Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 70 of 214
Found at i:20003217 original size:28 final size:26
Alignment explanation
Indices: 20003185--20003310 Score: 128
Period size: 28 Copynumber: 4.5 Consensus size: 26
20003175 TTTAATAAGT
20003185 TCGCACACTTAGTG-TTCAATAATCAAAC
1 TCGCACACTTAGTGCTTCAAT--T-AAAC
* *
20003213 TCGCACACTTAGTGGTTTTCCATTAAAC
1 TCGCACACTTAGT-G-CTTCAATTAAAC
*
20003241 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGC-TT-CAATTAAAC
*
20003269 TCGCACACTTAGTGCATTACAATTAAAT
1 TCGCACACTTAGTGC-TT-CAATTAAAC
20003297 TCGCACACTTAGTG
1 TCGCACACTTAGTG
20003311 TCGAAAGTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.03
28 78 0.89
29 2 0.02
31 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (26 bp):
TCGCACACTTAGTGCTTCAATTAAAC
Found at i:20003251 original size:56 final size:55
Alignment explanation
Indices: 20003185--20003311 Score: 155
Period size: 56 Copynumber: 2.3 Consensus size: 55
20003175 TTTAATAAGT
* ** * *
20003185 TCGCACACTTAGTGTTCAATAATCAAACTCGCACACTTAGTGGTTTTCCATTAAAC
1 TCGCACACTTAGTGTT-AACAATCAAACTCGCACACTTAGTGCATTACAATTAAAC
* * * *
20003241 TCGCACACTTAGTGCTTTACAATTAAATTCGCACACTTAGTGCATTACAATTAAAT
1 TCGCACACTTAGTG-TTAACAATCAAACTCGCACACTTAGTGCATTACAATTAAAC
20003297 TCGCACACTTAGTGT
1 TCGCACACTTAGTGT
20003312 CGAAAGTCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 58 0.95
57 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (55 bp):
TCGCACACTTAGTGTTAACAATCAAACTCGCACACTTAGTGCATTACAATTAAAC
Found at i:20006317 original size:23 final size:24
Alignment explanation
Indices: 20006276--20007067 Score: 430
Period size: 23 Copynumber: 33.9 Consensus size: 24
20006266 TATACATCAG
*
20006276 AAATT-GAGCAGC-ATGTATATACC
1 AAATTGGA-CAGCAATGTATATACA
* *
20006299 AATTTGGACAGCAAT-TATACACA
1 AAATTGGACAGCAATGTATATACA
* *
20006322 AAATTTGACAAC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
* *
20006345 AAATTGGACAAC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* * *
20006369 AAATTGGGCAGCATATATATATACC
1 AAATTGGACAGCA-ATGTATATACA
* * *
20006394 AATTTGGACAGCACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
*
20006417 AAATTTGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
*
20006440 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* * *
20006464 AAATTGGGCAGC-ATATATATACC
1 AAATTGGACAGCAATGTATATACA
* * *
20006487 AATTTGGACAGCACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
* *
20006510 GAATTTGACAG-AATGTATATACA
1 AAATTGGACAGCAATGTATATACA
* *
20006533 AAATTGGACAGC-ATCTATTTACCA
1 AAATTGGACAGCAATGTATATA-CA
* * * *
20006557 ACATTGGGCAGC-ATATATATACC
1 AAATTGGACAGCAATGTATATACA
* * * *
20006580 AATTTGGGCAGCACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
20006603 AAATTGGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
*
20006626 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* * *
20006650 AAATTGGGCAGC-ATATATGTAGC-
1 AAATTGGACAGCAATGTATATA-CA
** * * *
20006673 ACTTTAGACAGCACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
*
20006696 AAATTTGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
*
20006719 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* * *
20006743 AAATTGGGCAGC-ATATATATACC
1 AAATTGGACAGCAATGTATATACA
* * * *
20006766 AATTTGGACAGCACT-TAAACACA
1 AAATTGGACAGCAATGTATATACA
*
20006789 AAATTTGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
*
20006812 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* *
20006836 AAATTGGGCAGC-ATATATGA-AGC-
1 AAATTGGACAGCAATGTAT-ATA-CA
* * * *
20006859 AATTTGGATAGCACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
20006882 AAATTGGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
* *
20006905 AAATTTGACAGC-ATATATATACA
1 AAATTGGACAGCAATGTATATACA
*
20006928 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* *
20006952 AAATTGGGA-AGC-ATATATATACC
1 AAATT-GGACAGCAATGTATATACA
* * * *
20006975 AATTTGGACAACACT-TATACACA
1 AAATTGGACAGCAATGTATATACA
*
20006998 AAATTTGACAGC-ATGTATATACA
1 AAATTGGACAGCAATGTATATACA
*
20007021 AAATTGGACAGC-ATTTAT-TCACCA
1 AAATTGGACAGCAATGTATAT-A-CA
* *
20007045 AAATTGGGCAGCATATATATATA
1 AAATTGGACAGCA-ATGTATATA
20007068 TACCAATTTT
Statistics
Matches: 600, Mismatches: 120, Indels: 95
0.74 0.15 0.12
Matches are distributed among these distances:
22 23 0.04
23 395 0.66
24 149 0.25
25 19 0.03
26 12 0.02
27 2 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (24 bp):
AAATTGGACAGCAATGTATATACA
Found at i:20006656 original size:186 final size:186
Alignment explanation
Indices: 20006254--20007034 Score: 1044
Period size: 186 Copynumber: 4.2 Consensus size: 186
20006244 TCTACCCTGT
* * * * *
20006254 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCAATTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATA
*
20006318 CACAAAATTTGACA-ACATGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCA
64 CACAAAATTTGACAGA-ATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC-
*
20006382 TATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAA
127 -ATATATATACCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAA
20006443 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
* * * *
20006508 CAGAATTTGACAGAATGTATATACAAAATTGGACAGCATCTATTTACCAACATTGGGCAGCATAT
66 CAAAATTTGACAGAATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAT
*
20006573 ATATACCAATTTGGGCAGCACTTATACACAAAATTGGACAGCATGTATATACAAAA
131 ATATACCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAA
* * * *
20006629 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCACTTTAGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
*
20006694 CAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAT
66 CAAAATTTGACAGAATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAT
* *
20006759 ATATACCAATTTGGACAGCACTTAAACACAAAATTTGACAGCATGTATATACAAAA
131 ATATACCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAA
* *
20006815 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGA-AGCAATTTGGATAGCACTTATAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT-ATACCAATTTGGACAGCACTTATAC
* * * * *
20006879 ACAAAATTGGACAGCATGTATATACAAAATTTGACAGCATATATAT-A-CAAAATTGGACAGCAT
65 ACAAAATTTGACAGAATGTATATACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCAT
* * * * * * *
20006942 TTAT-TCACCAAAATTGGGA-AGCA-TATATATACCAATTTGGACAACACT-TATACACAAAA
129 ATATAT-ACC--AATTTGGACAGCACT-TATACACAAAATTGGACAGCA-TGTATATACAAAA
* * *
20007001 TTTGACAGCATGTATAT-A-CAAAATTGGACAGCAT
1 TTGGACAGCATTTAT-TCACCAAAATTGGGCAGCAT
20007035 TTATTCACCA
Statistics
Matches: 538, Mismatches: 44, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
184 1 0.00
185 37 0.07
186 376 0.70
187 10 0.02
188 95 0.18
189 18 0.03
190 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (186 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
CAAAATTTGACAGAATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAT
ATATACCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAA
Found at i:20006685 original size:116 final size:115
Alignment explanation
Indices: 20006302--20007063 Score: 615
Period size: 116 Copynumber: 6.5 Consensus size: 115
20006292 ATATACCAAT
* * * * *
20006302 TTGGACAGCAATTATACACAAAATTTGACAACATGTATATACAAAATTGGACAACATTTATTCAC
1 TTGGACAGC-ATTATATAC-AAATTTGACAGCATATATATACAAAATTGGACAGCATTTATACAC
* *
20006367 CAAAATTGGGCAGCATATATATATACC-AATTTGGACAGCACTTATACACAAAA
64 CAAAATTGGACAGC--ATATATATACCAAAATTGGACAGCACTTATACACAAAA
* * * * * *
20006420 TTTGACAGCATGTATATACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATAT
1 TTGGACAGCAT-TATATAC-AAATTTGACAGCATATATAT-A-CAAAATTGGACAGCATTTATAC
* * * * * *
20006484 ACC-AATTTGGACAGCA-CT-TATACACAGAATTTGACAG-AATGTATATACAAAA
62 ACCAAAATTGGACAGCATATATATAC-CAAAATTGGACAGCACT-TATACACAAAA
* * * * * * *
20006536 TTGGACAGCATCTATTTACCAACATTGGGCAGCATATATATACCAATTTGGGCAGCACTTATACA
1 TTGGACAGCAT-TATATA-CAA-ATTTGACAGCATATATATACAAAATTGGACAGCATTTATACA
* * *
20006601 -CAAAATTGGACAGCATGTATATA-CAAAATTGGACAGCATTTATTCACCAAAA
63 CCAAAATTGGACAGCATATATATACCAAAATTGGACAGCACTTATACA-CAAAA
* * * * * * *
20006653 TTGGGCAGCATATATGTAGC-ACTTTAGACAGCACT-TATACACAAAATTTGACAGCATGTATAT
1 TTGGACAGCAT-TATATA-CAAATTT-GACAGCA-TATATATACAAAATTGGACAGCATTTATAC
* * * * *
20006716 A-CAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCA-TATATATACCAAT
62 ACCAAAATTGGACAGCATATATAT-ACCAAAATTGGACAGCACT-TATACACAAAA
* * * *
20006769 TTGGACAGCACTTAAACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCAC
1 TTGGACAGCA-TTATATAC-AAATTTGACAGCATATATATACAAAATTGGACAGCATTTATACAC
* * * *
20006834 CAAAATTGGGCAGCATATATGA-AGC-AATTTGGATAGCACTTATACACAAAA
64 CAAAATTGGACAGCATATAT-ATACCAAAATTGGACAGCACTTATACACAAAA
*
20006885 TTGGACAGCATGTATATACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCAC
1 TTGGACAGCAT-TATATAC-AAATTTGACAGCATATATATACAAAATTGGACAGCATTTATACAC
* *
20006950 CAAAATTGGGA-AGCATATATATACC-AATTTGGACAACACTTATACACAAAA
64 CAAAATT-GGACAGCATATATATACCAAAATTGGACAGCACTTATACACAAAA
* * * * *
20007001 TTTGACAGCATGTATATACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATA
1 TTGGACAGCAT-TATATAC-AAATTTGACAGCATATATAT-A-CAAAATTGGACAGCATTTATA
20007064 TATATACCAA
Statistics
Matches: 524, Mismatches: 88, Indels: 65
0.77 0.13 0.10
Matches are distributed among these distances:
114 5 0.01
115 13 0.02
116 332 0.63
117 108 0.21
118 46 0.09
119 20 0.04
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (115 bp):
TTGGACAGCATTATATACAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATACACCA
AAATTGGACAGCATATATATACCAAAATTGGACAGCACTTATACACAAAA
Found at i:20006913 original size:209 final size:209
Alignment explanation
Indices: 20006679--20007062 Score: 707
Period size: 209 Copynumber: 1.8 Consensus size: 209
20006669 TAGCACTTTA
*
20006679 GACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAA
1 GACAGCACTTATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAA
* *
20006744 AATTGGGCAGCATATATATACCAATTTGGACAGCACTTAAACACAAAATTTGACAGCATGTATAT
66 AATTGGGAAGCATATATATACCAATTTGGACAACACTTAAACACAAAATTTGACAGCATGTATAT
20006809 ACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGAAGCAATTTGGATAGCACT
131 ACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGAAGCAATTTGGATAGCACT
20006874 TATACACAAAATTG
196 TATACACAAAATTG
*
20006888 GACAGCA-TGTATATACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCA
1 GACAGCACT-TATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCA
*
20006952 AAATTGGGAAGCATATATATACCAATTTGGACAACACTTATACACAAAATTTGACAGCATGTATA
65 AAATTGGGAAGCATATATATACCAATTTGGACAACACTTAAACACAAAATTTGACAGCATGTATA
20007017 TACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
130 TACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
20007063 ATATATACCA
Statistics
Matches: 169, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
208 1 0.01
209 168 0.99
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (209 bp):
GACAGCACTTATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAA
AATTGGGAAGCATATATATACCAATTTGGACAACACTTAAACACAAAATTTGACAGCATGTATAT
ACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGAAGCAATTTGGATAGCACT
TATACACAAAATTG
Found at i:20006984 original size:93 final size:93
Alignment explanation
Indices: 20006254--20006941 Score: 1069
Period size: 93 Copynumber: 7.4 Consensus size: 93
20006244 TCTACCCTGT
* * * * *
20006254 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCAATTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATA
*
20006318 CACAAAATTTGACAACATGTATATACAAAA
64 CACAAAATTTGACAGCATGTATATACAAAA
*
20006348 TTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGACAGCACTTATA
20006413 CACAAAATTTGACAGCATGTATATACAAAA
64 CACAAAATTTGACAGCATGTATATACAAAA
20006443 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
* *
20006508 CAGAATTTGACAGAATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
* * * *
20006536 TTGGACAGCATCTATTTACCAACATTGGGCAGCATATATATACCAATTTGGGCAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
*
20006601 CAAAATTGGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
* * * *
20006629 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCACTTTAGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
20006694 CAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
*
20006722 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTAAACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
20006787 CAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
* *
20006815 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGA-AGCAATTTGGATAGCACTTATAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT-ATACCAATTTGGACAGCACTTATAC
*
20006879 ACAAAATTGGACAGCATGTATATACAAAA
65 ACAAAATTTGACAGCATGTATATACAAAA
* * *
20006908 TTTGACAGCATATATAT-A-CAAAATTGGACAGCAT
1 TTGGACAGCATTTAT-TCACCAAAATTGGGCAGCAT
20006942 TTATTCACCA
Statistics
Matches: 551, Mismatches: 38, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
92 15 0.03
93 428 0.78
94 18 0.03
95 90 0.16
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
CAAAATTTGACAGCATGTATATACAAAA
Found at i:20006999 original size:93 final size:93
Alignment explanation
Indices: 20006897--20007065 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
20006887 GGACAGCATG
*
20006897 TATATACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGAA
1 TATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGAA
20006962 GCATATATATACCAATTTGGACAACACT
66 GCATATATATACCAATTTGGACAACACT
* *
20006990 TATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCA
1 TATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGAA
20007055 GCATATATATA
66 GCATATATATA
20007066 TATACCAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (93 bp):
TATACACAAAATTTGACAGCATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGAA
GCATATATATACCAATTTGGACAACACT
Found at i:20007798 original size:28 final size:28
Alignment explanation
Indices: 20007766--20007891 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
20007756 TTTAATAAGT
* * *
20007766 TCGCACACTTAGTG-TTCAATAATCAAAC
1 TCGCACACTTAGTGCTT-TACAATTAAAC
* *
20007794 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
20007822 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
20007850 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
20007878 TCGCACACTTAGTG
1 TCGCACACTTAGTG
20007892 TCGAAAGTCA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 87 0.98
29 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:20022200 original size:41 final size:41
Alignment explanation
Indices: 20022143--20022296 Score: 254
Period size: 41 Copynumber: 3.8 Consensus size: 41
20022133 TTAGGTGTAT
20022143 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
*
20022184 TGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
*
20022225 TGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
* * * *
20022266 CGCCGGTGAAACATTTTAGACTTTATGTCTA
1 TGCCAGTGAAACATTTCAGACTTTAAGTCTA
20022297 ACTGGCTAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
Found at i:20026121 original size:59 final size:59
Alignment explanation
Indices: 20026051--20026172 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
20026041 CTACGTGAAG
20026051 TCAGTTTTCTGGGCCATGTTGTATCAGCATTAGGTATTCGGGTTGATCCAAGTAAAATT
1 TCAGTTTTCTGGGCCATGTTGTATCAGCATTAGGTATTCGGGTTGATCCAAGTAAAATT
20026110 TCAGTTTTCTGGGCCATGTTGTATCAGCATTAGGTATTCGGGTTGATCCAAGTAAAATT
1 TCAGTTTTCTGGGCCATGTTGTATCAGCATTAGGTATTCGGGTTGATCCAAGTAAAATT
20026169 TCAG
1 TCAG
20026173 CTATACTTGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (59 bp):
TCAGTTTTCTGGGCCATGTTGTATCAGCATTAGGTATTCGGGTTGATCCAAGTAAAATT
Found at i:20029648 original size:41 final size:41
Alignment explanation
Indices: 20029544--20029637 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
20029534 TGCCAGAGAC
* *
20029544 GTCTAGCAGGCTTGATGCCGGTAAAACATTTCAGACTTTAA
1 GTCTAGCAGGCTTGATGCCAGTGAAACATTTCAGACTTTAA
*
20029585 GTCTAGCAGGCTTGATGCCAGTGAAACATTTCAGACTTTAT
1 GTCTAGCAGGCTTGATGCCAGTGAAACATTTCAGACTTTAA
20029626 GTCTAGCAGGCT
1 GTCTAGCAGGCT
20029638 AAGTGCCAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
GTCTAGCAGGCTTGATGCCAGTGAAACATTTCAGACTTTAA
Found at i:20031685 original size:16 final size:16
Alignment explanation
Indices: 20031664--20031708 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
20031654 AGAATTGGGC
*
20031664 TGAGAAATTATTTAAT
1 TGAGAAATTAATTAAT
20031680 TGAGAAATTAATTAAT
1 TGAGAAATTAATTAAT
*
20031696 T--TAAATTAATTAA
1 TGAGAAATTAATTAA
20031709 AGATATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TGAGAAATTAATTAAT
Found at i:20041890 original size:19 final size:19
Alignment explanation
Indices: 20041858--20041897 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20041848 ATTAAGTTAC
*
20041858 AAAATAAATCAACTTAAAT
1 AAAATAAATCAACTCAAAT
* *
20041877 AAAATCAATGAACTCAAAT
1 AAAATAAATCAACTCAAAT
20041896 AA
1 AA
20041898 TTTAAATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATCAACTCAAAT
Found at i:20042468 original size:15 final size:17
Alignment explanation
Indices: 20042448--20042482 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20042438 AAGAAATCAG
20042448 AAAAAACA-AATAACAAA
1 AAAAAACATAATAAC-AA
20042465 AAAAAACATAATAACAA
1 AAAAAACATAATAACAA
20042482 A
1 A
20042483 CGTTACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAACATAATAACAA
Found at i:20042477 original size:18 final size:17
Alignment explanation
Indices: 20042448--20042482 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
20042438 AAGAAATCAG
20042448 AAAAAACAAATAACAAA
1 AAAAAACAAATAACAAA
20042465 AAAAAACATAATAACAAA
1 AAAAAACA-AATAACAAA
20042483 CGTTACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAACAAATAACAAA
Found at i:20044823 original size:13 final size:13
Alignment explanation
Indices: 20044805--20044865 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
20044795 AGTTTTTCAT
*
20044805 TGTTTTTGGGAAG
1 TGTTTTTGAGAAG
* *
20044818 TGTTTTTCAAAAG
1 TGTTTTTGAGAAG
*
20044831 TGTTGTTGAGAAG
1 TGTTTTTGAGAAG
*
20044844 TGTTTTTTAGAAG
1 TGTTTTTGAGAAG
20044857 TGTTTTTGA
1 TGTTTTTGA
20044866 AAAATTTGAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (13 bp):
TGTTTTTGAGAAG
Found at i:20044843 original size:26 final size:26
Alignment explanation
Indices: 20044805--20044865 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
20044795 AGTTTTTCAT
*
20044805 TGTTTTTGGGAAGTGTTTTTCAAAAG
1 TGTTTTTGAGAAGTGTTTTTCAAAAG
* * *
20044831 TGTTGTTGAGAAGTGTTTTTTAGAAG
1 TGTTTTTGAGAAGTGTTTTTCAAAAG
20044857 TGTTTTTGA
1 TGTTTTTGA
20044866 AAAATTTGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (26 bp):
TGTTTTTGAGAAGTGTTTTTCAAAAG
Found at i:20052037 original size:18 final size:17
Alignment explanation
Indices: 20051997--20052038 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
20051987 CACTAATTTT
*
20051997 TATATATTGAGCTTATA
1 TATATATTGAGCCTATA
*
20052014 TAATATATTGGGCCTATA
1 T-ATATATTGAGCCTATA
20052032 -ATATATT
1 TATATATT
20052039 ATTATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (17 bp):
TATATATTGAGCCTATA
Found at i:20054229 original size:20 final size:20
Alignment explanation
Indices: 20054206--20054254 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
20054196 TTAAGGTTCA
20054206 CAAACTAACACTAAGCTTTG
1 CAAACTAACACTAAGCTTTG
20054226 CAAACTAACACTAAGCTTTG
1 CAAACTAACACTAAGCTTTG
20054246 CAAACTAAC
1 CAAACTAAC
20054255 TCTATGTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (20 bp):
CAAACTAACACTAAGCTTTG
Found at i:20054352 original size:21 final size:20
Alignment explanation
Indices: 20054304--20054353 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
20054294 TGTCAAGCTC
*
20054304 TCTATGAGGACATTGTGAGG
1 TCTATGAGGACATTGTAAGG
**
20054324 TCCGTGAGGTACATTGTAAGG
1 TCTATGAGG-ACATTGTAAGG
20054345 TCTATGAGG
1 TCTATGAGG
20054354 CTCGCTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (20 bp):
TCTATGAGGACATTGTAAGG
Found at i:20056280 original size:12 final size:12
Alignment explanation
Indices: 20056251--20056283 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
20056241 ACCGTGTGCC
*
20056251 AGGCCATGTGGT
1 AGGCCGTGTGGT
20056263 AGGCCGTGTGGT
1 AGGCCGTGTGGT
20056275 AGGCCGTGT
1 AGGCCGTGT
20056284 ATGACACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.18, G:0.45, T:0.24
Consensus pattern (12 bp):
AGGCCGTGTGGT
Found at i:20057586 original size:59 final size:60
Alignment explanation
Indices: 20057507--20057666 Score: 164
Period size: 59 Copynumber: 2.6 Consensus size: 60
20057497 TTAATAGGAA
* * * * *
20057507 TATTATTAAATATAACTTAATAAAAAATAATA-AGTAATTTAATCATATT-TTAATATTAT
1 TATTATGAAATACAACTTAATAAAAAATAATATA-TAATTTAATAACATTCTTAATATAAT
* *
20057566 TATTATGAAATACAATTTAATAAAAAATAATATATAATTTAGTAACATTCTTAATATAAT
1 TATTATGAAATACAACTTAATAAAAAATAATATATAATTTAATAACATTCTTAATATAAT
* * *
20057626 TATTATTAAAATATGAA-TTAATAAAAATAAAAATATATAAT
1 TATTA-TGAAATA-CAACTTAAT-AAAA-AATAATATATAAT
20057667 ATTAGAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
59 41 0.48
60 15 0.18
61 11 0.13
62 6 0.07
63 12 0.14
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTATGAAATACAACTTAATAAAAAATAATATATAATTTAATAACATTCTTAATATAAT
Found at i:20058663 original size:27 final size:27
Alignment explanation
Indices: 20058632--20058685 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20058622 TGGACAAAAC
20058632 AAGATAATAAATATAGGAAATAATTCT
1 AAGATAATAAATATAGGAAATAATTCT
20058659 AAGATAATAAATATAGGAAATAATTCT
1 AAGATAATAAATATAGGAAATAATTCT
20058686 TACACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGATAATAAATATAGGAAATAATTCT
Found at i:20062061 original size:104 final size:106
Alignment explanation
Indices: 20061871--20062076 Score: 267
Period size: 104 Copynumber: 1.9 Consensus size: 106
20061861 AGAAAACTTC
*
20061871 GATATGTTGTTTCTTGCTCTCTGTCTCTCTCTCTTTGTAAGAAATTACACCCCAAATAGACCAAA
1 GATATGTTGTTTCTTGCTCTC-GTCTCTCTCTC-TTATAAGAAATTACACCCCAAATAGACCAAA
* * * * *
20061936 AGTAGGGATTATATGGATTTGAAAACCTCCGGGGTTAGAACAA
64 AGCAAGAATTATATCGATTTGAAAACCTCCGAGGTTAGAACAA
*
20061979 GATATGTTGTTTTTTGCTCTC-TCTCTCTCTC-TATAA-ACAATTACACCCCAAATAGACCAAAA
1 GATATGTTGTTTCTTGCTCTCGTCTCTCTCTCTTATAAGA-AATTACACCCCAAATAGACCAAAA
* *
20062041 GCAAGAATTATA-CGATTTTGAGAACCTTCGAGGTTA
65 GCAAGAATTATATCGA-TTTGAAAACCTCCGAGGTTA
20062077 AAATAACTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
103 3 0.03
104 54 0.62
106 10 0.11
108 20 0.23
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (106 bp):
GATATGTTGTTTCTTGCTCTCGTCTCTCTCTCTTATAAGAAATTACACCCCAAATAGACCAAAAG
CAAGAATTATATCGATTTGAAAACCTCCGAGGTTAGAACAA
Found at i:20062515 original size:27 final size:27
Alignment explanation
Indices: 20062485--20062580 Score: 68
Period size: 27 Copynumber: 3.6 Consensus size: 27
20062475 TGGCGAACTA
20062485 GTATATGCCAACAAGTCTGGCAAGATG
1 GTATATGCCAACAAGTCTGGCAAGATG
* * * *
20062512 GTATAAT-TCAGCAAGTCAGGCAAGATA
1 GTAT-ATGCCAACAAGTCTGGCAAGATG
* * * * * *
20062539 GAATCTGCTAACAGGTCTAGCGAGATG
1 GTATATGCCAACAAGTCTGGCAAGATG
* *
20062566 GTATACGTCAACAAG
1 GTATATGCCAACAAG
20062581 ATTGATGCGA
Statistics
Matches: 47, Mismatches: 20, Indels: 4
0.66 0.28 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GTATATGCCAACAAGTCTGGCAAGATG
Found at i:20067001 original size:23 final size:23
Alignment explanation
Indices: 20066971--20067018 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
20066961 TTGGGCACAT
20066971 AGCCGAAGTCAGGATATTAAGTA
1 AGCCGAAGTCAGGATATTAAGTA
*
20066994 AGCCGAAGTCGGGATATTAAGTA
1 AGCCGAAGTCAGGATATTAAGTA
20067017 AG
1 AG
20067019 AATTGATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (23 bp):
AGCCGAAGTCAGGATATTAAGTA
Found at i:20069635 original size:27 final size:27
Alignment explanation
Indices: 20069563--20069693 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
20069553 ATATGTTAGG
*** *
20069563 AAAGAAAAAGCCTTTGTGATAAACTCTG
1 AAAG-AAAAGCCTTTGTGGCGAACTCTA
*
20069591 AAAGAAAAACCTTTGTGGCGAACTCTA
1 AAAGAAAAGCCTTTGTGGCGAACTCTA
* ** *
20069618 AAAGAAAAGCCTTTGTGGTGAGTTCTG
1 AAAGAAAAGCCTTTGTGGCGAACTCTA
* *
20069645 AAAGAAGAGCCTTTATGGCGAACTCTA
1 AAAGAAAAGCCTTTGTGGCGAACTCTA
*
20069672 AAAGAAGAGCCTTTGTGGCGAA
1 AAAGAAAAGCCTTTGTGGCGAA
20069694 ATCTGGATGA
Statistics
Matches: 86, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 82 0.95
28 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (27 bp):
AAAGAAAAGCCTTTGTGGCGAACTCTA
Found at i:20069645 original size:54 final size:54
Alignment explanation
Indices: 20069563--20069689 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 54
20069553 ATATGTTAGG
* *
20069563 AAAGAAAAAGCCTTTGTGATAAACTCTGAAAGAAAAACCTTTGTGGCGAACTCTA
1 AAAG-AAAAGCCTTTGTGGTAAACTCTGAAAGAAAAACCTTTATGGCGAACTCTA
* ** * *
20069618 AAAGAAAAGCCTTTGTGGTGAGTTCTGAAAGAAGAGCCTTTATGGCGAACTCTA
1 AAAGAAAAGCCTTTGTGGTAAACTCTGAAAGAAAAACCTTTATGGCGAACTCTA
*
20069672 AAAGAAGAGCCTTTGTGG
1 AAAGAAAAGCCTTTGTGG
20069690 CGAAATCTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (54 bp):
AAAGAAAAGCCTTTGTGGTAAACTCTGAAAGAAAAACCTTTATGGCGAACTCTA
Found at i:20070855 original size:103 final size:103
Alignment explanation
Indices: 20070676--20070871 Score: 383
Period size: 103 Copynumber: 1.9 Consensus size: 103
20070666 TCCTTTCCTT
20070676 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
1 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
20070741 CTTCTTTGTTTTTTTTCTTTTTCTTTTTACTTTACTGA
66 CTTCTTTGTTTTTTTTCTTTTTCTTTTTACTTTACTGA
20070779 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
1 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
*
20070844 CTTCTTTGTTTTTTTTTTTTTTCTTTTT
66 CTTCTTTGTTTTTTTTCTTTTTCTTTTT
20070872 TTGCTTTATT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.23, C:0.19, G:0.03, T:0.56
Consensus pattern (103 bp):
TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
CTTCTTTGTTTTTTTTCTTTTTCTTTTTACTTTACTGA
Found at i:20073334 original size:11 final size:10
Alignment explanation
Indices: 20073308--20073332 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20073298 AGCCTTTTTC
20073308 AAAAACAAAA
1 AAAAACAAAA
20073318 AAAAACAAAA
1 AAAAACAAAA
20073328 AAAAA
1 AAAAA
20073333 ACCTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:20074346 original size:44 final size:45
Alignment explanation
Indices: 20074283--20074446 Score: 127
Period size: 45 Copynumber: 3.7 Consensus size: 45
20074273 GCTTCAATCC
** * * *
20074283 ACTCCACTGCAATGCCAGGGAGATAGGATTTG-TTTATTCGGTCT
1 ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTCTATTCGGTCT
* * * *
20074327 GC-CCTACTGCAATTTCAGGGGGATAAGACTTGCTCTCTTGGGTCT
1 ACTCC-ACTGCAATTTCAGGGAGATAAGACTTGCTCTATTCGGTCT
* * * *
20074372 ACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTT-GAGTCT
1 ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTCTATTCG-GTCT
* * ** *
20074417 GCCCCACTGCAACCTCAGGGGGATAAGACT
1 ACTCCACTGCAATTTCAGGGAGATAAGACT
20074447 AGATGCGATT
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 2 0.02
44 24 0.25
45 69 0.71
46 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (45 bp):
ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTCTATTCGGTCT
Found at i:20074383 original size:45 final size:45
Alignment explanation
Indices: 20074323--20074446 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 45
20074313 TGTTTATTCG
* * * *
20074323 GTCTGCCCTACTGCAATTTCAGGGGGATAAGACTTGCTCTCTTGG
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTCTCTTGA
* * * *
20074368 GTCTACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTTGA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTCTCTTGA
* *
20074413 GTCTGCCCCACTGCAACCTCAGGGGGATAAGACT
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACT
20074447 AGATGCGATT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (45 bp):
GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTCTCTTGA
Found at i:20074552 original size:44 final size:44
Alignment explanation
Indices: 20074498--20074788 Score: 240
Period size: 44 Copynumber: 6.7 Consensus size: 44
20074488 GTTTTAATTC
*
20074498 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTCAATCT
* **** *
20074542 ACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-ATTGGCTTCAATCT
* * *
20074587 GC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTT-ACTT-AGTCT
1 GCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTGGCTTCAATCT
* * * *
20074631 GCTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTCAATCT
* * * ** * *
20074672 G-TTCTCTGCAACTTCAGAGAGATAAGATT-TGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAT-TGGCTTCAATCT
* * * *
20074715 GCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTCAATCT
20074759 GCTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
20074789 TGTATCTTCG
Statistics
Matches: 192, Mismatches: 42, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
40 25 0.13
41 4 0.02
43 6 0.03
44 117 0.61
45 38 0.20
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTCAATCT
Found at i:20074597 original size:45 final size:44
Alignment explanation
Indices: 20074323--20074788 Score: 180
Period size: 44 Copynumber: 10.8 Consensus size: 44
20074313 TGTTTATTCG
* * * **
20074323 GTCTGC-CCTACTGCAATTTCAGGGGGATAAGACTTGCTC-TCTTGG
1 GTCTGCTCC-ACTGCAACTTCAGGGAGATAAGA-TTAC-CATCTTCA
* * * ** *
20074368 GTCTACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTTGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACCATCTTCA
* * * * * *
20074413 GTCTGCCCCACTGCAACCTCAGGGGGATAAGACTA-GA--TGC-
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
* * * * ** * *
20074453 GATTTGCT-CTCTGCAACTGCAGAGAGATAAGA-T-CTGTTTTAA
1 G-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
* * ****
20074495 TTC-GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
* *
20074538 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACCATCTTCA
* *
20074583 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT-GCTTACTT-A
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTACCAT-CTTCA
* * *
20074627 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GA--TGC-
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
* * * *** *
20074667 GATCTG-TTCTCTGCAACTTCAGAGAGATAAGATTTGTGAT-TTTA
1 G-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACCATCTTCA
* * * * * **** *
20074711 ATCCGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
*
20074755 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
20074789 TGTATCTTCG
Statistics
Matches: 318, Mismatches: 76, Indels: 55
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 48 0.15
41 32 0.10
42 3 0.01
43 15 0.05
44 116 0.36
45 99 0.31
46 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCA
Found at i:20074775 original size:217 final size:215
Alignment explanation
Indices: 20074376--20074788 Score: 650
Period size: 217 Copynumber: 1.9 Consensus size: 215
20074366 GGGTCTACTC
* *
20074376 CACTGCAACTTCAGGGAGATAAAACTTGCTTTCTTGAGTCTGCCCCACTGCAACCTCAGGGGGAT
1 CACTGCAACTTCAGGGAGATAAAACTTGCTTACTTGAGTCTGCCCCACTGCAACCTCAGGGAGAT
* *
20074441 AAGACTAGATGCGATTTGCTCTCTGCAACTGCAGAGAGATAAGATCTGTTTTAATTCGCTCCACT
66 AAGACTAGATGCGATCTGCTCTCTGCAACTGCAGAGAGATAAGATCTGTTTTAATCCGCTCCACT
* *
20074506 GCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
131 ACAACTTCAAGGAGATAGGATTATTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
20074571 TCACCATCTTCAGTCTGCCT
196 TCACCATCTTCAGTCTGCCT
* * *
20074591 CACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGGA-GATAAAACTTGCTTACTTGAGTCTGCCCCACTGCAACCTCAGGGAGA
* * *
20074654 TAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTAATCCGCTC
65 TAAGACTAGATGCGATCTGCTCTCTGCAACTGCAGAGAGATAAGA--TCTG-TTTTAATCCGCTC
* *
20074719 CACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
127 CACTACAACTTCAAGGAGATAGGATTATTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
20074784 AGATT
192 AGATT
20074789 TGTATCTTCG
Statistics
Matches: 180, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
214 70 0.39
215 29 0.16
216 3 0.02
217 78 0.43
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (215 bp):
CACTGCAACTTCAGGGAGATAAAACTTGCTTACTTGAGTCTGCCCCACTGCAACCTCAGGGAGAT
AAGACTAGATGCGATCTGCTCTCTGCAACTGCAGAGAGATAAGATCTGTTTTAATCCGCTCCACT
ACAACTTCAAGGAGATAGGATTATTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
TCACCATCTTCAGTCTGCCT
Found at i:20074848 original size:44 final size:44
Alignment explanation
Indices: 20074798--20075227 Score: 464
Period size: 44 Copynumber: 9.8 Consensus size: 44
20074788 TTGTATCTTC
*
20074798 GATCTACTTCATGCCAATACATGAAGACAAGATCTACTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
20074842 GATCTACTTCATACCGATACATGAAGACAAGATATTCTACCCTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
20074886 GATCTACTTCATACCGATACATGAAGACAAGATCCGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
*
20074930 GATCTAC-TCACGCCAATACATGAAGACAAGATCTTCTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
20074973 GATCTACTTCATGTCGATACATGAAGACAAGATCCATT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
* **
20075017 AATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCAAT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * * *
20075061 GATCTACTTCATGTCGATACATGAAGAAAAGATCGGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGATC--TTCTACCTTT
* *
20075105 GATCTACTTTACGCCAATACATGAAGACAAGATCTTCTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
20075149 GATATACTTCATGCCGATACATGAAGACAAGATCCGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
*
20075193 GATCTACTTCACGCCAATACATGAAGACAAGATCT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCT
20075228 GCTATCTCCA
Statistics
Matches: 321, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 36 0.11
44 262 0.82
45 6 0.02
46 8 0.02
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (44 bp):
GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
Found at i:20075071 original size:88 final size:88
Alignment explanation
Indices: 20074798--20075227 Score: 637
Period size: 88 Copynumber: 4.9 Consensus size: 88
20074788 TTGTATCTTC
* *** ** * ** *
20074798 GATCTACTTCATGCCAATACATGAAGACAAGATCTACTACCTTTGATCTACTTCATACCGATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
* *
20074863 TGAAGACAAGATATTCTACCCTT
66 TGAAGACAAGATCTTCTACCTTT
*
20074886 GATCTACTTCATACCGATACATGAAGACAAGATCCGTTTTCTTCGATCTAC-TCACGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
20074950 TGAAGACAAGATCTTCTACCTTT
66 TGAAGACAAGATCTTCTACCTTT
* * * *
20074973 GATCTACTTCATGTCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCATGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
**
20075038 TGAAGACAAGATCTTCTACCAAT
66 TGAAGACAAGATCTTCTACCTTT
* * * *
20075061 GATCTACTTCATGTCGATACATGAAGAAAAGATCGGTTTTCTTCGATCTACTTTACGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
20075126 TGAAGACAAGATCTTCTACCTTT
66 TGAAGACAAGATCTTCTACCTTT
*
20075149 GATATACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
20075214 TGAAGACAAGATCT
66 TGAAGACAAGATCT
20075228 GCTATCTCCA
Statistics
Matches: 308, Mismatches: 33, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
87 78 0.25
88 230 0.75
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (88 bp):
GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTTCTACCTTT
Found at i:20075315 original size:176 final size:176
Alignment explanation
Indices: 20074802--20075231 Score: 538
Period size: 175 Copynumber: 2.4 Consensus size: 176
20074792 ATCTTCGATC
* * * ** ** ** *
20074802 TACTTCATGCCAATACATGAAGACAAGATCTACTACCTTTGATCTACTTCATACCGATACATGAA
1 TACTTCATGCCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCACGCCAATACATGAA
* * ** * *** * * ** *
20074867 GACAAGATATTCTACCCTTGATCTACTTCATACCGATACATGAAGACAAGATCCGTTTTCTTCGA
66 GACAAGATCTGCTACCAATGACCTACTTCACGTCGATACAGGAAGAAAAGATAGGTTATCTTCGA
*
20074932 TCTAC-TCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATC
131 TCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATA
* *
20074977 TACTTCATGTCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCATGCCAATACATGAA
1 TACTTCATGCCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCACGCCAATACATGAA
* * * * * *
20075042 GACAAGATCTTCTACCAATGATCTACTTCATGTCGATACATGAAGAAAAGATCGGTTTTCTTCGA
66 GACAAGATCTGCTACCAATGACCTACTTCACGTCGATACAGGAAGAAAAGATAGGTTATCTTCGA
*
20075107 TCTACTTTACGCCAATACATGAAGACAAGATCTTCTACCTTTGATA
131 TCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATA
* *
20075153 TACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACATGAA
1 TACTTCATGCCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCACGCCAATACATGAA
20075218 GACAAGATCTGCTA
66 GACAAGATCTGCTA
20075232 TCTCCAGCCT
Statistics
Matches: 230, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
175 118 0.51
176 112 0.49
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (176 bp):
TACTTCATGCCGATACATGAAGACAAGATCCATTTTCTTCAATCTACTTCACGCCAATACATGAA
GACAAGATCTGCTACCAATGACCTACTTCACGTCGATACAGGAAGAAAAGATAGGTTATCTTCGA
TCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATA
Found at i:20075372 original size:88 final size:89
Alignment explanation
Indices: 20075188--20075373 Score: 218
Period size: 88 Copynumber: 2.1 Consensus size: 89
20075178 AGATCCGTTT
* * * *
20075188 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTCCAGCCTACTCCGCTACG
1 TCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTCCAACCTACTCCACTACA
**
20075253 TTCCAGGAAGGCAAGGCTAGTGTA
66 ACCCAGGAAGGCAAGGCTAGTGTA
* * ** * * *
20075277 T-TT-GATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTGCAACCTGCTCCACTAC
1 TCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTCCAACCTACTCCACTAC
20075340 AACCCAGGAAGGCAAGGCT-G-GTA
65 AACCCAGGAAGGCAAGGCTAGTGTA
20075363 TCTTCGATCTA
1 TCTTCGATCTA
20075374 TTCTCTGAGG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
86 4 0.05
87 14 0.17
88 61 0.76
89 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (89 bp):
TCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTCCAACCTACTCCACTACA
ACCCAGGAAGGCAAGGCTAGTGTA
Found at i:20091305 original size:20 final size:19
Alignment explanation
Indices: 20091282--20091323 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
20091272 TAAAGAAAGT
20091282 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
20091302 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
20091321 AAA
1 AAA
20091324 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:20095928 original size:9 final size:9
Alignment explanation
Indices: 20095914--20095971 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
20095904 TTTGGTTAAA
20095914 AATTAACCG
1 AATTAACCG
20095923 AATTAACCG
1 AATTAACCG
*
20095932 AATTACCCG
1 AATTAACCG
*
20095941 AATTACCCG
1 AATTAACCG
20095950 AATT-ACTCG
1 AATTAAC-CG
*
20095959 AATTAACTG
1 AATTAACCG
20095968 AATT
1 AATT
20095972 GAATCACTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.93
10 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:20098191 original size:20 final size:20
Alignment explanation
Indices: 20098166--20098221 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
20098156 GTTTGGTTAA
20098166 TATTTTGATTATTTTCTTTT
1 TATTTTGATTATTTTCTTTT
*
20098186 TATTTTGATTATTTTATTTT
1 TATTTTGATTATTTTCTTTT
20098206 TAATTTT-ATT-TTTTCT
1 T-ATTTTGATTATTTTCT
20098222 CTCTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 23 0.70
21 5 0.15
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TATTTTGATTATTTTCTTTT
Found at i:20101232 original size:27 final size:27
Alignment explanation
Indices: 20101194--20101248 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
20101184 TTTATATGTT
20101194 ATAACATTATTGATCTTTCTTGGAGTC
1 ATAACATTATTGATCTTTCTTGGAGTC
* *
20101221 ATAACTTTATTGATCTTTTTTGGAGTC
1 ATAACATTATTGATCTTTCTTGGAGTC
20101248 A
1 A
20101249 AGTCAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (27 bp):
ATAACATTATTGATCTTTCTTGGAGTC
Found at i:20101491 original size:86 final size:85
Alignment explanation
Indices: 20101411--20101569 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
20101401 CGAAGCTACT
* ** * *
20101411 ATACTAGCACACATAGT-TCATCATCGGATAAAACCAAAGAAAATATACTGGCACATATAGTGCA
1 ATACTAGCACACACAGTGT-ATCATCGGAT-AAACCAAAGAAAATATACTAACACAAACAGTGCA
*
20101475 TCATTAGATATACGAAGCAAAG
64 TCATCAGATATACGAAGCAAAG
* *
20101497 ATACTGGCACACACAGTGTATCATCGGATATACCAAAGAAAATATACTAACACAAACAGTGCATC
1 ATACTAGCACACACAGTGTATCATCGGATAAACCAAAGAAAATATACTAACACAAACAGTGCATC
20101562 ATCAGATA
66 ATCAGATA
20101570 AACTGAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 38 0.59
86 25 0.39
87 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.21
Consensus pattern (85 bp):
ATACTAGCACACACAGTGTATCATCGGATAAACCAAAGAAAATATACTAACACAAACAGTGCATC
ATCAGATATACGAAGCAAAG
Found at i:20101570 original size:129 final size:129
Alignment explanation
Indices: 20101410--20101655 Score: 307
Period size: 129 Copynumber: 1.9 Consensus size: 129
20101400 TCGAAGCTAC
* * * * * * * *
20101410 TATACTAGCACACATAGTTCATCATCGGATAAAAC-CAAAGAAAATATACTGGCACATATAGTGC
1 TATACTAACACAAACAGTGCATCATCAGAT-AAACTCAAA-AAAATATACTGGCACACACAATGC
* *
20101474 ATCATTAGATATA-CGAAGCAAAGATACTGGCACACACAGTGTATCATCGGATATACCAAAGAAA
64 ATCATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATATACCAAAGAAA
20101538 A
129 A
* * *
20101539 TATACTAACACAAACAGTGCATCATCAGATAAACTGAAAAAAATATGCTGGCAGACACAATGCAT
1 TATACTAACACAAACAGTGCATCATCAGATAAACTCAAAAAAATATACTGGCACACACAATGCAT
* * * *
20101604 CATCGGATATATCGAAGCAAATATATTGGCAGACACAGTGCATCATCGGATA
66 CATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATA
20101656 AACCGAAGTA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
128 34 0.35
129 64 0.65
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (129 bp):
TATACTAACACAAACAGTGCATCATCAGATAAACTCAAAAAAATATACTGGCACACACAATGCAT
CATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATATACCAAAGAAAA
Found at i:20101663 original size:43 final size:43
Alignment explanation
Indices: 20101410--20101663 Score: 240
Period size: 43 Copynumber: 5.9 Consensus size: 43
20101400 TCGAAGCTAC
* * * *
20101410 TATACTAGCACACATAGTTCATCATCGGATAAAACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGAT-AAACCGAAGAAAA
* * ** * *
20101454 TATACTGGCACATATAGTGCATCATTAGATATA-CGAAGCAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
* * * *
20101496 GATACTGGCACACACAGTGTATCATCGGATATACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
** * * * *
20101539 TATACTAACACAAACAGTGCATCATCAGATAAACTGAAAAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
* * * * * *
20101582 TATGCTGGCAGACACAATGCATCATCGGATATATCGAAGCAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
* *
20101625 TATATTGGCAGACACAGTGCATCATCGGATAAACCGAAG
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAG
20101664 TATAACCTGT
Statistics
Matches: 166, Mismatches: 43, Indels: 3
0.78 0.20 0.01
Matches are distributed among these distances:
42 34 0.20
43 107 0.64
44 25 0.15
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
Found at i:20106114 original size:15 final size:14
Alignment explanation
Indices: 20106089--20106124 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
20106079 AAAAATATGT
20106089 TATTTTTAATTTAA
1 TATTTTTAATTTAA
20106103 TATTTATTAATTTAA
1 TATTT-TTAATTTAA
*
20106118 TGTTTTT
1 TATTTTT
20106125 TTGTGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:20106606 original size:3 final size:3
Alignment explanation
Indices: 20106598--20106631 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20106588 AAGTTACATG
20106598 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20106632 GGTAGTGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20107119 original size:30 final size:30
Alignment explanation
Indices: 20107085--20107141 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20107075 TATTTTTATA
*
20107085 TTAATTATATTAT-GAGAAAGTATGTTTTTG
1 TTAATTATATTATGGA-AAAGTAAGTTTTTG
20107115 TTAATTATATTATGGAAAAGTAAGTTT
1 TTAATTATATTATGGAAAAGTAAGTTT
20107142 ACATTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (30 bp):
TTAATTATATTATGGAAAAGTAAGTTTTTG
Found at i:20111992 original size:17 final size:18
Alignment explanation
Indices: 20111962--20112007 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
20111952 ATTTAAATTG
20111962 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
20111980 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
20111996 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
20112008 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:20113821 original size:14 final size:14
Alignment explanation
Indices: 20113783--20113825 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
20113773 TAAAATGTAC
20113783 AATATAATTAAA-T
1 AATATAATTAAATT
20113796 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
20113811 AA-ATAATTTAATT
1 AATATAATTAAATT
20113824 AA
1 AA
20113826 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:20116309 original size:3 final size:3
Alignment explanation
Indices: 20116301--20116384 Score: 69
Period size: 3 Copynumber: 28.0 Consensus size: 3
20116291 TAAAACAATT
** * * *
20116301 TAA TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA TAA TAA TGA TGA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
20116349 TGA TGA TGG TAT TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20116385 AAATCTTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.55, C:0.01, G:0.11, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20119264 original size:22 final size:23
Alignment explanation
Indices: 20119219--20119265 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
20119209 TAACCCTAAA
20119219 GTCTGCCGCCTGGCACGTTTGTTTCT
1 GTCTGCCGCCTGGCAC---TGTTTCT
20119245 GTCTGCCGCCTGGCAC-GTTTC
1 GTCTGCCGCCTGGCACTGTTTC
20119266 CTTTGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
26 16 0.76
ACGTcount: A:0.04, C:0.34, G:0.28, T:0.34
Consensus pattern (23 bp):
GTCTGCCGCCTGGCACTGTTTCT
Found at i:20124965 original size:17 final size:16
Alignment explanation
Indices: 20124921--20124982 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
20124911 TTCAACAATT
20124921 AATTAATT-ATTTAAA
1 AATTAATTAATTTAAA
* **
20124936 ATTTTAAAAAATTTAAA
1 A-ATTAATTAATTTAAA
*
20124953 AATATATTTAATTTTAAA
1 AAT-TAATTAA-TTTAAA
20124971 AATTAATTAATT
1 AATTAATTAATT
20124983 GATTATGTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
15 1 0.03
16 7 0.20
17 18 0.51
18 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTAATTTAAA
Found at i:20124968 original size:18 final size:17
Alignment explanation
Indices: 20124947--20124982 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
20124937 TTTTAAAAAA
*
20124947 TTTAAAAATATATTTAAT
1 TTTAAAAAT-TAATTAAT
20124965 TTTAAAAATTAATTAAT
1 TTTAAAAATTAATTAAT
20124982 T
1 T
20124983 GATTATGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATTAATTAAT
Found at i:20128384 original size:35 final size:35
Alignment explanation
Indices: 20128291--20128390 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
20128281 ATATTATCTG
* * *
20128291 ATTAACGTGTTTCGGTTTGACTTAGCTCTTATGAGC
1 ATTAGCGTGTTTCGGTTAGAC-TAACTCTTATGAGC
*
20128327 ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGT
1 ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGC
* * * * *
20128362 ATTGGCGTTTTTTGGTTGGACTATCTCTT
1 ATTAGCGTGTTTCGGTTAGACTAACTCTT
20128391 GGGAGCATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
35 36 0.65
36 19 0.35
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (35 bp):
ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGC
Found at i:20140955 original size:48 final size:47
Alignment explanation
Indices: 20140900--20141016 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 47
20140890 CTTATTCATC
*
20140900 AATTTGGACAGCATTTATATACCAAACAA-GACAGCATTTTCACACCAA
1 AATTTGGACAGCATATATATA-C-AACAATGACAGCATTTTCACACCAA
* * *
20140948 AATTTGGACAACATATATATACAACAATTTGGGCAGCATTTTTACACCAA
1 AATTTGGACAGCATATATATACAACAA--T-GACAGCATTTTCACACCAA
*
20140998 AAATTGGACAGCATATATA
1 AATTTGGACAGCATATATA
20141017 CAAAAATTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
46 5 0.08
47 1 0.02
48 19 0.32
50 34 0.58
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (47 bp):
AATTTGGACAGCATATATATACAACAATGACAGCATTTTCACACCAA
Found at i:20141032 original size:23 final size:22
Alignment explanation
Indices: 20140995--20141200 Score: 130
Period size: 23 Copynumber: 8.8 Consensus size: 22
20140985 ATTTTTACAC
20140995 CAAAAATTG-GACAGCATATATA
1 CAAAAATTGAG-CAGCATATATA
* *
20141017 CAAAAATTTGAGCAGCATAAAAA
1 CAAAAA-TTGAGCAGCATATATA
* *
20141040 CAACAAATTGAGCAGCATTTTTTACA
1 CAA-AAATTGAGCAGCA---TATATA
20141066 CCAAAAATTG-GACAGCATATATA
1 -CAAAAATTGAG-CAGCATATATA
* * *
20141089 CAACAATTTGGGCAGCATAAATA
1 CAA-AAATTGAGCAGCATATATA
* * *
20141112 CAACAAATTGGGCAGCATTTAAGCA
1 CAA-AAATTGAGCAGCATAT-A-TA
*
20141137 TCAAAAATTG-GACAGCATATATG
1 -CAAAAATTGAG-CAGCATATATA
*
20141160 CAACAAATTGAGCAGTATATATA
1 CAA-AAATTGAGCAGCATATATA
*
20141183 CAACAAATTGGGCAGCAT
1 CAA-AAATTGAGCAGCAT
20141201 TTAAGCATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
22 12 0.08
23 92 0.62
24 9 0.06
25 15 0.10
26 17 0.11
27 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.23
Consensus pattern (22 bp):
CAAAAATTGAGCAGCATATATA
Found at i:20141033 original size:48 final size:49
Alignment explanation
Indices: 20140931--20141034 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 49
20140921 CCAAACAAGA
* * *
20140931 CAGCATTTTCACACCAAAATTTGGACAACATATATATACAACAATTTGGG
1 CAGCATTTTCACACCAAAAATTGGACAACA-ATATATACAAAAATTTGAG
* *
20140981 CAGCATTTTTACACCAAAAATTGGACAGC-ATATATACAAAAATTTGAG
1 CAGCATTTTCACACCAAAAATTGGACAACAATATATACAAAAATTTGAG
20141029 CAGCAT
1 CAGCAT
20141035 AAAAACAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
48 23 0.47
50 26 0.53
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (49 bp):
CAGCATTTTCACACCAAAAATTGGACAACAATATATACAAAAATTTGAG
Found at i:20141070 original size:72 final size:71
Alignment explanation
Indices: 20140966--20141202 Score: 343
Period size: 71 Copynumber: 3.3 Consensus size: 71
20140956 CAACATATAT
*
20140966 ATACAACAATTTGGGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAAAAATTTGAGCA
1 ATACAACAAATTGGGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAAAAATTTGAGCA
20141031 GCATAA
66 GCATAA
* * * *
20141037 AAACAACAAATTGAGCAGCATTTTTTACACCAAAAATTGGACAGCATATATACAACAATTTGGGC
1 ATACAACAAATTGGGCAGCA-TTTTTACACCAAAAATTGGACAGCATATATACAAAAATTTGAGC
20141102 AGCATAA
65 AGCATAA
* * *
20141109 ATACAACAAATTGGGCAGCA-TTTAAGCATCAAAAATTGGACAGCATATATGCAACAAA-TTGAG
1 ATACAACAAATTGGGCAGCATTTTTA-CACCAAAAATTGGACAGCATATATACAA-AAATTTGAG
* *
20141172 CAGTATAT
64 CAGCATAA
20141180 ATACAACAAATTGGGCAGCATTT
1 ATACAACAAATTGGGCAGCATTT
20141203 AAGCATCAAA
Statistics
Matches: 148, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
70 4 0.03
71 73 0.49
72 71 0.48
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (71 bp):
ATACAACAAATTGGGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAAAAATTTGAGCA
GCATAA
Found at i:20141153 original size:120 final size:119
Alignment explanation
Indices: 20140931--20141174 Score: 287
Period size: 120 Copynumber: 2.0 Consensus size: 119
20140921 CCAAACAAGA
* ***
20140931 CAGCATTTTCACACCAAAATTTGGACAACATATATATACAACAATTTGGGCAGCATTTTTACACC
1 CAGCATTTTCACACCAAAAATTGGACAACA-ATATATACAACAATTTGGGCAGCATAAATACA-C
* *
20140996 AAAAATTGGACAGCATATATACAAAAATTTGAGCAGCATAAAAACAACAAATTGAG
64 AAAAATTGGACAGCATATACACAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
* *
20141052 CAGCATTTTTTACACCAAAAATTGGACAGC-ATATATACAACAATTTGGGCAGCATAAATACA-A
1 CAGCA-TTTTCACACCAAAAATTGGACAACAATATATACAACAATTTGGGCAGCATAAATACACA
* * * * **
20141115 CAAATTGGGCAGCATTTAAGCATCAAAAATTGGA-CAGCATATATGCAACAAATTGAG
65 AAAATTGGACAGCATAT-A-CA-CAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
20141172 CAG
1 CAG
20141175 TATATATACA
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
118 15 0.14
119 1 0.01
120 53 0.50
121 15 0.14
122 21 0.20
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (119 bp):
CAGCATTTTCACACCAAAAATTGGACAACAATATATACAACAATTTGGGCAGCATAAATACACAA
AAATTGGACAGCATATACACAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
Found at i:20141967 original size:28 final size:28
Alignment explanation
Indices: 20141927--20141995 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
20141917 AATAAGTTTA
* *
20141927 CACACTTAGTGCTTAATAATCAATCTCG
1 CACACTTAGTGCTTAACAATCAAACTCG
* *
20141955 CACACTTAGTGCTTTACAATTAAACTCG
1 CACACTTAGTGCTTAACAATCAAACTCG
20141983 CACACTTAGTGCT
1 CACACTTAGTGCT
20141996 AATCTCATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
CACACTTAGTGCTTAACAATCAAACTCG
Found at i:20157354 original size:21 final size:21
Alignment explanation
Indices: 20157328--20157370 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20157318 GGTTCGCTGT
*
20157328 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
20157349 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
20157370 A
1 A
20157371 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:20157370 original size:16 final size:16
Alignment explanation
Indices: 20157351--20157383 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20157341 TGTATTGGAT
*
20157351 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
20157367 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
20157383 T
1 T
20157384 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:20157428 original size:45 final size:44
Alignment explanation
Indices: 20157362--20157456 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
20157352 GGATTAGAGG
* *
20157362 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
20157407 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
20157451 TGTAAT
1 TGTAAT
20157457 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:20157639 original size:18 final size:17
Alignment explanation
Indices: 20157618--20157652 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20157608 TTATTATTTA
*
20157618 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20157636 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20157653 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20157646 original size:28 final size:27
Alignment explanation
Indices: 20157576--20157648 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
20157566 TTTATTATCA
*
20157576 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
20157604 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
20157631 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
20157649 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:20157765 original size:144 final size:147
Alignment explanation
Indices: 20157537--20157808 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
20157527 ATGATTATTG
20157537 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
20157602 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
20157667 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
20157686 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
20157748 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
20157809 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:20157783 original size:18 final size:17
Alignment explanation
Indices: 20157762--20157796 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20157752 TTATTATTAA
*
20157762 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20157780 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20157797 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20157840 original size:54 final size:54
Alignment explanation
Indices: 20157782--20157960 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
20157772 ATTAAAATAT
*
20157782 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
20157836 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
20157899 TAT
53 -AC
*
20157902 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
20157956 ATAAT
1 ATAAT
20157961 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:20157842 original size:61 final size:61
Alignment explanation
Indices: 20157777--20157964 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
20157767 TTTTAATTAA
*
20157777 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
20157838 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
20157897 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
20157958 AATATAT
1 AATATAT
20157965 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:20157875 original size:120 final size:120
Alignment explanation
Indices: 20157745--20157967 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
20157735 ATCATATTTA
* *
20157745 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
20157810 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
20157865 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
20157930 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
20157968 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:20157903 original size:18 final size:17
Alignment explanation
Indices: 20157882--20157916 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20157872 TTATTATTAA
20157882 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
20157900 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
20157917 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:20157979 original size:17 final size:16
Alignment explanation
Indices: 20157957--20158003 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
20157947 ACTCAAATCA
20157957 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
20157974 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
20157988 TAAATATATGATTTAA
1 T-AATATATGATTTAA
20158004 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:20158004 original size:17 final size:17
Alignment explanation
Indices: 20157976--20158009 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20157966 ATTATAACTA
*
20157976 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
20157993 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
20158010 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:20158152 original size:93 final size:92
Alignment explanation
Indices: 20158042--20158236 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
20158032 GATTATAGTT
* * *
20158042 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
20158105 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
20158135 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
20158200 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
20158227 TATGAATTTA
1 TATGAATTTA
20158237 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:20162771 original size:21 final size:22
Alignment explanation
Indices: 20162740--20162780 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20162730 CATTTAATTA
* *
20162740 ATTTTTAAAAATTATAAAAACT
1 ATTTTTAAAAAATAAAAAAACT
20162762 ATTTTT-AAAAATAAAAAAA
1 ATTTTTAAAAAATAAAAAAA
20162781 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAAATAAAAAAACT
Found at i:20163482 original size:22 final size:22
Alignment explanation
Indices: 20163449--20163492 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
20163439 GACCCTTCCA
20163449 AAAATTTTCAATTTAATGCTAAT
1 AAAATTTTCAATTTAAT-CTAAT
20163472 AAAA-TTTCAATTTAATCTAAT
1 AAAATTTTCAATTTAATCTAAT
20163493 CAATTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATTTTCAATTTAATCTAAT
Found at i:20167780 original size:68 final size:68
Alignment explanation
Indices: 20167659--20167962 Score: 329
Period size: 68 Copynumber: 4.5 Consensus size: 68
20167649 GTCCATGGGA
* * * * * ** * *
20167659 AAACATGACATCATACTGTGTAAGACCATAACTAGGCTATGAAAACCTATGAAGTCCGCCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
20167724 AGT
66 AGT
* * * * *
20167727 AAACACGATATCATATTATGTAATATCATAGTTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
20167792 AGT
66 AGT
* * * * *
20167795 AAACATGACATCATATTGTGTACGACCATAGCTGGGCTATGACAACATATGAAGTCTGTCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
20167860 AGT
66 AGT
* * * * * * *
20167863 AAACATGGTATCATATTGTGTAAGACCACAGCTGGGTTATGGTAACAAATAAAGTTTGTCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
*
20167928 AAT
66 AGT
* * *
20167931 AAAACATGACATCATATTGCGTAAGACTATAG
1 -AAACATGATATCATATTGTGTAAGACCATAG
20167963 TTGAGCTATA
Statistics
Matches: 195, Mismatches: 40, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
68 169 0.87
69 26 0.13
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (68 bp):
AAACATGATATCATATTGTGTAAGACCATAGCTGGGTTATGGCAACATATGAAGTCTGCCAGGAC
AGT
Found at i:20167903 original size:136 final size:137
Alignment explanation
Indices: 20167658--20167957 Score: 395
Period size: 136 Copynumber: 2.2 Consensus size: 137
20167648 GGTCCATGGG
* *
20167658 AAAACATGACATCATACTGTGTAAGACCATAACTAGGCTATGAAAACCTATGAAGTCCGCCAGGA
1 AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
* * * * * *
20167723 CAGTAAACACGATATCATATTATGTAATATCATAGTTGGGTTATGGCAACATATGAAGTCTGCCA
66 CAGTAAACACGATATCATATTATGTAAGACCACAGCTGGGTTATGGCAACAAATAAAGTCTGCCA
*
20167788 GGACAGT
131 GGACAAT
* * * * * *
20167795 -AAACATGACATCATATTGTGTACGACCATAGCTGGGCTATGACAACATATGAAGTCTGTCAGGA
1 AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
* * * * * *
20167859 CAGTAAACATGGTATCATATTGTGTAAGACCACAGCTGGGTTATGGTAACAAATAAAGTTTGTCA
66 CAGTAAACACGATATCATATTATGTAAGACCACAGCTGGGTTATGGCAACAAATAAAGTCTGCCA
20167924 GGACAAT
131 GGACAAT
*
20167931 AAAACATGACATCATATTGCGTAAGAC
1 AAAACATGACATCATATTGTGTAAGAC
20167958 TATAGTTGAG
Statistics
Matches: 139, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
136 115 0.83
137 24 0.17
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (137 bp):
AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
CAGTAAACACGATATCATATTATGTAAGACCACAGCTGGGTTATGGCAACAAATAAAGTCTGCCA
GGACAAT
Found at i:20170169 original size:16 final size:16
Alignment explanation
Indices: 20170148--20170178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20170138 CTATGCATGC
*
20170148 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
20170164 AAAATACAAAAGACA
1 AAAATACAAAAGACA
20170179 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:20173452 original size:41 final size:41
Alignment explanation
Indices: 20173406--20173549 Score: 164
Period size: 41 Copynumber: 3.5 Consensus size: 41
20173396 CTATGCCTAA
*
20173406 CAGGCTTCGTGCC-GACGTATTATATCAGGCTTTGTGCTTAG
1 CAGGCTTCGTGCCAG-TGTATTATATCAGGCTTTGTGCTTAG
* * * *
20173447 TAGGCTTCATGCCAGTGTATTATATCAGGCTTTATGCCTAG
1 CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
** * *
20173488 CAGGCTTCGTGTTAGTGTATTATATCAGGCTTTGAGCTTGG
1 CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
** *
20173529 CAATCTTCGTGCCAATGTATT
1 CAGGCTTCGTGCCAGTGTATT
20173550 GTACCAGGTA
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
Found at i:20174015 original size:21 final size:21
Alignment explanation
Indices: 20173989--20174029 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20173979 ATATGTAAGA
20173989 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
20174010 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
20174030 AAATACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:20179004 original size:26 final size:27
Alignment explanation
Indices: 20178975--20179046 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
20178965 GTGGATTCAA
* *
20178975 CGAACTA-TGATCGCTAGTGGGTTTAG
1 CGAACTAGGGATCGCCAGTGGGTTTAG
*
20179001 CGAAGTAGGGATCGCCAGTGGGTTTAG
1 CGAACTAGGGATCGCCAGTGGGTTTAG
20179028 CGAAGC-AGGGATCGCCAGT
1 CGAA-CTAGGGATCGCCAGT
20179047 AGGCCTGGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (27 bp):
CGAACTAGGGATCGCCAGTGGGTTTAG
Found at i:20179020 original size:27 final size:27
Alignment explanation
Indices: 20178983--20179046 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
20178973 AACGAACTAT
* *
20178983 GATCGCTAGTGGGTTTAGCGAAGTAGG
1 GATCGCCAGTGGGTTTAGCGAAGCAGG
20179010 GATCGCCAGTGGGTTTAGCGAAGCAGG
1 GATCGCCAGTGGGTTTAGCGAAGCAGG
20179037 GATCGCCAGT
1 GATCGCCAGT
20179047 AGGCCTGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (27 bp):
GATCGCCAGTGGGTTTAGCGAAGCAGG
Found at i:20181946 original size:21 final size:22
Alignment explanation
Indices: 20181905--20181946 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
20181895 TGACTTAGAA
*
20181905 ATTAGTTTAATTTATTTTAATG
1 ATTAGTTTAATTTATTGTAATG
20181927 ATTA-TTTAA-TTACTTGTAAT
1 ATTAGTTTAATTTA-TTGTAAT
20181947 TAAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTAGTTTAATTTATTGTAATG
Found at i:20187787 original size:38 final size:37
Alignment explanation
Indices: 20187737--20187920 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
20187727 ATAGTATTAT
*
20187737 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
20187774 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
20187814 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
20187856 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
20187894 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
20187921 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:20187805 original size:18 final size:18
Alignment explanation
Indices: 20187784--20187937 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
20187774 ATATTAAGAA
20187784 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
20187802 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
20187817 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
20187832 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
20187851 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
20187866 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
20187885 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
20187904 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
20187922 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
20187938 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:20187858 original size:120 final size:120
Alignment explanation
Indices: 20187719--20188199 Score: 759
Period size: 120 Copynumber: 4.0 Consensus size: 120
20187709 ATTATTAATC
* * * *
20187719 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
20187784 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
20187839 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
20187904 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
20187959 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
20188024 TATTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
20188079 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
20188144 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
20188200 ATGATTAAAT
Statistics
Matches: 345, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 338 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:20188041 original size:15 final size:13
Alignment explanation
Indices: 20188032--20188087 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
20188022 AATATTATTA
20188032 AATTATATATTTT
1 AATTATATATTTT
20188045 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
20188060 AATAATAATTATGTT
1 AATTAT-A-TATTTT
20188075 AATT-TATATTTT
1 AATTATATATTTT
20188087 A
1 A
20188088 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:20188057 original size:16 final size:16
Alignment explanation
Indices: 20188036--20188078 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
20188026 TTATTAAATT
20188036 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
20188052 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
20188067 AT-TATGTTAATT
1 ATATATTTTAATT
20188079 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:20188177 original size:16 final size:16
Alignment explanation
Indices: 20188156--20188197 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20188146 TTATTAAATT
*
20188156 ATATATTTTAATTATA
1 ATATATTTTAATAATA
20188172 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
20188187 AT-TATGTTTAA
1 ATATAT-TTTAA
20188198 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:20188182 original size:15 final size:15
Alignment explanation
Indices: 20188147--20188188 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20188137 TTAAGAATTT
*
20188147 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20188161 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20188175 TATTTAATAATAAT
1 TATTTAATTATAAT
20188189 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20188434 original size:16 final size:16
Alignment explanation
Indices: 20188413--20188448 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20188403 GATTTGCTAT
20188413 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20188429 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20188445 TACA
1 TACA
20188449 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20188831 original size:21 final size:20
Alignment explanation
Indices: 20188805--20188849 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
20188795 TTAATTTCGA
*
20188805 AAAATTAGTGAATAAATTGAT
1 AAAATTAAT-AATAAATTGAT
* *
20188826 AAAATTAATAGTTAATTGAT
1 AAAATTAATAATAAATTGAT
20188846 AAAA
1 AAAA
20188850 ATAGAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAATTAATAATAAATTGAT
Found at i:20190322 original size:22 final size:18
Alignment explanation
Indices: 20190279--20190313 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
20190269 ATTTTTATTA
20190279 AATATAATTTAATAAAAT
1 AATATAATTTAATAAAAT
20190297 -ATATAATTTAATAAAAT
1 AATATAATTTAATAAAAT
20190314 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATTTAATAAAAT
Found at i:20190374 original size:61 final size:61
Alignment explanation
Indices: 20190289--20190493 Score: 201
Period size: 61 Copynumber: 3.4 Consensus size: 61
20190279 AATATAATTT
* *
20190289 AATAA-AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAA
1 AATAATAATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAAATTACTAA
* ** * **
20190349 AATAATAATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATAATTAT-T-AAATATAATTT
1 AATAATAATATATAAT-CTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAAAT-TACTAA
* * *
20190408 AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATAATAATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAAATTACTAA
*
20190469 AATCATAATATATAATACT-ATAAAA
1 AATAATAATATATAAT-CTAATAAAA
20190494 ATAATATATA
Statistics
Matches: 113, Mismatches: 20, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
58 6 0.05
59 33 0.29
60 19 0.17
61 48 0.42
62 7 0.06
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (61 bp):
AATAATAATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAAATTACTAA
Found at i:20190393 original size:13 final size:12
Alignment explanation
Indices: 20190369--20190409 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
20190359 TATAATACTA
20190369 TAAAATATAATT
1 TAAAATATAATT
20190381 TAAAATAATAATT
1 TAAAAT-ATAATT
*
20190394 ATTAAATATAATT
1 -TAAAATATAATT
20190407 TAA
1 TAA
20190410 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:20190431 original size:59 final size:59
Alignment explanation
Indices: 20190273--20190449 Score: 166
Period size: 59 Copynumber: 3.0 Consensus size: 59
20190263 AACATAATTT
* **
20190273 TTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA-TCATAATATTAAATATAA
* * ** * *
20190332 TTATATGAACT-TACTAAAATAATAATATATAATACT-ATAAAAT-ATAAT-TTAAAATAATAA
1 TTAT-T-AAATATAATTTAATAAAAATATATAAT-TTAATAAAATCATAATATT-AAAT-ATAA
*
20190392 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA-TCATAATATTAAATAT
20190450 TCTTATATGA
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
58 6 0.07
59 37 0.41
60 17 0.19
61 28 0.31
62 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (59 bp):
TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATCATAATATTAAATATAA
Found at i:20190445 original size:120 final size:118
Alignment explanation
Indices: 20190273--20190498 Score: 416
Period size: 120 Copynumber: 1.9 Consensus size: 118
20190263 AACATAATTT
20190273 TTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
1 TTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
20190338 GAACTTACTAAAATAATAATATATAATACTATAAAATATAATTTAAAATAATAA
66 GAACTTACTAAAATAATAATATATAATACTATAAAA-ATAATTTAAAATAATAA
20190392 TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATA
1 TTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATA
* *
20190457 TGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
65 TGAACTTACTAAAATAATAATATATAATACTATAAAAATAAT
20190499 ATATAATCTA
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 24 0.23
120 80 0.77
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (118 bp):
TTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
GAACTTACTAAAATAATAATATATAATACTATAAAAATAATTTAAAATAATAA
Found at i:20209955 original size:15 final size:15
Alignment explanation
Indices: 20209931--20209962 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20209921 TATGCATACA
*
20209931 AAATATAAAAGACAT
1 AAATACAAAAGACAT
20209946 AAATACAAAAGACAT
1 AAATACAAAAGACAT
20209961 AA
1 AA
20209963 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:20210489 original size:45 final size:46
Alignment explanation
Indices: 20210438--20210524 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
20210428 TTCCGTTTTT
*
20210438 AGAAAACCACATTCATTTCTAAATG-ATTCCATTTCCCCATTCTGG
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATTCTGG
* * * * *
20210483 AGAAAACCATAATCATTTTTGAATGTTTTCCATTTCTCCATT
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATT
20210525 TCTATTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 21 0.60
46 14 0.40
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (46 bp):
AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATTCTGG
Found at i:20211550 original size:11 final size:11
Alignment explanation
Indices: 20211522--20211551 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
20211512 TTAAAATTTA
20211522 AAAAAAATTAT
1 AAAAAAATTAT
20211533 -AAAAAATTAT
1 AAAAAAATTAT
20211543 AAAAAAATT
1 AAAAAAATT
20211552 TTGAAGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAAATTAT
Found at i:20214649 original size:22 final size:24
Alignment explanation
Indices: 20214618--20214663 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20214608 TGCGCACCAG
*
20214618 CATATGAGAG-CC-TTTTATGGGA
1 CATATAAGAGCCCTTTTTATGGGA
20214640 CATATAAGAGCCCTTTTTATGGGA
1 CATATAAGAGCCCTTTTTATGGGA
20214664 TGTATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
CATATAAGAGCCCTTTTTATGGGA
Found at i:20217386 original size:9 final size:9
Alignment explanation
Indices: 20217372--20217397 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20217362 TGTAATAATG
20217372 AATATTATA
1 AATATTATA
20217381 AATATTATA
1 AATATTATA
20217390 AATATTAT
1 AATATTAT
20217398 TTGAATAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AATATTATA
Found at i:20221238 original size:4 final size:4
Alignment explanation
Indices: 20221229--20221253 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20221219 AATGTTTTGA
20221229 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
20221254 TGCATACTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:20225595 original size:27 final size:27
Alignment explanation
Indices: 20225565--20225742 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
20225555 ATATTGAGCC
* *
20225565 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
20225592 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20225619 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
20225647 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
20225674 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
20225701 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
20225728 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20225743 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20225704 original size:82 final size:81
Alignment explanation
Indices: 20225586--20225741 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
20225576 TGCTATATAA
* * *
20225586 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
20225651 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20225668 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
20225732 CACTTAGTGC
65 CACTTAGTGC
20225742 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20238757 original size:18 final size:16
Alignment explanation
Indices: 20238726--20238790 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 16
20238716 AAACATAAAC
20238726 ATAATATTTAAAATAA
1 ATAATATTTAAAATAA
*
20238742 TTAATATTTTATAAATAA
1 ATAATA-TTTA-AAATAA
*
20238760 ATAAT-TTGAAAATAA
1 ATAATATTTAAAATAA
*
20238775 TATAAAATTTTAAAAT
1 -ATAATA-TTTAAAAT
20238791 CATATTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 6 0.15
16 12 0.31
17 4 0.10
18 17 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAATATTTAAAATAA
Found at i:20239020 original size:3 final size:3
Alignment explanation
Indices: 20239012--20239041 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20239002 TTCACCTATT
20239012 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20239042 GAATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20239638 original size:22 final size:25
Alignment explanation
Indices: 20239585--20239642 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
20239575 AATCACAACT
20239585 TATTTTTAAA-TAAAGTTATAACTAA
1 TATTTTTAAATTAAAGTTATAAC-AA
*
20239610 TAATTTTAAATTAAA-TTAT-A-AA
1 TATTTTTAAATTAAAGTTATAACAA
20239632 TATTTTTAAAT
1 TATTTTTAAAT
20239643 GTTAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 12 0.40
24 1 0.03
25 13 0.43
26 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTTTTAAATTAAAGTTATAACAA
Found at i:20252137 original size:21 final size:21
Alignment explanation
Indices: 20252101--20252161 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
20252091 ATAGTGAAGT
20252101 AAAATAGTGAAAAAAAAAGCAAC
1 AAAATAGT--AAAAAAAAGCAAC
* *
20252124 AAAATAGTAAAAAACAGCAAG
1 AAAATAGTAAAAAAAAGCAAC
20252145 AAACATTA-TAAAAAAAA
1 AAA-A-TAGTAAAAAAAA
20252162 CCAGCAGTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 14 0.42
22 9 0.27
23 10 0.30
ACGTcount: A:0.70, C:0.08, G:0.10, T:0.11
Consensus pattern (21 bp):
AAAATAGTAAAAAAAAGCAAC
Found at i:20253596 original size:23 final size:23
Alignment explanation
Indices: 20253543--20253596 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
20253533 ACCATCTACT
* *
20253543 GGCAAATCTAAGAACTGTGCTAA
1 GGCAAATCTAAAAACAGTGCTAA
*
20253566 GTCAAATCTAAAAACAGTGCTAA
1 GGCAAATCTAAAAACAGTGCTAA
*
20253589 GGCTAATC
1 GGCAAATC
20253597 CATTCACAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (23 bp):
GGCAAATCTAAAAACAGTGCTAA
Found at i:20256435 original size:28 final size:28
Alignment explanation
Indices: 20256391--20256444 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20256381 GGTGTTTTTG
*
20256391 AACCAATAACTCAGATATCACTTGTTCA
1 AACCAATAACTCAGATACCACTTGTTCA
* *
20256419 AACCAATAGCTCGGATACCACTTGTT
1 AACCAATAACTCAGATACCACTTGTT
20256445 ATGGGACTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
AACCAATAACTCAGATACCACTTGTTCA
Found at i:20275329 original size:18 final size:18
Alignment explanation
Indices: 20275302--20275339 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20275292 TATAAGAGAA
20275302 TTCACATTTCAAGGACTC
1 TTCACATTTCAAGGACTC
* *
20275320 TTCACTTTTCAAGGGCTC
1 TTCACATTTCAAGGACTC
20275338 TT
1 TT
20275340 AAAGCCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (18 bp):
TTCACATTTCAAGGACTC
Found at i:20276328 original size:3 final size:3
Alignment explanation
Indices: 20276320--20276398 Score: 140
Period size: 3 Copynumber: 25.7 Consensus size: 3
20276310 GAGAAAAATC
20276320 TCT TCT TCT TCT TCT TCTT TCT TCT TCT TCT TCT TCT TCT TCTT TCT
1 TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TC-T TCT
20276367 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
20276399 CATTTAAAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 68 0.92
4 6 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:20277912 original size:17 final size:17
Alignment explanation
Indices: 20277892--20277950 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
20277882 TCAATATGAT
20277892 TAAATAATTCAATAATA
1 TAAATAATTCAATAATA
* *
20277909 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
*
20277925 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTCAATAATA
20277945 TAAATA
1 TAAATA
20277951 GTAGAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
19 8 0.24
20 5 0.15
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:20290949 original size:19 final size:17
Alignment explanation
Indices: 20290894--20290978 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 17
20290884 ATAATTATTT
20290894 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
20290911 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
20290932 TAAATTTCATATATTTTAT
1 TAAA-TT-ATATATTTTAG
*
20290951 TAAATTATATATTTTTAT
1 TAAATTATATA-TTTTAG
20290969 TAAATTATAT
1 TAAATTATAT
20290979 TTAATAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.12
18 20 0.35
19 12 0.21
20 8 0.14
21 7 0.12
22 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:20291216 original size:46 final size:44
Alignment explanation
Indices: 20291130--20291223 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 44
20291120 ATTACAATAT
*
20291130 CATTCCATTCAACCAAATATAAAAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAAAATACTATTACAGTTCTATTC
*
20291174 CATTTCATTCAACCAAACA-AAAAGATTACCTATTAC-GCTTCTATTC
1 CATTCCATTCAACCAAACATAAAA-A-TA-CTATTACAG-TTCTATTC
20291220 CATT
1 CATT
20291224 AAGCCTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
43 4 0.09
44 18 0.41
45 3 0.07
46 19 0.43
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAAAATACTATTACAGTTCTATTC
Done.