alignment explanation
Indices: 5851275--5851347 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
5851265 TCAGTGGCAC
5851275 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
1 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
*
5851309 TATCAGTGTGGGCCTTAGCCCAATT-CAGT-ACAA
1 TATCAGTGTGGACCTTAGCCC-ATTACAGTAACAA
5851342 TATCAG
1 TATCAG
5851348 AGATGCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 10 0.27
34 24 0.65
35 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (34 bp):
TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
Found at i:5860662 original size:34 final size:33
Alignment explanation
Indices: 5860590--5860662 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
5860580 GTTTGCATCT
5860590 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
1 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
* * * *
5860623 TTGATACTGTTACTGTAA-TGGGCTGAGGTCTACA
1 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
5860657 CTGATA
1 CTGATA
5860663 TTGCCACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 8 0.24
34 23 0.70
35 2 0.06
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (33 bp):
CTGATACTGTACTGAATTGGGCTAAGGCCCACA
Found at i:5863722 original size:47 final size:44
Alignment explanation
Indices: 5863566--5863786 Score: 158
Period size: 47 Copynumber: 4.7 Consensus size: 44
5863556 TGGGATATAT
* * *
5863566 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCAT-ATA
1 TGCCGATG-CATGTCCCAGACA-CGTCTTACACTAGCACTC-TCCTA
* * * *
5863612 TGCATGCTGATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTA
1 TGC---C-GATGCATGTCCCAGACACGTCTTACACTAGCAC-TCTCCTA
** *
5863661 -GCCGATGTGTGTCCCAGACACGTCTTACACTAGCTATCTCTGCCGA
1 TGCCGATGCATGTCCCAGACACGTCTTACACTAGC-A-CTCT-CCTA
* * * *
5863707 GGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTA
1 TGCCGATGCATGTCCCAGACACGTCTTACACTAGCACTC-TC-CTA
*
5863753 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCCGATG-CATGTCCCAGACA-CGTCTTACACT
5863787 GGCTCTAATA
Statistics
Matches: 139, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 27 0.19
45 8 0.06
46 17 0.12
47 42 0.30
48 25 0.18
49 16 0.12
50 4 0.03
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAGACACGTCTTACACTAGCACTCTCCTA
Found at i:5863814 original size:94 final size:90
Alignment explanation
Indices: 5863565--5863835 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 90
5863555 ATGGGATATA
*
5863565 TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATATATGCATGCT-GATGCATGT
1 TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCT-ATA-ATG--TGGTCGATGCATGT
* *
5863629 CCCATACATGTCTTACACTAGCACAACTC
62 CCCACACATGTCTTACACTGGCACAACTC
** * * *** * *
5863658 TTAGCCGATG-TGTGTCCCAGACA-CGTCTTACACTAGCTATCTCTGCCGAGGCCGATGCATGTC
1 TT-GCCGATGCCATGTCCCAGACATCGTCTTACACTGGC--TCTATAATGTGGTCGATGCATGTC
* * *
5863721 CCAGACATGTCTTACTCTGGCACTCATCTC
63 CCACACATGTCTTACACTGGCA--CAACTC
* *
5863751 TATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGTCGAAGCATGTCC
1 T-TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCT-ATAATGTGGTCGATGCATGTCC
*
5863816 TACACATGTCTTACACTGGC
64 CACACATGTCTTACACTGGC
5863836 GCATGAATCA
Statistics
Matches: 140, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
90 1 0.01
91 29 0.21
92 14 0.10
93 30 0.21
94 54 0.39
95 12 0.09
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (90 bp):
TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTATAATGTGGTCGATGCATGTCCCA
CACATGTCTTACACTGGCACAACTC
Found at i:5867982 original size:80 final size:80
Alignment explanation
Indices: 5867849--5868008 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
5867839 TTGCCTCAAA
5867849 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTC
1 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTC
5867914 ACCATATAAATGATG
66 ACCATATAAATGATG
*
5867929 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGGCATCTCTC
1 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTC
5867994 ACCATATAAATGATG
66 ACCATATAAATGATG
5868009 CCACCAAATC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (80 bp):
TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTC
ACCATATAAATGATG
Found at i:5874474 original size:30 final size:30
Alignment explanation
Indices: 5874440--5874500 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
5874430 TCCTTAACTC
5874440 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
5874470 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
5874500 A
1 A
5874501 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:5880526 original size:3 final size:3
Alignment explanation
Indices: 5880520--5880573 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
5880510 TAGGTAAAAA
* * **
5880520 AAT AAT -AT AAT AAT AAT -AT AAT AGT AAT AAT AAC AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5880566 AAT AAT AA
1 AAT AAT AA
5880574 ATAGTGATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5880711 original size:3 final size:3
Alignment explanation
Indices: 5880703--5880811 Score: 82
Period size: 3 Copynumber: 37.0 Consensus size: 3
5880693 TAAATAGTAA
* * *
5880703 AAT AAT AAT AAT AAT AGT AAT -TT AAA AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
5880750 AAT AGT AAT AGT GAAT -AT AAAT AAT AGT CGT AA- AA- AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
5880794 AAT AGT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT
5880812 GATGGTGAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 7 0.08
3 72 0.87
4 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5880850 original size:56 final size:56
Alignment explanation
Indices: 5880726--5880833 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
5880716 ATAGTAATTT
* * *
5880726 AAAAATAATAATAATAATAATAATAATAGTAATAGTGAATATAAATAATAGTCGTA
1 AAAAATAATAATAATAATAATAACAATAATAATAGTGAATATAAATAATAATCGTA
* * * *
5880782 AAAAATAATAATAATAGTAATAACAATAATGATGGTGAATATAAATCATAAT
1 AAAAATAATAATAATAATAATAACAATAATAATAGTGAATATAAATAATAAT
5880834 GATAATAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (56 bp):
AAAAATAATAATAATAATAATAACAATAATAATAGTGAATATAAATAATAATCGTA
Found at i:5883806 original size:40 final size:40
Alignment explanation
Indices: 5883769--5883993 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
5883759 GCTACTCGTT
* *
5883769 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
5883809 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
5883849 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
5883888 CAAATTCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
5883928 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
5883969 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
5883994 CATCATTCGA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 37 0.23
40 109 0.69
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:5883886 original size:79 final size:80
Alignment explanation
Indices: 5883769--5883993 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
5883759 GCTACTCGTT
* *
5883769 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
5883834 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * * *
5883849 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATTCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
5883912 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* * * * * *
5883928 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
5883991 GGA
64 GGA
5883994 CATCATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.02
79 68 0.54
80 46 0.37
81 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:5883953 original size:119 final size:120
Alignment explanation
Indices: 5883769--5883993 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
5883759 GCTACTCGTT
* *
5883769 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
* * *
5883834 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
5883888 CAAATTCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCC
* *
5883951 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
5883994 CATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 5 0.05
119 69 0.76
120 17 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:5890203 original size:30 final size:30
Alignment explanation
Indices: 5890169--5890228 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5890159 ATTTAATACG
5890169 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
5890199 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
5890229 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:5893604 original size:46 final size:46
Alignment explanation
Indices: 5893551--5893687 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
5893541 TATATATACA
* * *
5893551 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
5893597 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
5893643 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
5893688 ATACATGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:5893722 original size:47 final size:47
Alignment explanation
Indices: 5893661--5893804 Score: 234
Period size: 47 Copynumber: 3.1 Consensus size: 47
5893651 ACACATTTCT
* * *
5893661 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
5893708 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
5893755 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
5893802 CAT
1 CAT
5893805 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:5907228 original size:39 final size:39
Alignment explanation
Indices: 5907182--5907309 Score: 211
Period size: 39 Copynumber: 3.3 Consensus size: 39
5907172 ACTCTGATGA
* *
5907182 GCTTCAGTTATCCTTCAGGCTTCCGTTTGGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
*
5907221 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
*
5907260 GCTTCAGTTAGCCTTCAGTCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
*
5907299 GCTACAGTTAG
1 GCTTCAGTTAG
5907310 ATTTCGGGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
Found at i:5921189 original size:40 final size:40
Alignment explanation
Indices: 5921134--5921220 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
5921124 CAGACACACA
*
5921134 CCCGTGTCCCTCACACGGCCACGACACGCCCGTGTCCTAG
1 CCCGTGTCCCTCACACGACCACGACACGCCCGTGTCCTAG
5921174 CCCGTGTCCCTCACACGACCACGACACGCCCGTGTCCTAG
1 CCCGTGTCCCTCACACGACCACGACACGCCCGTGTCCTAG
5921214 CCCGTGT
1 CCCGTGT
5921221 GCAAAAACAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.15, C:0.47, G:0.22, T:0.16
Consensus pattern (40 bp):
CCCGTGTCCCTCACACGACCACGACACGCCCGTGTCCTAG
Found at i:5921515 original size:38 final size:38
Alignment explanation
Indices: 5921464--5921539 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
5921454 TCCGTGTGTA
*
5921464 CAATATAAAGCTATTTACCAAGCCTTATTGCCACCCTT
1 CAATATAAAGCTATTTACCAAGCCTCATTGCCACCCTT
* *
5921502 CAATATAAGGCTATTTTCCAAGCCTCATTGCCACCCTT
1 CAATATAAAGCTATTTACCAAGCCTCATTGCCACCCTT
5921540 ACTTACCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (38 bp):
CAATATAAAGCTATTTACCAAGCCTCATTGCCACCCTT
Found at i:5922255 original size:47 final size:48
Alignment explanation
Indices: 5922184--5922408 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 48
5922174 TGGGTAAGGT
5922184 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * *
5922231 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * * ** *
5922279 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * * * *
5922325 GTCGATG-CATGTCCTAGACAT-GTCTTACCCTAGCGCTTGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * *
5922370 CACCGATGCCATGTCCCAGACATGGTCTTGCATTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
5922409 TCATAATGTG
Statistics
Matches: 142, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 57 0.40
47 67 0.47
48 17 0.12
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:5926577 original size:27 final size:27
Alignment explanation
Indices: 5926547--5926876 Score: 426
Period size: 27 Copynumber: 12.2 Consensus size: 27
5926537 TTAGTTTACC
5926547 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
5926574 AAATTTCTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
5926601 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
5926628 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
5926655 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
5926682 AAATTACCAAAGTACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
5926709 AAATTACCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
5926736 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
5926763 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
5926790 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
5926817 AAATTATTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
5926844 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
5926871 AAATTA
1 AAATTA
5926877 TTGAAATACC
Statistics
Matches: 256, Mismatches: 47, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 256 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:5926596 original size:54 final size:54
Alignment explanation
Indices: 5926537--5926862 Score: 481
Period size: 54 Copynumber: 6.0 Consensus size: 54
5926527 TAAGAATACT
** * *
5926537 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTTCTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
*
5926591 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* * * *
5926645 TTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAGTACCA
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* * * *
5926699 TTGGTTTACAAAATTACCAAAATAACCCTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
*
5926753 TTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* * ** *
5926807 CTAGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
5926861 TT
1 TT
5926863 GATTTGTGAA
Statistics
Matches: 247, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 247 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
Found at i:5926883 original size:27 final size:27
Alignment explanation
Indices: 5926555--5926947 Score: 251
Period size: 27 Copynumber: 14.6 Consensus size: 27
5926545 CCAAATTACC
* *
5926555 AAAATACCCCTGGTTTGTAAAATT-TCT
1 AAAATACCCTTGATTTGTAAAATTAT-T
* **
5926582 AAAATACCCTT-AGTTTATAAAATTACC
1 AAAATACCCTTGA-TTTGTAAAATTATT
* * *
5926609 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCTTGATTTGTAAAATTATT
* * * **
5926636 AAAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCTTGATTTGTAAAATTATT
* * **
5926663 AAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATT
* * * ** **
5926690 AAAGTACCATTGGTTTACAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATT
* *
5926717 AAAATAACCC-TGGTTTGTAAAATTACT
1 AAAAT-ACCCTTGATTTGTAAAATTATT
* **
5926744 AAAATACCCTTTG-TTTATAAAATTACC
1 AAAATACCC-TTGATTTGTAAAATTATT
* * **
5926771 AAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATT
*
5926798 AAAATACCCCT-AGTTTGTAAAATTATT
1 AAAATACCCTTGA-TTTGTAAAATTATT
* **
5926825 AAAATACCCCT-AGTTTGTAAAATTACC
1 AAAATACCCTTGA-TTTGTAAAATTATT
*
5926852 AAAATACCCTTGATTTGTGAAATTATT
1 AAAATACCCTTGATTTGTAAAATTATT
* * * *
5926879 GAAATACCCTCGA-CTGCAAAATTATT
1 AAAATACCCTTGATTTGTAAAATTATT
* * * **
5926905 GAAATACCCTCGACTTGTAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATT
*
5926932 AAAGTACCCTTGATTT
1 AAAATACCCTTGATTT
5926948 ACAGAATTAT
Statistics
Matches: 304, Mismatches: 52, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 29 0.10
27 269 0.88
28 6 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATACCCTTGATTTGTAAAATTATT
Found at i:5926884 original size:81 final size:81
Alignment explanation
Indices: 5926547--5926943 Score: 449
Period size: 81 Copynumber: 4.9 Consensus size: 81
5926537 TTAGTTTACC
* *
5926547 AAATTACCAAAATACCCCTGGTTTGTAAAATT-TCTAAAATACCCTTAGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTAT-TAAAATACCCCTAGTTTGTAAAATTACCAA
*
5926611 AATACCCCTGGTTTGTA
65 AATACCCTTGGTTTGTA
* * * * ** *
5926628 AAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAA
* * **
5926693 GTACCATTGGTTTACA
66 ATACCCTTGGTTTGTA
* * * * *
5926709 AAATTACCAAAATAACCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAA
*
5926774 ATACCCCTGGTTTGTA
66 ATACCCTTGGTTTGTA
*
5926790 AAATTACCAAAATACCCCTAGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
5926855 ATACCCTTGATTTGTG
66 ATACCCTTGGTTTGTA
*** * ** * * * *
5926871 AAATTATTGAAATA-CCCTCGACTGCAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTAG-TTTGTAAAATTACCAA
*
5926934 AGTACCCTTG
65 AATACCCTTG
5926944 ATTTACAGAA
Statistics
Matches: 266, Mismatches: 48, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
79 5 0.02
80 45 0.17
81 216 0.81
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTTGGTTTGTA
Found at i:5926905 original size:26 final size:27
Alignment explanation
Indices: 5926853--5926929 Score: 102
Period size: 26 Copynumber: 2.9 Consensus size: 27
5926843 AAAATTACCA
* * **
5926853 AAATACCCTTGATTTGTGAAATTATTG
1 AAATACCCTCGACTTGCAAAATTATTG
5926880 AAATACCCTCGAC-TGCAAAATTATTG
1 AAATACCCTCGACTTGCAAAATTATTG
*
5926906 AAATACCCTCGACTTGTAAAATTA
1 AAATACCCTCGACTTGCAAAATTA
5926930 CCAAAGTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.55
27 20 0.45
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGACTTGCAAAATTATTG
Found at i:5926967 original size:80 final size:82
Alignment explanation
Indices: 5926816--5926995 Score: 190
Period size: 80 Copynumber: 2.2 Consensus size: 82
5926806 CCTAGTTTGT
* * * ** *
5926816 AAAATTATTAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTATTG
1 AAAATTATTGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCTTGATTTCAGAAATTATTC
* *
5926880 AAATACCCTCGA-CTGC
66 AAATACCCTCAATCTAC
*
5926896 AAAATTATTGAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCTTGATTTACAG-AATTA-T
1 AAAATTATTGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCTTGATTT-CAGAAATTATT
** *
5926958 CATTTTACCCTCAATTTAC
65 CA-AATACCCTCAATCTAC
*
5926977 AAAATTATCGAAATACCCT
1 AAAATTATTGAAATACCCT
5926996 TATAGGGTAC
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 2 0.02
80 58 0.70
81 23 0.28
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (82 bp):
AAAATTATTGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCTTGATTTCAGAAATTATTC
AAATACCCTCAATCTAC
Found at i:5926993 original size:27 final size:27
Alignment explanation
Indices: 5926843--5926995 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 27
5926833 CCTAGTTTGT
* * * **
5926843 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* * * *
5926870 GAAATTATTGAAATACCCTCGA-CTGC
1 AAAATTATCGAAATACCCTCGATTTAC
* * **
5926896 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* *
5926923 AAAATTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCGATTTAC
* ** *
5926950 AGAATTATC-ATTTTACCCTCAATTTAC
1 AAAATTATCGA-AATACCCTCGATTTAC
5926977 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
5926996 TATAGGGTAC
Statistics
Matches: 97, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
26 26 0.27
27 69 0.71
28 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTAC
Found at i:5927015 original size:27 final size:27
Alignment explanation
Indices: 5926979--5927281 Score: 326
Period size: 27 Copynumber: 11.3 Consensus size: 27
5926969 CAATTTACAA
* * * *
5926979 AATTATCGAAATACCCTTATAGGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5927006 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
5927033 AATTACCTG-AATACCCCTGTAGGGTAG
1 AATTACC-GAAATACCCCTGTAGGGTAG
* *
5927060 AATTACCGAAATACCCTTGTCGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
5927087 AATTACTAAAATA-CCCTCATAGGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
** *
5927114 AATTACTAAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5927141 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5927168 AATTATCGAAATACCCCTAG-AGGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
5927195 AATTACCAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
5927222 AATTACCGAAATACCCCTTTATGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
5927249 AATTACAGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
5927275 AATTACC
1 AATTACC
5927282 ATTTTGCCCC
Statistics
Matches: 235, Mismatches: 35, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
26 18 0.08
27 211 0.90
28 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:5927760 original size:22 final size:22
Alignment explanation
Indices: 5927708--5927772 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
5927698 TTAAAGCCTT
* *
5927708 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
5927730 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
5927752 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
5927773 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:5927961 original size:27 final size:27
Alignment explanation
Indices: 5927931--5928032 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
5927921 ATTCTGTTAA
* *
5927931 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
5927958 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
5927985 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
5928012 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
5928033 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:5928200 original size:6 final size:6
Alignment explanation
Indices: 5928169--5928241 Score: 78
Period size: 6 Copynumber: 11.8 Consensus size: 6
5928159 TTGCATTCAC
* *
5928169 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
5928219 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
5928242 CATTTTTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 4 0.07
6 44 0.77
7 6 0.11
8 3 0.05
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:5928200 original size:25 final size:25
Alignment explanation
Indices: 5928172--5928236 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
5928162 CATTCACATT
*
5928172 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
5928197 CTGATTCTGATTCTGTTACCTGATT
1 CTGATTCTGATTCTGTTACCTGATA
5928222 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
5928237 ATTCTCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:5928204 original size:31 final size:30
Alignment explanation
Indices: 5928169--5928241 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 30
5928159 TTGCATTCAC
5928169 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTGATTCTGTTACCTGATACTG
*
5928200 ATTC-----TGATTCTGTTACCTGATTCTG
1 ATTCTGATTTGATTCTGTTACCTGATACTG
5928225 ATTCTGATTCTGATTCT
1 ATTCTGATT-TGATTCT
5928242 CATTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
25 24 0.69
31 11 0.31
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTTGATTCTGTTACCTGATACTG
Found at i:5928253 original size:18 final size:18
Alignment explanation
Indices: 5928163--5928245 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
5928153 TTGGGATTGC
* *
5928163 ATTCACATTCTGATTTTG
1 ATTCTCATTCTGATTCTG
* *
5928181 ATTCT-GTTACCTGATACTG
1 ATTCTCATT--CTGATTCTG
*
5928200 ATTCTGATTCTG-TTACCTG
1 ATTCTCATTCTGATT--CTG
*
5928219 ATTCTGATTCTGATTCTG
1 ATTCTCATTCTGATTCTG
5928237 ATTCTCATT
1 ATTCTCATT
5928246 TTTATTCTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.06
18 18 0.35
19 27 0.52
20 4 0.08
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (18 bp):
ATTCTCATTCTGATTCTG
Found at i:5931461 original size:108 final size:108
Alignment explanation
Indices: 5930249--5931417 Score: 2158
Period size: 108 Copynumber: 10.8 Consensus size: 108
5930239 CCAAATTTCC
* * * * *
5930249 AAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
*
5930314 GGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930357 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930422 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930465 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930530 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930573 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930638 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930681 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930746 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930789 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930854 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5930897 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5930962 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5931005 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5931070 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5931113 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
5931178 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
5931221 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
** * **
5931286 AGTTTGTAAAATTACTAAAATACCCTTTATTTACAAAATTACA
66 AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
* * * ** ** *
5931329 AAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCT
1 AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
*
5931394 AGTTTGTAAAATTACCAAAATACC
66 AGTTTGTAAAATTACTAAAATACC
5931418 TCTCATTTGT
Statistics
Matches: 1041, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 1041 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (108 bp):
AAAATACCCCTGTTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATACCCTT
AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACA
Found at i:5931482 original size:81 final size:81
Alignment explanation
Indices: 5930249--5931492 Score: 411
Period size: 81 Copynumber: 15.4 Consensus size: 81
5930239 CCAAATTTCC
* * * ** *
5930249 AAAATACCCCTG-GTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCC
1 AAAATACCCC-GAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
** *
5930313 TGGTTTGTAAAATTACT
65 TGACTTGTAAAATTATT
* * * ** * ** * *
5930330 AAAATACCCTTG-GTTTATAAAAACACAAAAATACCCCTGTTTTGTAAAATTACCAATATACCCT
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
** ** **
5930394 TGGTTTAAAAAATTACC
65 TGACTTGTAAAATTATT
** * * * ** * ** *
5930411 AAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACAAAAATACCCCT
1 AAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCCT
** **
5930476 GTTTTGTAAAATTACC
66 GACTTGTAAAATTATT
* * * ** * *
5930492 AATATACCCTTG-GTTTAAAAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACTAAAATACCC
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCA-TTTGTAAAATTACCAAAATACCC
* ** * ** **
5930555 TTGGTTTATAAAAACACA
64 CTGACTTGTAAAATTATT
** * * ** **
5930573 AAAATACCCCTG-TTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATA-CCC
1 AAAATACCCC-GAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
* * *
5930636 TTAGTTTGTAAAATTACT
65 TGA-CTTGTAAAATTATT
* * * ** * ** * *
5930654 AAAATACCCTTG-GTTTATAAAAACACAAAAATACCCCTGTTTTGTAAAATTACCAATATACCCT
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
** ** **
5930718 TGGTTTAAAAAATTACC
65 TGACTTGTAAAATTATT
** * * * ** * ** *
5930735 AAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACAAAAATACCCCT
1 AAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCCT
** **
5930800 GTTTTGTAAAATTACC
66 GACTTGTAAAATTATT
* * * ** * *
5930816 AATATACCCTTG-GTTTAAAAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACTAAAATACCC
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCA-TTTGTAAAATTACCAAAATACCC
* ** * ** **
5930879 TTGGTTTATAAAAACACA
64 CTGACTTGTAAAATTATT
** * * ** **
5930897 AAAATACCCCTG-TTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATA-CCC
1 AAAATACCCC-GAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
* * *
5930960 TTAGTTTGTAAAATTACT
65 TGA-CTTGTAAAATTATT
* * * ** * ** * *
5930978 AAAATACCCTTG-GTTTATAAAAACACAAAAATACCCCTGTTTTGTAAAATTACCAATATACCCT
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
** ** **
5931042 TGGTTTAAAAAATTACC
65 TGACTTGTAAAATTATT
** * * * ** * ** *
5931059 AAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAACACAAAAATACCCCT
1 AAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCCT
** **
5931124 GTTTTGTAAAATTACC
66 GACTTGTAAAATTATT
* * * ** * *
5931140 AATATACCCTTG-GTTTAAAAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACTAAAATACCC
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCA-TTTGTAAAATTACCAAAATACCC
* ** * ** **
5931203 TTGGTTTATAAAAACACA
64 CTGACTTGTAAAATTATT
** * * ** **
5931221 AAAATACCCCTG-TTTTGTAAAATTACCAATATACCCTTGGTTTAAAAAATTACCAAAATA-CCC
1 AAAATACCCC-GAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
* * *
5931284 TTAGTTTGTAAAATTACT
65 TGA-CTTGTAAAATTATT
** * ** * **
5931302 AAAATACCCTTTA-TTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCC
1 AAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCC
**
5931366 TGGTTTGTAAAATTATT
65 TGACTTGTAAAATTATT
* * * * **
5931383 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTCATTTGTGAAATTACTGAAATA-CCCT
1 AAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCCT
5931447 CGACTTGTAAAATTATT
66 -GACTTGTAAAATTATT
*
5931464 GAAATACCCTCGA-CTTGTAAAATTACCAA
1 AAAATACCC-CGAGCTTGTAAAATTACCAA
5931493 TGTAACCTTA
Statistics
Matches: 899, Mismatches: 235, Indels: 58
0.75 0.20 0.05
Matches are distributed among these distances:
80 27 0.03
81 848 0.94
82 24 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTACCAAAATACCCCT
GACTTGTAAAATTATT
Found at i:5931489 original size:54 final size:54
Alignment explanation
Indices: 5931266--5931489 Score: 168
Period size: 54 Copynumber: 4.1 Consensus size: 54
5931256 CTTGGTTTAA
* ** * * * * **
5931266 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACC-CTTTATTTAC
1 AAAATTACTAAAATACCCCGAGCTTGTAAAATTACCAAAATACCTC-TCACTTGT
* * * ***
5931320 AAAATTACAAAAATACCCCTG-GTTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCC-GAGCTTGTAAAATTACCAAAATACCTCTCACTTGT
* * * *
5931374 AAAATTATTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTCATTTGT
1 AAAATTACTAAAATACCCCGAGCTTGTAAAATTACCAAAATACCTCTCACTTGT
* * ***
5931428 GAAATTACTGAAATACCCTCGA-CTTGTAAAATTATTGAAATACC-CTCGACTTGT
1 AAAATTACTAAAATACCC-CGAGCTTGTAAAATTACCAAAATACCTCTC-ACTTGT
5931482 AAAATTAC
1 AAAATTAC
5931490 CAATGTAACC
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
53 3 0.02
54 135 0.96
55 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
AAAATTACTAAAATACCCCGAGCTTGTAAAATTACCAAAATACCTCTCACTTGT
Found at i:5931568 original size:27 final size:27
Alignment explanation
Indices: 5931538--5931813 Score: 356
Period size: 27 Copynumber: 10.3 Consensus size: 27
5931528 CGATTTACAA
*
5931538 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5931565 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5931592 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
5931619 AATTATCGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5931646 AATTACCGAAATACCCTTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5931673 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5931700 AATTATCGAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
5931727 AATTATCGCAATACCCTTGTAGGGAAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5931754 AATTACCGAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
5931781 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
5931807 AATTACC
1 AATTACC
5931814 ATTTTGCCCC
Statistics
Matches: 214, Mismatches: 35, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
26 15 0.07
27 199 0.93
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:5932272 original size:22 final size:22
Alignment explanation
Indices: 5932241--5932304 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
5932231 TAAAGCCTTT
* **
5932241 TGATTATGGCTTTGTGTGAACC
1 TGATTATGGCTCTGTGCCAACC
5932263 T-ACTTATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
5932285 TGATTATGGCTCTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
5932305 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:5932493 original size:27 final size:26
Alignment explanation
Indices: 5932463--5932564 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
5932453 ATTCTGTTAA
* * *
5932463 GTGGCTTTGCCACATTATCTGTTTCTT
1 GTGGCTATGCCACAATATCTG-TTCTG
5932490 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
5932517 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * *
5932544 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
5932565 ATAACTGAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:5932558 original size:54 final size:53
Alignment explanation
Indices: 5932463--5932564 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
5932453 ATTCTGTTAA
* * * * * *
5932463 GTGGCTTTGCCACATTATCTGTTTCTTGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCAC-AATATCTGTTCTG
* *
5932517 GTGGCTCTGCCACAATATCTATATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTG
5932565 ATAACTGAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:5932732 original size:6 final size:6
Alignment explanation
Indices: 5932701--5932773 Score: 69
Period size: 6 Copynumber: 11.8 Consensus size: 6
5932691 TTGCATTCAC
* * *
5932701 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
5932750 -TTACCTG ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCT
5932774 CATTTNNNNN
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
5 4 0.07
6 43 0.78
7 5 0.09
8 3 0.05
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:5932736 original size:31 final size:31
Alignment explanation
Indices: 5932701--5932773 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
5932691 TTGCATTCAC
*
5932701 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
5932732 ATTCTGATTCTGATTTTGTTACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
5932763 ATTCTGATTCT
1 ATTCTGATTCT
5932774 CATTTNNNNN
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:5936665 original size:19 final size:19
Alignment explanation
Indices: 5936637--5936675 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
5936627 AGAGCGAAAG
5936637 AAACGAG-AAATGGGCCAA
1 AAACGAGAAAATGGGCCAA
5936655 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAATGGGCCAA
5936675 A
1 A
5936676 GTACGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.54, C:0.15, G:0.26, T:0.05
Consensus pattern (19 bp):
AAACGAGAAAATGGGCCAA
Found at i:5939851 original size:45 final size:44
Alignment explanation
Indices: 5939759--5939893 Score: 207
Period size: 45 Copynumber: 3.0 Consensus size: 44
5939749 TTTTATCAAA
*
5939759 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATAGTATC
1 TCACC-GCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
*
5939805 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGTCCGAATAGTATC
1 TCACC-GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
5939850 TCACCGACATTATTGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCG-CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
5939894 TGTGTGATAT
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
44 1 0.01
45 56 0.67
46 26 0.31
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (44 bp):
TCACCGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:5940746 original size:47 final size:46
Alignment explanation
Indices: 5940695--5940852 Score: 271
Period size: 47 Copynumber: 3.4 Consensus size: 46
5940685 AAAATTTTCT
*
5940695 TTAACTAAGTAACTTATGCGGAAATATTAAGAGCAAATTAAACAAGC
1 TTAACTAAGTAACTTAT-CGGAAATATTAAGAACAAATTAAACAAGC
5940742 TTAACTAAGTAACTTACTCGGAAATATTAAGAACAAATTAAACAAGC
1 TTAACTAAGTAACTTA-TCGGAAATATTAAGAACAAATTAAACAAGC
*
5940789 TTAACTAAGTAACTTATCTCGAAATATTAAGAACAAATTAAACAAGC
1 TTAACTAAGTAACTTATC-GGAAATATTAAGAACAAATTAAACAAGC
5940836 TTAACTAAGTAACTTAT
1 TTAACTAAGTAACTTAT
5940853 AATTTGAGCA
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
46 2 0.02
47 104 0.97
48 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCGGAAATATTAAGAACAAATTAAACAAGC
Found at i:5947157 original size:8 final size:8
Alignment explanation
Indices: 5947144--5947168 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5947134 AAACTAGTCC
5947144 TCACATTT
1 TCACATTT
5947152 TCACATTT
1 TCACATTT
5947160 TCACATTT
1 TCACATTT
5947168 T
1 T
5947169 GACACTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:5948866 original size:42 final size:43
Alignment explanation
Indices: 5948793--5948875 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
5948783 GGCAAAACAC
*
5948793 CGCTATAGAACATGATATTTAGCAGCGCTTTTATTA-AAACGT
1 CGCTATAGAACATGATATTTAGCAGCACTTTTATTACAAACGT
* * *
5948835 CGCTATAGAACATGATTTTTAG-TGTCACTTTTTTTACAAAC
1 CGCTATAGAACATGATATTTAGCAG-CACTTTTATTACAAAC
5948876 AACACAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 30 0.86
43 4 0.11
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (43 bp):
CGCTATAGAACATGATATTTAGCAGCACTTTTATTACAAACGT
Found at i:5949014 original size:43 final size:43
Alignment explanation
Indices: 5948882--5949002 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
5948872 AAACAACACA
* *
5948882 AAAGATCATGTTCTTTAGCGGCGTTTTTAGTAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGTGGCGTTTATAGTAAAAGCGCCGCT
* * * * **
5948925 AAAGATCATGTTCTATAGTGCCGTTTGTAATAAAAGCGTGGCT
1 AAAGATCATGTTCTTTAGTGGCGTTTATAGTAAAAGCGCCGCT
5948968 AAAGATCATGTTCTTTAGTGGCGTTTATAGTAAAA
1 AAAGATCATGTTCTTTAGTGGCGTTTATAGTAAAA
5949003 ATACCACTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGTGGCGTTTATAGTAAAAGCGCCGCT
Found at i:5949401 original size:66 final size:65
Alignment explanation
Indices: 5949317--5949449 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 65
5949307 TTTTGAAATG
* * * *
5949317 GTAGCTGGAGTTCGTCATATTTTCTTGTTG-CCTCTGCTTCCCTCGCTCCTACCTCTGCTTTAAG
1 GTAGCTAGAGTTCATCATATTTTC-T-TTGACCTCTGCTTCCCTCGATCCTACCTCTGCCTTAAG
5949381 TT
64 TT
* *
5949383 GTAGCTAGAGTTCATCATATTTTCTTTGAACCTCTGCTTCTCTCGATGCTACCTCTGCCTTAAGT
1 GTAGCTAGAGTTCATCATATTTTCTTTG-ACCTCTGCTTCCCTCGATCCTACCTCTGCCTTAAGT
5949448 T
65 T
5949449 G
1 G
5949450 AGCAATTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 3 0.05
65 1 0.02
66 55 0.93
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.41
Consensus pattern (65 bp):
GTAGCTAGAGTTCATCATATTTTCTTTGACCTCTGCTTCCCTCGATCCTACCTCTGCCTTAAGTT
Found at i:5951863 original size:18 final size:19
Alignment explanation
Indices: 5951840--5951883 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
5951830 TGTGGGTAGG
5951840 CCGTGTGG-TT-ACACACGC
1 CCGTGTGGCTTGA-ACACGC
5951858 CCGTGTGGCTTGGAACACGC
1 CCGTGTGGCTT-GAACACGC
5951878 CCGTGT
1 CCGTGT
5951884 CCTCAACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 12 0.52
21 1 0.04
ACGTcount: A:0.14, C:0.32, G:0.32, T:0.23
Consensus pattern (19 bp):
CCGTGTGGCTTGAACACGC
Found at i:5956308 original size:47 final size:47
Alignment explanation
Indices: 5956249--5956340 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
5956239 GTTGTCGAAT
* *
5956249 AGTCGACCCGATACGTCAATCCGTAATACGAGGTAAGTTCATATGCA
1 AGTCAACCCGATACGTCAATCCATAATACGAGGTAAGTTCATATGCA
5956296 AGTCAACCCGATACGTCAATCCATAATACGAGGTAAGTTCATATG
1 AGTCAACCCGATACGTCAATCCATAATACGAGGTAAGTTCATATG
5956341 AAAATAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (47 bp):
AGTCAACCCGATACGTCAATCCATAATACGAGGTAAGTTCATATGCA
Found at i:5956572 original size:43 final size:43
Alignment explanation
Indices: 5956510--5956676 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
5956500 GGTTATCGAG
*
5956510 ATGTGATTACATGTAAGACCTTGTCTGGGATATTGGCAT-TTT
1 ATGTGATTACATGTAAGACCTTGTCTGGGACATTGGCATCTTT
* * *
5956552 ACTGTGATTACGTGTAAGACCATT-TTTGGGACATTGGCATCATT
1 A-TGTGATTACATGTAAGACC-TTGTCTGGGACATTGGCATCTTT
* * * * * * **
5956596 ATTTTATTTA-GTGTAAGACCCTGTTTGGGACAGTGGCATCGAT
1 ATGTGA-TTACATGTAAGACCTTGTCTGGGACATTGGCATCTTT
* * * *
5956639 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCTTGTCTGGGACATTGGCAT
5956677 TGTACGAGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 10 0.10
43 83 0.82
44 8 0.08
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCTTGTCTGGGACATTGGCATCTTT
Found at i:5975244 original size:48 final size:48
Alignment explanation
Indices: 5975178--5975333 Score: 137
Period size: 48 Copynumber: 3.5 Consensus size: 48
5975168 GCGGAAATTG
* *
5975178 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
* *
5975226 ATGTATGAGATAAGTATATGTGGTAATG-TGAA---AT-ATGT---AT
1 ATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
*
5975266 GA-G-AT-ATG-T-A-TA--TGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 -ATGTATGA-GATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
5975308 ATGTATGAGATAAGTATATGTGGTAA
1 ATGTATGAGATAAGTATATGTGGTAA
5975334 TGTGAAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 36
0.66 0.06 0.29
Matches are distributed among these distances:
34 9 0.11
35 3 0.04
36 2 0.02
37 1 0.01
38 3 0.04
39 7 0.08
40 3 0.04
41 2 0.02
42 3 0.04
43 7 0.08
44 3 0.04
45 1 0.01
46 2 0.02
47 3 0.04
48 34 0.41
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (48 bp):
ATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
Found at i:5975256 original size:34 final size:34
Alignment explanation
Indices: 5975215--5975285 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
5975205 GCCGAATGGC
5975215 TAATGTGAAATATGTATGAGATAAGTATATGTGG
1 TAATGTGAAATATGTATGAGATAAGTATATGTGG
*
5975249 TAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAATGTGAAATATGTATGAGATAAGTATATGTGG
5975283 TAA
1 TAA
5975286 AGCCGAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.37
Consensus pattern (34 bp):
TAATGTGAAATATGTATGAGATAAGTATATGTGG
Found at i:5975338 original size:34 final size:34
Alignment explanation
Indices: 5975297--5975367 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
5975287 GCCGAATGGC
5975297 TAATGTGAAATATGTATGAGATAAGTATATGTGG
1 TAATGTGAAATATGTATGAGATAAGTATATGTGG
*
5975331 TAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAATGTGAAATATGTATGAGATAAGTATATGTGG
5975365 TAA
1 TAA
5975368 AGCCGAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.37
Consensus pattern (34 bp):
TAATGTGAAATATGTATGAGATAAGTATATGTGG
Found at i:5975412 original size:36 final size:36
Alignment explanation
Indices: 5975369--5975440 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5975359 ATGTGGTAAA
5975369 GCCGAATGGCTAATGTGAAATATGTATGAGATAAGT
1 GCCGAATGGCTAATGTGAAATATGTATGAGATAAGT
5975405 GCCGAATGGCTAATGTGAAATATGTATGAGATAAGT
1 GCCGAATGGCTAATGTGAAATATGTATGAGATAAGT
5975441 ATATGTGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (36 bp):
GCCGAATGGCTAATGTGAAATATGTATGAGATAAGT
Found at i:5975464 original size:48 final size:48
Alignment explanation
Indices: 5975408--5976294 Score: 1641
Period size: 48 Copynumber: 18.5 Consensus size: 48
5975398 GATAAGTGCC
*
5975408 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGCAAAG-T
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975455 CGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 -GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
*
5975504 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
*
5975552 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975600 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975648 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975696 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
* * * * *
5975744 GAATGGTTAATGTGCAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
*
5975792 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975840 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975888 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975936 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5975984 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5976032 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5976080 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
5976128 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
*
5976176 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
* *
5976224 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
*
5976272 GAATGGCTAGTGTGAAATATGTA
1 GAATGGCTAATGTGAAATATGTA
5976295 GGCGATGTGT
Statistics
Matches: 820, Mismatches: 18, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
48 819 1.00
49 1 0.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (48 bp):
GAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCT
Found at i:5975472 original size:84 final size:82
Alignment explanation
Indices: 5975178--5976267 Score: 762
Period size: 96 Copynumber: 11.9 Consensus size: 82
5975168 GCGGAAATTG
5975178 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
5975243 ATGTGGTAATGTGAAAT
66 ATGTGGTAATGTGAAAT
5975260 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
5975325 ATGTGGTAATGTGAAAT
66 ATGTGGTAATGTGAAAT
5975342 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTGC
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGT--
*
5975407 CGA-ATG-GCTAATGTGAAAT
64 --ATATGTGGTAATGTGAAAT
* * *
5975426 ATGTATGAGATAAGTATATGTGGCAAAGTCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
*
5975491 ATGTGGTAAAGCTGAATGGCTAAT
66 ATGTGGT-AA--TG--T-G-AAAT
* *
5975515 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
* *
5975580 TATGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* * *
5975611 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5975676 TAAGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* * * * * *
5975707 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGTTAATGTGCAATATATATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
* * *
5975772 TATGTATATGTGGTAAAGCCGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* *
5975803 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA--T--GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5975868 TAAGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* * *
5975899 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5975964 TAAGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* * *
5975995 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5976060 TAAGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* * *
5976091 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5976156 TAAGTATATGTGGTAAAGCTGAATGGCTAAT
59 TAAGTATATGTGGT-AA--TG--T-G-AAAT
* *
5976187 GTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 ATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
5976252 TATGTATATGTGGTAA
59 TAAGTATATGTGGTAA
5976268 AGCCGAATGG
Statistics
Matches: 956, Mismatches: 28, Indels: 35
0.94 0.03 0.03
Matches are distributed among these distances:
80 1 0.00
81 3 0.00
82 147 0.15
83 2 0.00
84 72 0.08
85 5 0.01
86 1 0.00
87 1 0.00
88 1 0.00
89 5 0.01
92 2 0.00
94 2 0.00
95 2 0.00
96 710 0.74
98 2 0.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32
Consensus pattern (82 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAAGTAT
ATGTGGTAATGTGAAAT
Found at i:5976492 original size:37 final size:37
Alignment explanation
Indices: 5976442--5976512 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
5976432 GAAATATATT
* *
5976442 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGA
1 CCGGGTAAGACCCGATAACTACGTATGGAGATTTTGA
*
5976479 CCGGGTAAGACCCGATAACTTCGTATGGAGATTT
1 CCGGGTAAGACCCGATAACTACGTATGGAGATTT
5976513 CATCTGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
CCGGGTAAGACCCGATAACTACGTATGGAGATTTTGA
Found at i:5988398 original size:43 final size:42
Alignment explanation
Indices: 5988325--5988437 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
5988315 TATCGAGATA
* *
5988325 TGATTACATGTAAGACCATGTTTGGAACATTGCCAT-TGTATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGCCATAT-TATT
* * *
5988367 GTGATTGCATGTAAGACAATGTCTGGGACATTGGCATCATTATT
1 -TGATTACATGTAAGACCATGTCTGGGACATTGCCAT-ATTATT
* *
5988411 TGATTTCATGTAAGACCCTGTCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
5988438 TAGTGGCATT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 55 0.92
44 4 0.07
45 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGCCATATTATT
Found at i:5988445 original size:43 final size:44
Alignment explanation
Indices: 5988363--5988446 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
5988353 ATTGCCATTG
*
5988363 TATTGTGATTGCATGTAAGACAATGTCTGGGACATTGGCATCAT
1 TATTGTGATTGCATGTAAGACAATGTCTGGGACAGTGGCATCAT
* ** *
5988407 TATT-TGATTTCATGTAAGACCCTGTCTGGGATAGTGGCAT
1 TATTGTGATTGCATGTAAGACAATGTCTGGGACAGTGGCAT
5988447 TGATATGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (44 bp):
TATTGTGATTGCATGTAAGACAATGTCTGGGACAGTGGCATCAT
Found at i:5991843 original size:27 final size:26
Alignment explanation
Indices: 5991807--5991863 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
5991797 TATATATATT
*
5991807 TCTGTTCTGGTGGCCTAGCCACAATA
1 TCTGTTCTGGTGACCTAGCCACAATA
* * *
5991833 TCTGTATCTGGTGACTTCGTCACAATA
1 TCTGT-TCTGGTGACCTAGCCACAATA
5991860 TCTG
1 TCTG
5991864 GCAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGTTCTGGTGACCTAGCCACAATA
Found at i:5998356 original size:40 final size:40
Alignment explanation
Indices: 5998282--5998453 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
5998272 GATAACCAAA
* * * *
5998282 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCAGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * *
5998322 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
* *
5998362 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCTGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
5998402 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
5998441 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
5998454 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 95 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:6002232 original size:30 final size:31
Alignment explanation
Indices: 6002193--6002289 Score: 119
Period size: 30 Copynumber: 3.1 Consensus size: 31
6002183 TTGCAAATTT
6002193 TACGGGATAAGCAGTTATATGCTAAGTTCAG
1 TACGGGATAAGCAGTTATATGCTAAGTTCAG
*
6002224 TA-GGGATAAGCAGTTATATGCT--GTTGCAAATTT
1 TACGGGATAAGCAGTTATATGCTAAGTT-C--A--G
6002257 TACGGGATAAGCAGTTATATGCTAAGTTCAG
1 TACGGGATAAGCAGTTATATGCTAAGTTCAG
6002288 TA
1 TA
6002290 AGTGTGAGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
28 3 0.05
29 1 0.02
30 20 0.36
31 5 0.09
33 3 0.05
34 20 0.36
35 1 0.02
36 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (31 bp):
TACGGGATAAGCAGTTATATGCTAAGTTCAG
Found at i:6002269 original size:34 final size:34
Alignment explanation
Indices: 6002181--6002279 Score: 129
Period size: 34 Copynumber: 3.0 Consensus size: 34
6002171 CTGGGACTAG
6002181 TGTTGCAAATTTTACGGGATAAGCAGTTATATGC
1 TGTTGCAAATTTTACGGGATAAGCAGTTATATGC
*
6002215 TAAGTT-C--A--GTA-GGGATAAGCAGTTATATGC
1 T--GTTGCAAATTTTACGGGATAAGCAGTTATATGC
6002245 TGTTGCAAATTTTACGGGATAAGCAGTTATATGC
1 TGTTGCAAATTTTACGGGATAAGCAGTTATATGC
6002279 T
1 T
6002280 AAGTTCAGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
28 3 0.05
29 1 0.02
30 20 0.36
31 3 0.05
33 3 0.05
34 21 0.38
35 1 0.02
36 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (34 bp):
TGTTGCAAATTTTACGGGATAAGCAGTTATATGC
Found at i:6006489 original size:40 final size:40
Alignment explanation
Indices: 6006422--6006546 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
6006412 AAACTAAGAT
** * *
6006422 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
* *
6006462 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTTG-TTATATCCGGGCTAAGTC
* *
6006502 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
6006541 CCGAAG
1 CCGAAG
6006547 ATACTTGGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.21
40 56 0.77
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:6006814 original size:22 final size:22
Alignment explanation
Indices: 6006774--6006815 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6006764 GAATGTGCAT
*
6006774 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
6006796 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
6006816 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:6014780 original size:38 final size:40
Alignment explanation
Indices: 6014737--6015040 Score: 202
Period size: 38 Copynumber: 7.0 Consensus size: 40
6014727 TTTCAAATTA
*
6014737 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T-T
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAT
*
6014775 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT-AT
*
6014816 GAATCAATATATGTAACCGTGGTATATCCACTTAGCACCACGTTGCATGT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT--A--T
* * *
6014866 ATCAATATGTGTAATCATGGTATATCCACTTAGCACCACG-T-T
1 A-C---ATGTATAACCGTGGTATATCCACTTAGCACCACGTTAT
*
6014908 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT-AT
* * *
6014949 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT--A--T
* *
6014999 ATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 A-C---ATGTATAACCGTGGTATATCCACTTAGCACCACGTT
6015041 TTTCCATTCC
Statistics
Matches: 213, Mismatches: 25, Indels: 46
0.75 0.09 0.16
Matches are distributed among these distances:
38 64 0.30
39 2 0.01
41 3 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 6 0.03
47 61 0.29
48 63 0.30
50 8 0.04
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (40 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTTAT
Found at i:6014843 original size:85 final size:88
Alignment explanation
Indices: 6014744--6015038 Score: 272
Period size: 95 Copynumber: 3.3 Consensus size: 88
6014734 TTAACATGTA
* *
6014744 TAACCGTGGCATATCCACTTAGCACCACG-T-TA-C-ATGTTTAACCGTGGTATATCCACTTAGC
1 TAACCGTGGTATATCCACTTAGCACCACGATATATCAATGTTTAACCATGGTATATCCACTTAGC
6014805 ACCACGTTAATGAATCAATATATG
66 ACCACGTTAATG-ATCAATATATG
* * *
6014829 TAACCGTGGTATATCCACTTAGCACCACGTTGCATGTATCAATATGTGTAATCATGGTATATCCA
1 TAACCGTGGTATATCCACTTAGCACCAC---G-ATATATC-A-ATGTTTAACCATGGTATATCCA
**
6014894 CTTAGCACCACG-T--T-A-C-ACGTA--
60 CTTAGCACCACGTTAATGATCAATATATG
* * *
6014915 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
1 TAACCGTGGTATATCCACTTAGCACCACGAT-AT--ATCAATGT-T-TAACCATGGTATATCCAC
*
6014980 TTAGCACCACGTTACATGTATCAATATGTG
61 TTAGCACCACGTTA-ATG-ATCAATATATG
*
6015010 TAATCGTGGTATATCCACTTAGCACCACG
1 TAACCGTGGTATATCCACTTAGCACCACG
6015039 TTTTTCCATT
Statistics
Matches: 169, Mismatches: 16, Indels: 40
0.75 0.07 0.18
Matches are distributed among these distances:
82 1 0.01
83 5 0.03
84 1 0.01
85 57 0.34
86 29 0.17
88 4 0.02
89 2 0.01
90 2 0.01
91 3 0.02
92 3 0.02
93 2 0.01
94 1 0.01
95 59 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (88 bp):
TAACCGTGGTATATCCACTTAGCACCACGATATATCAATGTTTAACCATGGTATATCCACTTAGC
ACCACGTTAATGATCAATATATG
Found at i:6014889 original size:48 final size:47
Alignment explanation
Indices: 6014777--6015040 Score: 330
Period size: 48 Copynumber: 5.8 Consensus size: 47
6014767 ACCACGTTAC
* *
6014777 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAAT
* *
6014824 ATATGTAACCGTGGTATATCCACTTAGCACCACGTTGCATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTT-AATGTATCAAT
* *
6014872 ATGTGTAATCATGGTATATCCACTTAGCACCACG----T-TA-C---
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAAT
* * *
6014910 ACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAAT
* * *
6014957 ATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGTATCAAT
*
6015005 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTT
6015041 TTTCCATTCC
Statistics
Matches: 184, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
38 30 0.16
41 1 0.01
42 3 0.02
43 2 0.01
44 1 0.01
47 66 0.36
48 81 0.44
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAAT
Found at i:6014919 original size:133 final size:133
Alignment explanation
Indices: 6014754--6015040 Score: 520
Period size: 133 Copynumber: 2.2 Consensus size: 133
6014744 TAACCGTGGC
* *
6014754 ATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
1 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
* * *
6014819 TCAATATATGTAACCGTGGTATATCCACTTAGCACCACGTTGCATGTATCAATATGTGTAATCAT
66 TCAATATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
6014884 GGT
131 GGT
6014887 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
1 ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
*
6014952 TCAATATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGT
66 TCAATATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
6015017 GGT
131 GGT
6015020 ATATCCACTTAGCACCACGTT
1 ATATCCACTTAGCACCACGTT
6015041 TTTCCATTCC
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (133 bp):
ATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAA
TCAATATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCAT
GGT
Found at i:6022945 original size:43 final size:43
Alignment explanation
Indices: 6022879--6022978 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
6022869 TTCAACGAAC
* *
6022879 TCGCACACTTAGTGCCAATTAATTAGTCGAAGCTATAATCATA
1 TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATCATA
* **
6022922 TCGCAAACTTAGTGCCAAATAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATCATA
6022965 TCGCACACTTAGTG
1 TCGCACACTTAGTG
6022979 TCATTTACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATCATA
Found at i:6025986 original size:40 final size:40
Alignment explanation
Indices: 6025894--6026036 Score: 162
Period size: 40 Copynumber: 3.5 Consensus size: 40
6025884 CTCGAATGAT
* *
6025894 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAA
* **
6025935 ATCCGGACTAAGAT-CCGAACACATTTGTGCTAGCGACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAA
* * * *
6025975 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
* *
6026015 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
6026037 CTTGTGCGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.69
41 25 0.29
42 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:6035687 original size:47 final size:47
Alignment explanation
Indices: 6035609--6035918 Score: 431
Period size: 47 Copynumber: 6.6 Consensus size: 47
6035599 CCCTTCGGGA
* * * * *
6035609 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
6035656 CGTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
6035703 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
6035750 CTTATCACATATATACACTTTCACATTCATCGCATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
6035797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
6035844 CTTATCATATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
6035893 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
6035919 CACAATTATC
Statistics
Matches: 234, Mismatches: 27, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 190 0.81
49 44 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:6035828 original size:25 final size:25
Alignment explanation
Indices: 6035753--6035831 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
6035743 ATTAGGCCTT
6035753 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* ** * *
6035778 ATCGCAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATACACTTTCA-CATTC
6035800 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
6035825 ATCACAT
1 ATCACAT
6035832 CGGCCATTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:6039288 original size:40 final size:40
Alignment explanation
Indices: 6039240--6039603 Score: 514
Period size: 40 Copynumber: 9.1 Consensus size: 40
6039230 GCCCGAATAC
* * * *
6039240 ACATCACCATCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * * * ** *
6039280 ATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * ** *
6039320 ATATCACTAGCACGAATGCTCTTTAGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
6039360 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
6039400 ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
6039440 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
6039480 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCCGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
6039520 ACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
6039560 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
6039600 -CATC
1 ACATC
6039604 GTCGAGACCT
Statistics
Matches: 289, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
39 4 0.01
40 285 0.99
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:6039726 original size:38 final size:38
Alignment explanation
Indices: 6039657--6039731 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
6039647 GAATTTTAAT
*
6039657 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
6039695 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
6039732 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:6041548 original size:31 final size:32
Alignment explanation
Indices: 6041508--6041569 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
6041498 AAAATCACTA
6041508 AAAATAGTAGGAATAGAATTAAATAGTGAATC
1 AAAATAGTAGGAATAGAATTAAATAGTGAATC
*
6041540 AAAA-AGTAGGAATGGAATTAAATAGTGAAT
1 AAAATAGTAGGAATAGAATTAAATAGTGAAT
6041570 AAATTATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.24
Consensus pattern (32 bp):
AAAATAGTAGGAATAGAATTAAATAGTGAATC
Found at i:6044898 original size:40 final size:40
Alignment explanation
Indices: 6044839--6046124 Score: 2126
Period size: 40 Copynumber: 32.1 Consensus size: 40
6044829 CCGAATACAC
* * *
6044839 ATCACCAGCATGAATGCTCTTCGGGACTTAGCCCTG-ATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCC-GAATAT
* * * * * *
6044879 AACTCCAGCACGTATGCTCTTCAGGACTTAGCCCTG-ATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCC-GAATAT
* * * * * *
6044919 AACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* * * * *
6044959 AACTCTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* * * * * *
6044999 AACACCAGCACGTATGCTCTTCGGGACTTAACCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* * * *
6045039 ATCACTAGCGCGAATGCTCTTCGGGACTTAGCTCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* *
6045079 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* *
6045119 ATCACTAGCACGAATGCTCCTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* *
6045159 ATCACTAGCACGAATGCTCCTCGGGACTTAGCTCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* * *
6045199 ATCACTAGTACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* *
6045239 ATCACTAGCACGAATGCTCCTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045279 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045319 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045359 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045399 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045439 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045479 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045519 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045559 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045599 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045639 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045679 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045719 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045759 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045799 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045839 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045879 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045919 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045959 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6045999 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* *
6046039 ATCACTAGCACGAATGCTCCTCGGGACTTAGCTCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
* * *
6046079 ATCACTAGTACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
6046119 ATCACT
1 ATCACT
6046125 CTCAATTCTC
Statistics
Matches: 1206, Mismatches: 39, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
39 1 0.00
40 1205 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGAATAT
Found at i:6047655 original size:47 final size:47
Alignment explanation
Indices: 6047577--6047985 Score: 732
Period size: 47 Copynumber: 8.7 Consensus size: 47
6047567 CCCTTCGGGA
* * * * * *
6047577 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6047624 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047671 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047718 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047765 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047951 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
6047986 AGAATCCTAA
Statistics
Matches: 350, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
45 45 0.13
47 305 0.87
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6047774 original size:22 final size:22
Alignment explanation
Indices: 6047746--6047819 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
6047736 TTTCACATTC
6047746 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
6047768 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
6047790 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
6047813 ATCACAT
1 ATCACAT
6047820 ATATACACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:6047902 original size:186 final size:186
Alignment explanation
Indices: 6047577--6047985 Score: 719
Period size: 186 Copynumber: 2.2 Consensus size: 186
6047567 CCCTTCGGGA
* * * * *
6047577 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
6047642 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
6047707 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6047765 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
6047830 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
6047895 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6047951 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATACACTTTCACATTCATCACAT
6047986 AGAATCCTAA
Statistics
Matches: 212, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
186 178 0.84
188 34 0.16
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (186 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6049455 original size:65 final size:66
Alignment explanation
Indices: 6049373--6049499 Score: 238
Period size: 65 Copynumber: 1.9 Consensus size: 66
6049363 ATAGTTTGGC
*
6049373 TAATTTGACATGCAAGTACAAGCACTTTCCAACATATATT-ATAGGCCACTTTAGCATTTGCTTA
1 TAATTTGACATGCAAGTACAAACACTTTCCAACATATATTAATAGGCCACTTTAGCATTTGCTTA
6049437 G
66 G
6049438 TAATTTGACATGCAAGTACAAACACTTTCCAACATATATTAATAGGCCACTTTAGCATTTGC
1 TAATTTGACATGCAAGTACAAACACTTTCCAACATATATTAATAGGCCACTTTAGCATTTGC
6049500 CTAGCACATT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 39 0.65
66 21 0.35
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (66 bp):
TAATTTGACATGCAAGTACAAACACTTTCCAACATATATTAATAGGCCACTTTAGCATTTGCTTA
G
Found at i:6049643 original size:52 final size:52
Alignment explanation
Indices: 6049565--6049721 Score: 314
Period size: 52 Copynumber: 3.0 Consensus size: 52
6049555 ATGATAAAAT
6049565 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
1 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
6049617 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
1 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
6049669 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
1 TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
6049721 T
1 T
6049722 GACTGTTAAT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 105 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (52 bp):
TAAAGTATGAAACTTCCACACATTCATATTCACATATAATAAGCATCGAATA
Found at i:6051807 original size:46 final size:46
Alignment explanation
Indices: 6051700--6051869 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
6051690 GCATATCTGT
* *
6051700 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTT-GTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGT-TTCG-A
* *
6051746 GCTGATG-CATATCCCAGACAT-GTCTTACACTGGCTTACGTTTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACGTTTCGA
* * * *
6051791 GGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTATCAAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--CGTTTC-GA
6051838 GCCGATGCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
6051870 AAGGTCCCAT
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 52 0.50
47 14 0.13
48 9 0.09
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTTTCGA
Found at i:6055118 original size:15 final size:15
Alignment explanation
Indices: 6055098--6055137 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
6055088 TTTTAGAATT
6055098 AGTTTTCTTTGTGCA
1 AGTTTTCTTTGTGCA
*
6055113 AGTTTTCTTGGTGCA
1 AGTTTTCTTTGTGCA
*
6055128 AGATTTCTTT
1 AGTTTTCTTT
6055138 CTTGAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (15 bp):
AGTTTTCTTTGTGCA
Found at i:6056746 original size:49 final size:49
Alignment explanation
Indices: 6056693--6056924 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
6056683 TTGGTACGCA
* *
6056693 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
6056742 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
6056792 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
6056843 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
6056892 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
6056925 TCACAATAGA
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:6056921 original size:100 final size:99
Alignment explanation
Indices: 6056693--6056924 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 99
6056683 TTGGTACGCA
* * **
6056693 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
6056758 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* * *
6056792 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * *
6056857 TAGTACTACACATGCGACC-AATAATCCGGTACACG
64 TAGTACTACACACGCGACCTAACAATCCGATACACG
6056892 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
6056925 TCACAATAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.26
100 46 0.39
101 41 0.35
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:6066781 original size:46 final size:46
Alignment explanation
Indices: 6066674--6066843 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
6066664 GCATATCTGT
* *
6066674 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTT-GTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGT-TTCG-A
* *
6066720 GCTGATG-CATATCCCAGACAT-GTCTTACACTGGCTTACGTTTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACGTTTCGA
* * * *
6066765 GGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTATCAAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--CGTTTC-GA
6066812 GCCGATGCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
6066844 AAGGTCCCAT
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 52 0.50
47 14 0.13
48 9 0.09
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTTTCGA
Found at i:6070092 original size:15 final size:15
Alignment explanation
Indices: 6070072--6070111 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
6070062 TTTTAGAATT
6070072 AGTTTTCTTTGTGCA
1 AGTTTTCTTTGTGCA
*
6070087 AGTTTTCTTGGTGCA
1 AGTTTTCTTTGTGCA
*
6070102 AGATTTCTTT
1 AGTTTTCTTT
6070112 CTTGAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (15 bp):
AGTTTTCTTTGTGCA
Found at i:6073777 original size:93 final size:93
Alignment explanation
Indices: 6073664--6073834 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
6073654 GCCCATAAGC
* * *
6073664 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
6073729 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* * *
6073757 GAACTAGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
6073822 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6073835 TTAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTAGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:6073850 original size:46 final size:47
Alignment explanation
Indices: 6073656--6073831 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
6073646 TGTAACCCGC
* * *
6073656 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
6073702 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * *
6073752 -C-TCA-TGAACTAGGACTCAACTCAACGAGTTTGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
6073795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6073832 TGCTTAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 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 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:6076955 original size:49 final size:49
Alignment explanation
Indices: 6076713--6077022 Score: 180
Period size: 48 Copynumber: 6.5 Consensus size: 49
6076703 TATGTGTGGT
* * * * **
6076713 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTTGAGATATTTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * * **
6076761 AGTGTAAGACATGTTTAGGACAT-GCATCGGCATTG--AGA-CAAGAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA-AGCC
* * * ** * *
6076807 AGTGTAAGACATATCTGGGTCAT-GCATCGACCTCGCGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * *
6076855 AGTGTAAGACCTATCTAGGACATGGCGTC-AGCTTG-TAG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
6076899 AGTGTAAGACCTGGT-TGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCT-GTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * *
6076948 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
6076997 AGTGTAAGACCATGTCTGGGACATGG
1 AGTGTAAGACC-TGTCTGGGACATGG
6077023 TGTTGGCATT
Statistics
Matches: 205, Mismatches: 40, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
44 25 0.12
45 4 0.02
46 37 0.18
47 3 0.01
48 64 0.31
49 58 0.28
50 14 0.07
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:6082522 original size:33 final size:32
Alignment explanation
Indices: 6082471--6082534 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
6082461 ACGAAGTCTC
* *
6082471 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
6082503 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
6082535 TTGTAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:6089249 original size:16 final size:16
Alignment explanation
Indices: 6089225--6089272 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
6089215 TTTTGTTAAG
*
6089225 TAATTTTTAGTGATTT
1 TAATGTTTAGTGATTT
6089241 TAATGTTTAGAT-ATTT
1 TAATGTTTAG-TGATTT
*
6089257 TAATGTTTAGGGATTT
1 TAATGTTTAGTGATTT
6089273 ATTTGTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (16 bp):
TAATGTTTAGTGATTT
Found at i:6092607 original size:38 final size:37
Alignment explanation
Indices: 6092534--6092612 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
6092524 TATTACGAAA
* *
6092534 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
6092571 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
6092609 TCTT
1 TCTT
6092613 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:6092916 original size:48 final size:47
Alignment explanation
Indices: 6092731--6093311 Score: 919
Period size: 48 Copynumber: 12.2 Consensus size: 47
6092721 CCCTTCGGGA
* * * * * * * *
6092731 CTTATCACATTTATGCACTCTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
6092778 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6092825 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6092874 CTTATCACATATATACACTTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
*
6092922 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6092969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6093016 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6093064 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6093112 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6093160 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6093208 CCTATTCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6093256 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6093303 CTTATCACA
1 CTTATCACA
6093312 ATTTAGAATT
Statistics
Matches: 510, Mismatches: 20, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 180 0.35
48 283 0.55
49 47 0.09
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6102594 original size:21 final size:20
Alignment explanation
Indices: 6102560--6102598 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6102550 TAGTATTTTG
6102560 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
* *
6102581 ATGTTTGATTATAGTTAT
1 ATGTTTAATGATAGTTAT
6102599 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:6124501 original size:40 final size:40
Alignment explanation
Indices: 6124456--6124659 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 40
6124446 AACTTTTGAA
* * * * *
6124456 TGAATGTACATAAGTGCGCATGTTTGTACTTCGGTACTCT
1 TGAATGCACATAAGTGCCCATATTTGTACTTCGGTACCCC
* * *
6124496 TGAATGCACATACA-TGCCCCTATTTCTACTTCAGTACCCC
1 TGAATGCACATA-AGTGCCCATATTTGTACTTCGGTACCCC
* * *
6124536 TGAATGCACATAAGTTCCCATGTTTGTACTTCGGTACCCT
1 TGAATGCACATAAGTGCCCATATTTGTACTTCGGTACCCC
* * *
6124576 TGAATACACAAAAGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATAAGTGCCCATATTTGTACTTCGGTACCCC
** * * * * *
6124616 TGAATGCATTTACGTGCCC-TATTTATACTCCGGTAACTC
1 TGAATGCACATAAGTGCCCATATTTGTACTTCGGTACCCC
6124655 TGAAT
1 TGAAT
6124660 TATATATTAT
Statistics
Matches: 133, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 22 0.17
40 110 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (40 bp):
TGAATGCACATAAGTGCCCATATTTGTACTTCGGTACCCC
Found at i:6124594 original size:80 final size:80
Alignment explanation
Indices: 6124456--6124623 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 80
6124446 AACTTTTGAA
* * * * *
6124456 TGAATGTACATAAGTGCGCATGTTTGTACTTCGGTACTCTTGAATGCACATACATGCCCCTATTT
1 TGAATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAATGCCCCTATTT
6124521 CTACTTCAGTACCCC
66 CTACTTCAGTACCCC
*
6124536 TGAATGCACATAAGTTCCCATGTTTGTACTTCGGTACCCTTGAATACACA-AAAGTGCCCCTATT
1 TGAATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAA-TGCCCCTATT
* *
6124600 TGTACTTCGGTACCCC
65 TCTACTTCAGTACCCC
6124616 TGAATGCA
1 TGAATGCA
6124624 TTTACGTGCC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 2 0.03
80 77 0.97
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (80 bp):
TGAATGCACATAAGTGCCCATGTTTGTACTTCGGTACCCTTGAATACACATAAATGCCCCTATTT
CTACTTCAGTACCCC
Found at i:6125058 original size:22 final size:24
Alignment explanation
Indices: 6125011--6125058 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
6125001 TTTTGGTCAC
*
6125011 TTTTGGTAATTGATGTGTATGTCT
1 TTTTGGTAATTGATGTGTATGGCT
6125035 TTTTGGT-A-TGATGATGT-TGGCT
1 TTTTGGTAATTGATG-TGTATGGCT
6125057 TT
1 TT
6125059 GAAATGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.15, C:0.04, G:0.27, T:0.54
Consensus pattern (24 bp):
TTTTGGTAATTGATGTGTATGGCT
Found at i:6136250 original size:18 final size:17
Alignment explanation
Indices: 6136227--6136272 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
6136217 TATTGCTTTT
*
6136227 AAAAAATATTTTTGGGA
1 AAAAAATATTTTTGAGA
*
6136244 CAAAAAACATTTTTGAGA
1 -AAAAAATATTTTTGAGA
*
6136262 TAAAAATATTT
1 AAAAAATATTT
6136273 CTAAATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (17 bp):
AAAAAATATTTTTGAGA
Found at i:6137481 original size:21 final size:20
Alignment explanation
Indices: 6137430--6137481 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
6137420 ATATCCTTTC
* *
6137430 ATTTTATAACATTTTTATAT
1 ATTTTAAAATATTTTTATAT
**
6137450 ATTAAATAAATATTTTTATAT
1 ATTTTA-AAATATTTTTATAT
6137471 ATTTTTAAAAT
1 A-TTTTAAAAT
6137482 TATTATAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAAAATATTTTTATAT
Found at i:6137812 original size:13 final size:13
Alignment explanation
Indices: 6137796--6137826 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6137786 TCTATAACAA
6137796 AAAATAATAATTT
1 AAAATAATAATTT
*
6137809 AAAATAATGATTT
1 AAAATAATAATTT
6137822 AAAAT
1 AAAAT
6137827 TACAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATAATAATTT
Found at i:6139557 original size:2 final size:2
Alignment explanation
Indices: 6139550--6139579 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6139540 AATAAGGCCT
6139550 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6139580 ATGTTGGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6145602 original size:20 final size:20
Alignment explanation
Indices: 6145574--6145620 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
6145564 GTTCGCTTCT
*
6145574 CCCACGCCCGTGTATGTAAA
1 CCCACGCCCGCGTATGTAAA
*
6145594 CCCATGCCCGCGTATGTAAA
1 CCCACGCCCGCGTATGTAAA
*
6145614 CCTACGC
1 CCCACGC
6145621 TCGTGCCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (20 bp):
CCCACGCCCGCGTATGTAAA
Found at i:6153976 original size:40 final size:40
Alignment explanation
Indices: 6153931--6154131 Score: 246
Period size: 40 Copynumber: 5.0 Consensus size: 40
6153921 GATTTAACCA
* * * *
6153931 GATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
6153971 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
6154011 GA-ACTAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
6154051 GATATGGTAACTCGCACAAATGCCTTCTGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * ** *
6154091 GA-ACTAGTCACTAGTGCAAATGCCTTCGGGACTTAGTCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
6154131 G
1 G
6154132 TTATCATCCA
Statistics
Matches: 142, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:6154073 original size:80 final size:80
Alignment explanation
Indices: 6153953--6154131 Score: 277
Period size: 80 Copynumber: 2.2 Consensus size: 80
6153943 CGCTCGAATA
*
6153953 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
*
6154018 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* * *
6154033 CCTTCGAGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCTGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* **
6154098 TCACTAGTGCAAATG
66 TAACTAGCACAAATG
*
6154113 CCTTCGGGACTTAGTCCGG
1 CCTTCGGGACTTAGCCCGG
6154132 TTATCATCCA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 89 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTAGCACAAATG
Found at i:6156143 original size:5 final size:5
Alignment explanation
Indices: 6156086--6156161 Score: 57
Period size: 5 Copynumber: 14.4 Consensus size: 5
6156076 TATGTCTTTC
* * *
6156086 AAAAT AAGA- AAATT AAAAT GAAAAT AAAAAT CAAAAGA AAAAT AAGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAA-T AAAAT AA-AAT
6156135 -AAAT AAAAT AAAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AA
6156162 GAAGATTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 5 0.09
5 26 0.46
6 26 0.46
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:6156148 original size:38 final size:37
Alignment explanation
Indices: 6156086--6156158 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 37
6156076 TATGTCTTTC
*
6156086 AAAATAAGAAAATTAAAATGAAAATAAAAATCAAAAGA
1 AAAATAAGAAAAATAAAATGAAAATAAAAAT-AAAAGA
6156124 AAAATAAGAATAAATAAAAT-AAAATAAAAATAAAA
1 AAAATAAGAA-AAATAAAATGAAAATAAAAATAAAA
6156159 TAAGAAGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 4 0.12
38 21 0.64
39 8 0.24
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (37 bp):
AAAATAAGAAAAATAAAATGAAAATAAAAATAAAAGA
Found at i:6156155 original size:11 final size:11
Alignment explanation
Indices: 6156094--6156161 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 11
6156084 TCAAAATAAG
*
6156094 AAAATTAAAAT
1 AAAATAAAAAT
6156105 GAAAATAAAAAT
1 -AAAATAAAAAT
*
6156117 CAAAAGAAAAAT
1 -AAAATAAAAAT
6156129 AAGAATAAATAAAAT
1 AA-AAT--A-AAAAT
6156144 AAAATAAAAAT
1 AAAATAAAAAT
6156155 AAAATAA
1 AAAATAA
6156162 GAAGATTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 14 0.29
12 23 0.48
14 4 0.08
15 7 0.15
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:6161536 original size:13 final size:13
Alignment explanation
Indices: 6161518--6161543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6161508 GGTTTGTTTA
6161518 TTAAACTAATTAT
1 TTAAACTAATTAT
6161531 TTAAACTAATTAT
1 TTAAACTAATTAT
6161544 CTAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:6166303 original size:46 final size:45
Alignment explanation
Indices: 6166236--6166360 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 45
6166226 TGTAACCCGC
* * * *
6166236 CCATAAGCGAACTCGAACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTGGACATTCGCAT
*
6166282 CCATAAGTGAACTCGGACTCAACTCAGCGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGACATTCGCAT
*
6166328 CCATAAGTGAACTCGGACTCAACTCAATGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
6166361 TGGATGCCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGACATTCGCAT
Found at i:6172241 original size:49 final size:49
Alignment explanation
Indices: 6172185--6172311 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 49
6172175 TGTTGTGTGT
* *
6172185 CAGTGTAAGACCTATCTAGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * *
6172234 CAGTGTAAGACCTATTTGGGACATGGCATCGACCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* *
6172283 CAGTGTAAGACCTGTCTGGGACACGGCAT
1 CAGTGTAAGACCTATCTGGGACATGGCAT
6172312 TGACTTTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:6172442 original size:136 final size:135
Alignment explanation
Indices: 6172266--6172525 Score: 405
Period size: 136 Copynumber: 1.9 Consensus size: 135
6172256 ATGGCATCGA
* * *
6172266 CCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACACGGCATTGACTTTAATGTGCTAG-C
1 CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
* * * *
6172330 AAGTGTTAGACCATGTCTGGGACATGGCGTCGGCATTTTATCCCATGTTCGGGGCTATTGAGTAT
66 -AGTG-TAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGAGTAT
6172395 GCATTGG
129 GCATTGG
* *
6172402 CCTCGATATATGAAAGTCACTGTATGACCAGTCTGGGACACTGCATCGACTTTAATGTGCTAGAC
1 CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
*
6172467 AGTGTAAACCATGTCTGGGACATGGTGTCAGCATTTTAACCCATGTTCAGGGCTATTGA
66 AGTGTAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGA
6172526 ATATTCGGTA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
135 50 0.44
136 62 0.55
137 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (135 bp):
CCTCGATATATGAAAGTCACTGTAAGACCAGTCTGGGACACGGCATCGACTTTAATGTGCTAGAC
AGTGTAAACCATGTCTGGGACATGGCGTCAGCATTTTAACCCATGTTCAGGGCTATTGAGTATGC
ATTGG
Found at i:6173668 original size:21 final size:20
Alignment explanation
Indices: 6173635--6173673 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6173625 TCATAATGGA
*
6173635 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTG-TGCCCTTC
*
6173656 CACACGGGTGTGTGCCCT
1 CACACGGGCGTGTGCCCT
6173674 GCTTCAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCTTC
Found at i:6175254 original size:27 final size:27
Alignment explanation
Indices: 6175224--6175338 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
6175214 AGGGCAAAAT
* * *
6175224 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
6175251 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
6175278 AGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
6175305 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
6175332 GGTAATT
1 GGTAATT
6175339 TCACAAATCA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:6175353 original size:27 final size:27
Alignment explanation
Indices: 6175323--6175499 Score: 123
Period size: 27 Copynumber: 6.6 Consensus size: 27
6175313 TACCCTACAA
*
6175323 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCAG
* ** * *
6175350 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCAG
* *
6175377 TGGTATTTTGGTAATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCAG
*
6175403 AGGGTATTTCAGTAATTTTAC-AATC-G
1 -GGGTATTTCGGTAATTTTACAAATCAG
* * * * * *
6175429 AAGGTATTTCAGTAACTTTATAAACCGG
1 -GGGTATTTCGGTAATTTTACAAATCAG
*
6175457 GGGTACTTT-GATAATTTTAC-AA-CGAG
1 GGGTA-TTTCGGTAATTTTACAAATC-AG
*
6175483 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
6175500 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
25 4 0.03
26 37 0.31
27 73 0.62
28 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:6175365 original size:54 final size:54
Alignment explanation
Indices: 6175238--6175365 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
6175228 ATTTTACCCC
* * * * **
6175238 ACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTAACCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* * *
6175292 ACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAA
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
* *
6175345 ATCAGGGGTATTTTGGTAATT
1 A-CAAGGGTATTTCGGTAATT
6175366 TTGTAAACCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 4 0.07
54 57 0.93
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACAA
Done.