Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 258 of 290
Found at i:83428742 original size:54 final size:54
Alignment explanation
Indices: 83428437--83428745 Score: 456
Period size: 54 Copynumber: 5.7 Consensus size: 54
83428427 TTCACAAATC
* * * *
83428437 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCA
1 AGGG-TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
* * *
83428492 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
* *
83428546 AGGGTATTTTAGTAATTTTACAAACAAGGGGTATTTTGGTGATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
* * *
83428600 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
*
83428654 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
* * * *
83428708 AGGATATTCTAGTAATTTTACAAACCAGGAGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTG
83428746 TTAATTTGGT
Statistics
Matches: 233, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
54 230 0.99
55 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
Found at i:83432941 original size:17 final size:15
Alignment explanation
Indices: 83432907--83432951 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
83432897 CCTTATTTTA
83432907 TAATTAAATTAAATT
1 TAATTAAATTAAATT
83432922 TAATTAATATTTAAATT
1 TAATTAA-A-TTAAATT
*
83432939 TAACTCAAATTAA
1 TAA-TTAAATTAA
83432952 CCCCCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAAATTAAATT
Found at i:83438904 original size:20 final size:20
Alignment explanation
Indices: 83438879--83438919 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
83438869 TGTTCTATTA
83438879 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
83438899 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
83438919 C
1 C
83438920 AAGTGTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
CGTCGAGGTTTAGAAACATT
Found at i:83443613 original size:17 final size:17
Alignment explanation
Indices: 83443584--83443646 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
83443574 CTTCAAAAAT
*
83443584 AAATAAAAGAAAGAT-A
1 AAATAAAATAAAGATAA
83443600 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGATAA
*
83443618 AAATAAAAATAAAAAATAA
1 AAAT-AAAAT-AAAGATAA
83443637 AAATAAAATA
1 AAATAAAATA
83443647 GATGGACTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 4 0.10
17 11 0.27
18 15 0.37
19 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAGATAA
Found at i:83443617 original size:6 final size:5
Alignment explanation
Indices: 83443579--83443646 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
83443569 TAAGTCTTCA
*
83443579 AAAAT -AAAT AAAAG AAAGAT AAAAT GAAAAT AAAGAT AAAAAT AAAA-
1 AAAAT AAAAT AAAAT AAA-AT AAAAT -AAAAT AAA-AT -AAAAT AAAAT
*
83443626 ATAA- AAAAT AAAAAT AAAAT A
1 AAAAT AAAAT -AAAAT AAAAT A
83443647 GATGGACTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 10 0.19
5 21 0.40
6 18 0.35
7 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:83443620 original size:12 final size:11
Alignment explanation
Indices: 83443584--83443646 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
83443574 CTTCAAAAAT
*
83443584 AAATAAAAGAA
1 AAATAAAATAA
* *
83443595 AGATAAAATGA
1 AAATAAAATAA
83443606 AAATAAAGATAA
1 AAATAAA-ATAA
83443618 AAAT-AAA-AA
1 AAATAAAATAA
*
83443627 TAA-AAAATAA
1 AAATAAAATAA
83443637 AAATAAAATA
1 AAATAAAATA
83443647 GATGGACTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 7 0.17
10 5 0.12
11 22 0.54
12 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:83443632 original size:7 final size:6
Alignment explanation
Indices: 83443599--83443644 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
83443589 AAAGAAAGAT
* *
83443599 AAAATG AAAATA AAGATA AAAATA AAAATAA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAA
83443645 TAGATGGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:83443634 original size:13 final size:13
Alignment explanation
Indices: 83443605--83443644 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
83443595 AGATAAAATG
*
83443605 AAAATAAAGAT-A
1 AAAATAAAAATAA
83443617 AAAATAAAAATAA
1 AAAATAAAAATAA
83443630 AAAATAAAAATAA
1 AAAATAAAAATAA
83443643 AA
1 AA
83443645 TAGATGGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:83443646 original size:18 final size:19
Alignment explanation
Indices: 83443578--83443644 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
83443568 ATAAGTCTTC
83443578 AAAAATAAATAA-AAGAAAGAT
1 AAAAATAAA-AATAA-AAA-AT
* *
83443599 -AAAATGAAAAT-AAAGAT
1 AAAAATAAAAATAAAAAAT
83443616 AAAAATAAAAATAAAAAAT
1 AAAAATAAAAATAAAAAAT
83443635 AAAAATAAAA
1 AAAAATAAAA
83443645 TAGATGGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 18 0.46
20 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAAAT
Found at i:83456905 original size:40 final size:40
Alignment explanation
Indices: 83456850--83456930 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
83456840 AGGACAAGCA
83456850 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
83456890 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
83456930 A
1 A
83456931 CATATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (40 bp):
AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
Found at i:83470229 original size:14 final size:14
Alignment explanation
Indices: 83470208--83470246 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
83470198 TGAGAAATTC
83470208 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
* *
83470222 AGAAAAATAAGAAT
1 AAAAAAATAAAAAT
83470236 AAAAATAATAA
1 AAAAA-AATAA
83470247 CAGTTATCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:83471401 original size:6 final size:6
Alignment explanation
Indices: 83471390--83471419 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
83471380 CTGTGTTTGC
*
83471390 ATCTGT ATCTGT ATCTGT ATCTAT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
83471420 CTCTAGAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATCTGT
Found at i:83471405 original size:12 final size:12
Alignment explanation
Indices: 83471390--83471424 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
83471380 CTGTGTTTGC
*
83471390 ATCTGTATCTGT
1 ATCTGTATCTAT
83471402 ATCTGTATCTAT
1 ATCTGTATCTAT
*
83471414 ATCTGTCTCTA
1 ATCTGTATCTA
83471425 GAACTACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (12 bp):
ATCTGTATCTAT
Found at i:83481544 original size:47 final size:47
Alignment explanation
Indices: 83481423--83481555 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 47
83481413 ATAATCTCAC
** * *
83481423 CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
**
83481469 CCATAATGAACTCAGAACAAAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* * *
83481515 CCATAGGTGAACTCAGAATGCAACTCAACGAGTTCGAATGC
1 CCATA-ATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
83481556 CTCATAATTC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
46 42 0.57
47 32 0.43
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:83496795 original size:11 final size:11
Alignment explanation
Indices: 83496773--83496805 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
83496763 TTAGTTTAGG
83496773 TTTTCATTTTTC
1 TTTTC-TTTTTC
83496785 TTTTCTTTTTC
1 TTTTCTTTTTC
83496796 TTTTCTTTTT
1 TTTTCTTTTT
83496806 GTTGTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:83511524 original size:14 final size:15
Alignment explanation
Indices: 83511505--83511560 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
83511495 AATCTTCAAT
83511505 GATATG-CAATCTTA
1 GATATGACAATCTTA
83511519 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
83511536 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
83511554 GATATGA
1 GATATGA
83511561 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:83511527 original size:19 final size:19
Alignment explanation
Indices: 83511503--83511574 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
83511493 ATAATCTTCA
83511503 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83511522 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83511539 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83511557 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
83511575 AGTTATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:83511549 original size:35 final size:37
Alignment explanation
Indices: 83511503--83511574 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
83511493 ATAATCTTCA
83511503 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
83511539 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGA
83511575 AGTTATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.56
36 5 0.15
37 10 0.29
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:83521906 original size:88 final size:86
Alignment explanation
Indices: 83521778--83521938 Score: 207
Period size: 88 Copynumber: 1.8 Consensus size: 86
83521768 ATTCGACGGA
* * *
83521778 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAAGCAGATCCAAGATG
83521843 ATTTGGCATCCTTGCGTTACAAG
64 ATTTGGCATCCTTGCGTTACAAG
* ** * * *
83521866 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGCAGATCCAAGATGA
83521930 TTTGGCATC
65 TTTGGCATC
83521939 TCTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 25 0.40
87 1 0.02
88 36 0.57
89 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (86 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTACAAG
Found at i:83522079 original size:78 final size:78
Alignment explanation
Indices: 83521971--83522265 Score: 520
Period size: 78 Copynumber: 3.8 Consensus size: 78
83521961 CGAAGAAACA
** * *
83521971 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
83522036 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
83522049 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
83522114 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
83522127 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
83522191 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
83522205 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
83522266 GTGTTTACAT
Statistics
Matches: 207, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
77 1 0.00
78 205 0.99
79 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:83522255 original size:156 final size:159
Alignment explanation
Indices: 83521970--83522345 Score: 530
Period size: 156 Copynumber: 2.3 Consensus size: 159
83521960 TCGAAGAAAC
** * * *
83521970 AGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGACCTTCATTGA
83522035 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATC
65 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATC
83522100 TGACCTTCA-T-T-GAAGCAGATCCAAGAT
130 TGACCTTCATTATCGAAGCAGATCCAAGAT
83522127 -GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATT-GACCTTCATTGA
*
83522191 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
65 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATC
83522256 TGACCTTCATGTGTTTACATCGAAGCAGATCCAAGAT
130 TGACCTTCA-----TT--ATCGAAGCAGATCCAAGAT
* *
83522293 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG--GAGATAACAGATT
1 ---AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATT
83522346 TGGCATCTCT
Statistics
Matches: 196, Mismatches: 8, Indels: 19
0.88 0.04 0.09
Matches are distributed among these distances:
155 1 0.01
156 130 0.66
162 1 0.01
165 1 0.01
166 16 0.08
168 12 0.06
170 35 0.18
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (159 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
GACCTTCATTATCGAAGCAGATCCAAGAT
Found at i:83522358 original size:45 final size:45
Alignment explanation
Indices: 83522205--83522478 Score: 313
Period size: 45 Copynumber: 6.1 Consensus size: 45
83522195 GATCCAAGAT
*
83522205 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
83522252 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
83522297 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
83522342 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
**
83522386 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
83522431 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
83522476 GAT
1 GAT
83522479 ATGCCTTCCT
Statistics
Matches: 190, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.23
45 114 0.60
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:83522416 original size:89 final size:90
Alignment explanation
Indices: 83522205--83522478 Score: 315
Period size: 89 Copynumber: 3.0 Consensus size: 90
83522195 GATCCAAGAT
* * * * *
83522205 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAGATTTGGCATCTC-TGT-
* * * *
83522269 TTTACATC--GAAGCAGATCCAAGAT-GACA
62 ATTAGA-CGGGGAGCAGATCAAAGATAG-CA
*
83522297 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
**
83522362 GACGGGGAGCAGATTGAAGA-AGCA
66 GACGGGGAGCAGATCAAAGATAGCA
** * *
83522386 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
83522451 GACGGGGAGCAGATCAAAGATAGCA
66 GACGGGGAGCAGATCAAAGATAGCA
83522476 GAT
1 GAT
83522479 ATGCCTTCCT
Statistics
Matches: 159, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 84 0.53
90 35 0.22
91 2 0.01
92 37 0.23
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGGGGAGCAGATCAAAGATAGCA
Found at i:83522448 original size:134 final size:135
Alignment explanation
Indices: 83522205--83522461 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 135
83522195 GATCCAAGAT
*
83522205 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGA-CTTCATCTGT
*
83522270 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
64 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
83522335 GATAACA
129 GATAACA
* * *
83522342 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTG-GTGTC-TCTGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACT-TCATCTGT-
* * * *
83522403 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCA
64 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
83522462 GATCAAAGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
132 6 0.06
133 6 0.06
134 56 0.52
135 1 0.01
137 38 0.36
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (135 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACTTCATCTGTTT
ACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGA
TAACA
Found at i:83522858 original size:17 final size:17
Alignment explanation
Indices: 83522838--83522899 Score: 88
Period size: 18 Copynumber: 3.5 Consensus size: 17
83522828 ATGATATGCT
83522838 ATCTTAGATATGATACA
1 ATCTTAGATATGATACA
*
83522855 ATCTTAGATATGATTGCA
1 ATCTTAGATATGA-TACA
83522873 ATCTTAGATATGATATGCA
1 ATCTTAGATATGATA--CA
83522892 ATCTTAGA
1 ATCTTAGA
83522900 AGATATGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.35
18 16 0.40
19 10 0.25
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (17 bp):
ATCTTAGATATGATACA
Found at i:83522878 original size:35 final size:37
Alignment explanation
Indices: 83522828--83522906 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
83522818 ATAATCTTCA
*
83522828 ATGATATGCTATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
83522864 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
83522900 A-GATATG
1 ATGATATG
83522907 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:83522906 original size:17 final size:19
Alignment explanation
Indices: 83522828--83522899 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
83522818 ATAATCTTCA
*
83522828 ATGATATGCTATCTTAGAT
1 ATGATATGCAATCTTAGAT
83522847 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83522864 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
83522882 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
83522900 AGATATGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 18 0.37
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:83522925 original size:22 final size:22
Alignment explanation
Indices: 83522860--83522922 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
83522850 ATACAATCTT
83522860 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
83522878 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
83522900 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
83522923 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:83523192 original size:17 final size:17
Alignment explanation
Indices: 83523166--83523202 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
83523156 CATGTTTCCC
*
83523166 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
83523184 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
83523201 TA
1 TA
83523203 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:83524623 original size:88 final size:88
Alignment explanation
Indices: 83524474--83524649 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
83524464 AAATTTCTAT
83524474 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
83524539 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
*
83524562 ATATTTTATGAAGTTTTCTCCTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
83524627 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
83524650 TTAGAATGTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (88 bp):
ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
GCATGAAATTATAATATAAGGAA
Found at i:83527046 original size:24 final size:24
Alignment explanation
Indices: 83527019--83527070 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
83527009 TTAGTAAGTC
*
83527019 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
83527043 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
83527067 AAAT
1 AAAT
83527071 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:83529015 original size:24 final size:24
Alignment explanation
Indices: 83528988--83529039 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
83528978 TTAGTAAGTC
*
83528988 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
83529012 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
83529036 AAAT
1 AAAT
83529040 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:83531885 original size:289 final size:290
Alignment explanation
Indices: 83531335--83531985 Score: 783
Period size: 289 Copynumber: 2.2 Consensus size: 290
83531325 ACATGAAAGC
* * ** * * * **
83531335 CAAATCAGCTACGT-CTTCGATTTGTTCCTTGTAAGTACAAGGATACCAAACCATCTTGGATCTG
1 CAAATCTGCTATGTCCTT-GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAAATCTG
*
83531399 CTTCAGCATAAACATCTGAAGGTGAGATCTGCTATATGTCTGCCTTCCATCAAAGTGAAAATGCC
65 CTTCAGCATAAACATCTGAAGGTGAGATCTGCTATATGTCTGCCTTCCATCAAAGTGAAAACGCC
* * * *
83531464 AGACTTCGATTTGTTCTATGACAAAAAACCAGAGGCGACAAATCATCTTAGATTTGCTTCAGCGT
130 AAACTTCGATTTGTTCTATGAC-AAAAACCAGAGACGACAAATCATCTTAGACTTGCTTCAACGT
*
83531529 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCATTGTAAGCAAAAGGATACCAAAT
194 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCATTGTAAACAAAAGGATACCAAAT
*
83531594 CATCTTGGGTCTATTTGAGAACATCTGAGAGT
259 CATCTTGGATCTATTTGAGAACATCTGAGAGT
*
83531626 CAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGTCAAATCATCTTAAATCTGC
1 CAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAAATCTGC
* * * * * * * * *
83531691 TTTAGTATAAGCATCTGACA-GTTAGATCTGCTATGTGTCTTCCTTTCATCGAATA-TGGAGACG
66 TTCAGCATAAACATCTGA-AGGTGAGATCTGCTATATGTCTGCCTTCCATC-AA-AGTGAAAACG
* * * * * * * *
83531754 CCAAACTTTGATTTGTTCTCTGGC-AATA-CAGAGATGCCAAATCATCTTAGACTTGCTTTAATG
128 CCAAACTTCGATTTGTTCTATGACAAAAACCAGAGACGACAAATCATCTTAGACTTGCTTCAACG
* ** * * * *
83531817 TGAACACGTGAAAGCCAAATCAGCTATGGT-TTCGATTTGTTCCTTGTAAACACAGGGATACTAA
193 TAAACACGTGAAAGCCAAATCAGCTAT-GTCTTCGATTTACTCATTGTAAACAAAAGGATACCAA
* *
83531881 ATCATCTTGGATTTTTTTGAGAACATCTGAGAGT
257 ATCATCTTGGATCTATTTGAGAACATCTGAGAGT
* ** *
83531915 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGT
1 CAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAAATCTGC
83531980 TTCAGC
66 TTCAGC
83531986 CAGATCTGTT
Statistics
Matches: 305, Mismatches: 50, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
289 176 0.58
290 5 0.02
291 92 0.30
292 31 0.10
293 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (290 bp):
CAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAAATCTGC
TTCAGCATAAACATCTGAAGGTGAGATCTGCTATATGTCTGCCTTCCATCAAAGTGAAAACGCCA
AACTTCGATTTGTTCTATGACAAAAACCAGAGACGACAAATCATCTTAGACTTGCTTCAACGTAA
ACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCATTGTAAACAAAAGGATACCAAATCA
TCTTGGATCTATTTGAGAACATCTGAGAGT
Found at i:83546766 original size:40 final size:40
Alignment explanation
Indices: 83546722--83546860 Score: 239
Period size: 40 Copynumber: 3.5 Consensus size: 40
83546712 GCATTTCTGA
83546722 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAAGG-T
1 ATCAATGAAAAGGTTGAAAAGGATGTTATCCG-AAAAGGAT
83546762 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
1 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
83546802 ATCATATGAAAAGGTTG--AAGGATGTTATCCGAAAAGGAT
1 ATCA-ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
83546841 ATCAATGAAAAGGTTGAAAA
1 ATCAATGAAAAGGTTGAAAA
83546861 TGATAACAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
38 12 0.13
39 32 0.34
40 39 0.41
41 12 0.13
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.23
Consensus pattern (40 bp):
ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
Found at i:83546865 original size:24 final size:24
Alignment explanation
Indices: 83546832--83546878 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
83546822 GATGTTATCC
*
83546832 GAAAAGGATATCAATGAAAAGGTT
1 GAAAAGGATAACAATGAAAAGGTT
*
83546856 GAAAATGATAACAATGAAAAGGT
1 GAAAAGGATAACAATGAAAAGGT
83546879 CGATATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAAAGGATAACAATGAAAAGGTT
Found at i:83546875 original size:39 final size:38
Alignment explanation
Indices: 83546722--83546877 Score: 118
Period size: 40 Copynumber: 3.9 Consensus size: 38
83546712 GCATTTCTGA
* ***
83546722 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAAGG-T
1 ATCAATGAAAAGGTTGAAAATGATAACAT--G-AAAAGGAT
* ***
83546762 ATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGAT
1 ATCAATGAAAAGGTTGAAAATGATAACAT--GAAAAGGAT
* * * *
83546802 ATCATATGAAAAGGTTGAAGGATGTTATC-CGAAAAGGAT
1 ATCA-ATGAAAAGGTTGAA-AATGATAACATGAAAAGGAT
83546841 ATCAATGAAAAGGTTGAAAATGATAACAATGAAAAGG
1 ATCAATGAAAAGGTTGAAAATGATAAC-ATGAAAAGG
83546878 TCGATATCTC
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
37 6 0.06
38 14 0.14
39 26 0.26
40 37 0.37
41 14 0.14
42 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (38 bp):
ATCAATGAAAAGGTTGAAAATGATAACATGAAAAGGAT
Found at i:83557299 original size:5 final size:5
Alignment explanation
Indices: 83557289--83557321 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
83557279 CAATTTGAGA
83557289 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
83557322 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:83557885 original size:41 final size:41
Alignment explanation
Indices: 83557837--83557953 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
83557827 ATTCAGTATT
* *
83557837 TCAATGAAAAGGTTGAAAAGGAAGTTATCCGAAAAACGATA
1 TCAATGAAAAGGTTGAAAAAGATGTTATCCGAAAAACGATA
*
83557878 TCAATGAAAAGGTTGAAAAAGATGTTATCC-AAAAAGGATA
1 TCAATGAAAAGGTTGAAAAAGATGTTATCCGAAAAACGATA
83557918 TCATATGAAAAGGTTGAAAAAGATGTTATCCGAAAA
1 TCA-ATGAAAAGGTTGAAAAAGATGTTATCCGAAAA
83557954 GGCTACTAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
40 12 0.17
41 55 0.77
42 4 0.06
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.22
Consensus pattern (41 bp):
TCAATGAAAAGGTTGAAAAAGATGTTATCCGAAAAACGATA
Found at i:83557954 original size:41 final size:41
Alignment explanation
Indices: 83557840--83557971 Score: 180
Period size: 41 Copynumber: 3.2 Consensus size: 41
83557830 CAGTATTTCA
* * *
83557840 ATGAAAAGGTTGAAAAGGAAGTTATCCGAAAAACGATATCA-
1 ATGAAAAGGTTGAAAAAGATGTTATCCG-AAAAGGATATCAT
*
83557881 ATGAAAAGGTTGAAAAAGATGTTATCCAAAAAGGATATCAT
1 ATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCAT
*
83557922 ATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGCTA-C-T
1 ATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCAT
83557961 AGTGAAAAGGT
1 A-TGAAAAGGT
83557972 CAAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 21 0.25
41 60 0.72
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCAT
Found at i:83562527 original size:40 final size:39
Alignment explanation
Indices: 83562449--83562531 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
83562439 CGACTTATCA
** *
83562449 GCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCTTCG
1 GCTAAAATGGCACTTAGTGTGCAATTCGAAATAACTTCG
* * *
83562488 GCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAACTTCG
1 GCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAACTTCG
83562528 GCTA
1 GCTA
83562532 TATTTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 7 0.19
40 30 0.81
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (39 bp):
GCTAAAATGGCACTTAGTGTGCAATTCGAAATAACTTCG
Found at i:83563892 original size:21 final size:21
Alignment explanation
Indices: 83563866--83563909 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
83563856 TTGACTAAGC
83563866 ATGATGTTTTAAGTATGTAAA
1 ATGATGTTTTAAGTATGTAAA
83563887 ATGATGTTTTAAGTATGTAAA
1 ATGATGTTTTAAGTATGTAAA
83563908 AT
1 AT
83563910 ATGATATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (21 bp):
ATGATGTTTTAAGTATGTAAA
Found at i:83567550 original size:12 final size:12
Alignment explanation
Indices: 83567517--83567557 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
83567507 ACTACCAAAC
83567517 ATTTAATCACA-
1 ATTTAATCACAT
83567528 ATGTTAA-CACAT
1 AT-TTAATCACAT
83567540 ATTTAATCACAT
1 ATTTAATCACAT
*
83567552 AATTAA
1 ATTTAA
83567558 CCATGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (12 bp):
ATTTAATCACAT
Found at i:83569003 original size:40 final size:40
Alignment explanation
Indices: 83568945--83569062 Score: 146
Period size: 40 Copynumber: 3.0 Consensus size: 40
83568935 ATTATGTTTG
* *
83568945 GCACTTAGTGTGCATATTGAAATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
* *
83568985 GCACTTAGTGTGCGTATTGAGATAACTTAGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
* * * * * *
83569025 GCAATTAGTGTGTGAATAGGAATAGCTTCGGCTATATA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATA
83569063 TATATATATA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
Found at i:83572346 original size:10 final size:10
Alignment explanation
Indices: 83572333--83572381 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
83572323 TTTATTTTCT
83572333 TTTATCTTTA
1 TTTATCTTTA
83572343 TTTATCTTTA
1 TTTATCTTTA
* *
83572353 GTTATATTTA
1 TTTATCTTTA
83572363 TTTAT-TTGTA
1 TTTATCTT-TA
83572373 TTTATCTTT
1 TTTATCTTT
83572382 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:83573084 original size:17 final size:18
Alignment explanation
Indices: 83573052--83573085 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83573042 TTTTTTCTAT
*
83573052 TTTAATTTATGCAATTTA
1 TTTAATTTACGCAATTTA
83573070 TTTAATTT-CGCAATTT
1 TTTAATTTACGCAATTT
83573086 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTACGCAATTTA
Found at i:83585840 original size:72 final size:72
Alignment explanation
Indices: 83585764--83585910 Score: 240
Period size: 72 Copynumber: 2.0 Consensus size: 72
83585754 GGGGGTGTGG
** **
83585764 AAACAAAAATTTATATGCTTTTTCATATCCATTTTTACTTAAATTCTTATTGAAAAATAATTACA
1 AAACAAAAATTTATATGCTTTTTCATATCCAAATCCACTTAAATTCTTATTGAAAAATAATTACA
83585829 TTATTAT
66 TTATTAT
**
83585836 AAACAAAAATTTATATGCTTTTTCATATCCAAATCCGGTTAAATTCTTATTGAAAAATAATTACA
1 AAACAAAAATTTATATGCTTTTTCATATCCAAATCCACTTAAATTCTTATTGAAAAATAATTACA
83585901 TTATTAT
66 TTATTAT
83585908 AAA
1 AAA
83585911 ATAATTAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (72 bp):
AAACAAAAATTTATATGCTTTTTCATATCCAAATCCACTTAAATTCTTATTGAAAAATAATTACA
TTATTAT
Found at i:83588285 original size:46 final size:48
Alignment explanation
Indices: 83588213--83588332 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
83588203 GACAGGACAG
* * * *
83588213 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
83588259 GACAGGAATGATCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
83588307 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGATCCATGTAAGTCCAT
83588333 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 26 0.41
47 1 0.02
48 36 0.57
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:83588918 original size:67 final size:67
Alignment explanation
Indices: 83588840--83588976 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
83588830 ATTAGCTAAT
83588840 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
1 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
83588905 TA
66 TA
83588907 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
1 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
83588972 TA
66 TA
83588974 AGA
1 AGA
83588977 AAAATGTGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (67 bp):
AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
TA
Found at i:83592187 original size:28 final size:28
Alignment explanation
Indices: 83592147--83592225 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
83592137 GCAGTTAAAT
* *
83592147 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
**
83592175 ATGGCACTTAGTGTGCGCGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
83592203 ATGACACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
83592226 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:83596656 original size:39 final size:40
Alignment explanation
Indices: 83596613--83596694 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
83596603 CTACTTACTC
**
83596613 CCTCATTACAATTTGGTAACTCTGCCCCACTATTT-ATTT
1 CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
* **
83596652 CCTCATTAGAATTTGGTATTTCACCCCCACTATTTAATTT
1 CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
83596692 CCT
1 CCT
83596695 TTCCCTAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.41
Consensus pattern (40 bp):
CCTCATTACAATTTGGTAACTCACCCCCACTATTTAATTT
Found at i:83597016 original size:12 final size:12
Alignment explanation
Indices: 83596999--83597026 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83596989 AGCAAAACCG
83596999 GTTTTTAGCGGC
1 GTTTTTAGCGGC
83597011 GTTTTTAGCGGC
1 GTTTTTAGCGGC
83597023 GTTT
1 GTTT
83597027 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:83597156 original size:40 final size:40
Alignment explanation
Indices: 83597032--83597140 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
83597022 CGTTTGAATG
* * *
83597032 AAAAACACGGCTAAAGAACAAGCATTAGCGGTGCTTTTTA
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGTGCTTTTTA
* * * **
83597072 AAAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTGTACA
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGTGCTTTTTA
83597112 AAAAACACCGCTAAAGATCAAGTATTAGC
1 AAAAACACCGCTAAAGATCAAGTATTAGC
83597141 AGCACTTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (40 bp):
AAAAACACCGCTAAAGATCAAGTATTAGCGGTGCTTTTTA
Found at i:83597331 original size:40 final size:40
Alignment explanation
Indices: 83597276--83597387 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
83597266 AGATCGAGTA
* *
83597276 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAAGTACACCT
1 TTAGCGGCGCTTTTTAAAAAACGCCACTAAAAGTACACCT
* *
83597316 TTAGCGGCGCTTTTTAAAAAACGCCACTATATGTACACCT
1 TTAGCGGCGCTTTTTAAAAAACGCCACTAAAAGTACACCT
**
83597356 TTAGCGTTG-TTTTTCAAAAAACGCCAC-AAAAG
1 TTAGCGGCGCTTTTT-AAAAAACGCCACTAAAAG
83597388 AATTTTGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.13
40 55 0.87
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACGCCACTAAAAGTACACCT
Found at i:83599338 original size:26 final size:26
Alignment explanation
Indices: 83599307--83599388 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
83599297 TGAAATGCCC
83599307 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
83599333 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
83599359 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
83599385 ATCA
1 ATCA
83599389 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:83600009 original size:21 final size:21
Alignment explanation
Indices: 83599963--83600014 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
83599953 TTAATTATCA
* *
83599963 TTATAGTTTAGGGTTTATGAT
1 TTATGGTTAAGGGTTTATGAT
*
83599984 ATATGGTTAAGGGTTTAATG-T
1 TTATGGTTAAGGGTTT-ATGAT
83600005 TTATGAGTTA
1 TTATG-GTTA
83600015 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGAT
Found at i:83600062 original size:15 final size:15
Alignment explanation
Indices: 83600026--83600058 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
83600016 TATTTTAAGT
*
83600026 TTTATGGATTATAGG
1 TTTAGGGATTATAGG
83600041 TTTAGGGATTAT-GG
1 TTTAGGGATTATAGG
83600055 TTTA
1 TTTA
83600059 AGGGTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATAGG
Found at i:83600153 original size:14 final size:14
Alignment explanation
Indices: 83600136--83600183 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
83600126 AGGTTTATGT
83600136 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
* *
83600150 TTTAGGGTTTATGG
1 TTTAGGATTTAGGG
*
83600164 ATTAGGAGTTTAGGG
1 TTTAGGA-TTTAGGG
83600179 TTTAG
1 TTTAG
83600184 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:83600359 original size:15 final size:15
Alignment explanation
Indices: 83600339--83600368 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83600329 ACTGTTTTAA
*
83600339 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
83600354 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
83600369 ATTTAGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:83600437 original size:7 final size:7
Alignment explanation
Indices: 83600334--83600479 Score: 64
Period size: 7 Copynumber: 20.7 Consensus size: 7
83600324 GAGTTACTGT
*
83600334 TTTAAGG
1 TTTAGGG
*
83600341 TTTATGG
1 TTTAGGG
*
83600348 ATTATGGG
1 TTTA-GGG
83600356 TTTAGGG
1 TTTAGGG
* * *
83600363 ATTATGA
1 TTTAGGG
83600370 TTTAGGG
1 TTTAGGG
*
83600377 TTTAATGG
1 TTT-AGGG
*
83600385 TTGA-GG
1 TTTAGGG
*
83600391 TTTAAGG
1 TTTAGGG
*
83600398 CTTAGGG
1 TTTAGGG
*
83600405 GTTAGGAG
1 TTTAGG-G
* *
83600413 TTAAGTG
1 TTTAGGG
*
83600420 -TTAGGTT
1 TTTAGG-G
83600427 TTTAGGG
1 TTTAGGG
*
83600434 TTTAGAG
1 TTTAGGG
* *
83600441 ATTA-TG
1 TTTAGGG
* *
83600447 TTTATGA
1 TTTAGGG
83600454 TTTAGGG
1 TTTAGGG
83600461 TTTAGGG
1 TTTAGGG
83600468 TTTAGGG
1 TTTAGGG
83600475 TTTAG
1 TTTAG
83600480 AGGATAGGGG
Statistics
Matches: 101, Mismatches: 31, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
6 12 0.12
7 70 0.69
8 19 0.19
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:83600471 original size:14 final size:14
Alignment explanation
Indices: 83600283--83600479 Score: 69
Period size: 14 Copynumber: 13.9 Consensus size: 14
83600273 TATCATTATA
*
83600283 GTTTATGGTTTAGG
1 GTTTAGGGTTTAGG
*
83600297 GTTTAAGGTTTAGG
1 GTTTAGGGTTTAGG
** * *
83600311 GTTTAAAGTGTATGA
1 GTTTAGGGTTTA-GG
* * *
83600326 G-TTACTGTTTTAAG
1 GTTTA-GGGTTTAGG
* *
83600340 GTTTATGGATTATGG
1 GTTTAGGGTTTA-GG
* *
83600355 GTTTAGGGATTATG
1 GTTTAGGGTTTAGG
* *
83600369 ATTTAGGGTTTAATG
1 GTTTAGGGTTT-AGG
* *
83600384 GTTGA-GGTTTAAG
1 GTTTAGGGTTTAGG
* *
83600397 GCTTAGGGGTTAGG
1 GTTTAGGGTTTAGG
* *
83600411 AGTTAAGTG-TTAGG
1 -GTTTAGGGTTTAGG
* *
83600425 TTTTTAGGGTTTAGA
1 -GTTTAGGGTTTAGG
* * *
83600440 GATTA-TGTTTATG
1 GTTTAGGGTTTAGG
*
83600453 ATTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
83600467 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
83600480 AGGATAGGGG
Statistics
Matches: 132, Mismatches: 42, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
13 13 0.10
14 84 0.64
15 35 0.27
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:83600478 original size:21 final size:21
Alignment explanation
Indices: 83600283--83600479 Score: 69
Period size: 21 Copynumber: 9.3 Consensus size: 21
83600273 TATCATTATA
* *
83600283 GTTTATGGTTTAGGGTTTAAG
1 GTTTAGGGTTTAGGGTTTAGG
** * *
83600304 GTTTAGGGTTTAAAGTGTATGA
1 GTTTAGGGTTTAGGGTTTA-GG
* * * *
83600326 G-TTACTGTTTTAAGGTTTATG
1 GTTTA-GGGTTTAGGGTTTAGG
* * *
83600347 GATTATGGGTTTAGGGATTATG
1 GTTTA-GGGTTTAGGGTTTAGG
* * *
83600369 ATTTAGGGTTTAATGGTTGA-G
1 GTTTAGGGTTT-AGGGTTTAGG
* * *
83600390 GTTTAAGGCTTAGGGGTTAGG
1 GTTTAGGGTTTAGGGTTTAGG
* * *
83600411 AGTTAAGTG-TTAGGTTTTTAGG
1 -GTTTAGGGTTTAGG-GTTTAGG
* * * *
83600433 GTTTAGAGATTA-TGTTTATG
1 GTTTAGGGTTTAGGGTTTAGG
*
83600453 ATTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTAGGGTTTAGG
83600474 GTTTAG
1 GTTTAG
83600480 AGGATAGGGG
Statistics
Matches: 123, Mismatches: 44, Indels: 18
0.66 0.24 0.10
Matches are distributed among these distances:
20 19 0.15
21 57 0.46
22 47 0.38
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAGG
Found at i:83602844 original size:50 final size:50
Alignment explanation
Indices: 83602717--83602908 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
83602707 TATGTAGCCA
* ** *
83602717 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGA-CC
1 AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCC
* * *
83602766 AATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCT
1 AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCC
* * *
83602816 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCG
1 AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCC
* * *
83602866 AAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 AA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
83602909 TGCGACCTAG
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
49 41 0.33
50 50 0.40
51 35 0.28
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCC
Found at i:83602899 original size:101 final size:99
Alignment explanation
Indices: 83602717--83602908 Score: 276
Period size: 99 Copynumber: 1.9 Consensus size: 99
83602707 TATGTAGCCA
* * ** * *
83602717 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAATTATCTGGTACACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACA
83602782 TAGTAGCCTGCACTTAGTACTACACACGTGATCT
66 TAGTAGCCTGCACTTAGTACTACACACGTGATCT
* * * *
83602816 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACA
83602881 CATAGTAGCCTGCACTTAGTACTACACA
64 CATAGTAGCCTGCACTTAGTACTACACA
83602909 TGCGACCTAG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 41 0.51
100 3 0.04
101 37 0.46
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (99 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGTGATCT
Found at i:83602935 original size:101 final size:99
Alignment explanation
Indices: 83602717--83602917 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
83602707 TATGTAGCCA
* * * ** * *
83602717 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAATTATCTGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACA
* *
83602782 TAGTAGCCTGCACTTAGTACTACACACGTGATCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * *
83602816 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACA
*
83602881 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
83602917 A
1 A
83602918 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 41 0.47
100 3 0.03
101 43 0.49
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:83603728 original size:30 final size:30
Alignment explanation
Indices: 83603694--83603754 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
83603684 TCCTTAACTC
83603694 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
83603724 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
83603754 A
1 A
83603755 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:83604971 original size:16 final size:18
Alignment explanation
Indices: 83604942--83604983 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
83604932 AAAAAAATAG
83604942 AAAAAATATGTTAAAAAT
1 AAAAAATATGTTAAAAAT
*
83604960 AAAAAAT-T-TTAAAATT
1 AAAAAATATGTTAAAAAT
*
83604976 AAACAATA
1 AAAAAATA
83604984 GTGGCGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAATATGTTAAAAAT
Found at i:83608498 original size:15 final size:16
Alignment explanation
Indices: 83608478--83608508 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
83608468 GTTTTTGTCT
83608478 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
83608493 TATATATGATCTAAAA
1 TATATATGATCTAAAA
83608509 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:83609129 original size:17 final size:17
Alignment explanation
Indices: 83609107--83609145 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
83609097 ATTAAGATTA
83609107 TGATAACTAAAAACCTG
1 TGATAACTAAAAACCTG
83609124 TGATAACTAAAAACCTG
1 TGATAACTAAAAACCTG
83609141 TGATA
1 TGATA
83609146 TTTGTGAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
TGATAACTAAAAACCTG
Found at i:83609502 original size:30 final size:30
Alignment explanation
Indices: 83609468--83609527 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
83609458 TCCTTGTTTT
83609468 GCTCAATCAGGTGACCGAGATTCCGTTTAA
1 GCTCAATCAGGTGACCGAGATTCCGTTTAA
83609498 GCTCAATCAGGTGACCGAGATTCCGTTTAA
1 GCTCAATCAGGTGACCGAGATTCCGTTTAA
83609528 CAATTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (30 bp):
GCTCAATCAGGTGACCGAGATTCCGTTTAA
Found at i:83610177 original size:43 final size:43
Alignment explanation
Indices: 83610098--83610180 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
83610088 TTTAGTTGTG
* * * * *
83610098 TTTTTGGGAAAAGCGCCGCTAAAGGTCCTGATCTTTAGCGACA
1 TTTTTGGGAAAAGCACCACTAAAGATCATGACCTTTAGCGACA
*
83610141 TTTTTGGGAAAAGCACCACTAAAGATTATGACCTTTAGCG
1 TTTTTGGGAAAAGCACCACTAAAGATCATGACCTTTAGCG
83610181 GCCTCTTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
TTTTTGGGAAAAGCACCACTAAAGATCATGACCTTTAGCGACA
Found at i:83610505 original size:12 final size:12
Alignment explanation
Indices: 83610488--83610528 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
83610478 ATAACATTAA
*
83610488 TAATATCCATAC
1 TAATATACATAC
83610500 TAATATACATAC
1 TAATATACATAC
83610512 ATAATATACATAC
1 -TAATATACATAC
83610525 TAAT
1 TAAT
83610529 TTATTAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATATACATAC
Found at i:83610509 original size:25 final size:25
Alignment explanation
Indices: 83610451--83610528 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 25
83610441 TGTCACATAC
* *
83610451 CATACATAACATACACACTAATATA
1 CATACATAATATACATACTAATATA
83610476 TCATAACATTAATAATATCCATACTAATATA
1 -CAT-ACA-TAAT-ATA--CATACTAATATA
83610507 CATACATAATATACATACTAAT
1 CATACATAATATACATACTAAT
83610529 TTATTAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
25 9 0.20
26 3 0.07
27 6 0.13
28 7 0.16
29 6 0.13
30 3 0.07
31 11 0.24
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (25 bp):
CATACATAATATACATACTAATATA
Found at i:83610895 original size:87 final size:86
Alignment explanation
Indices: 83610733--83610913 Score: 191
Period size: 87 Copynumber: 2.1 Consensus size: 86
83610723 ATAGATAACG
* * * * * * * * *
83610733 CCACTAAAAGTCATGACCTTTAGCGGCGGTTTCCCCACAAACGCCGCTAAAGGTCATGGCCTTTA
1 CCACTAAAAATAATAACCTTTAGCGACGCTTTCCCCAAAAACACCCCTAAAAGTCATGGCCTTTA
* * *
83610798 CCGACACTTTTTTCTAAAAACA
66 ACAACACTTTTCT-TAAAAACA
* * *
83610820 CCACTAAAAATAATAACCTTTAGCGACGCTTTTCTCAAAAACACCCCTAAAAGTTATGGCCTTTA
1 CCACTAAAAATAATAACCTTTAGCGACGCTTTCCCCAAAAACACCCCTAAAAGTCATGGCCTTTA
* *
83610885 ACAACGCTTTTCTTAAAAATA
66 ACAACACTTTTCTTAAAAACA
*
83610906 CCGCTAAA
1 CCACTAAA
83610914 GGTTATGAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
86 14 0.18
87 62 0.82
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (86 bp):
CCACTAAAAATAATAACCTTTAGCGACGCTTTCCCCAAAAACACCCCTAAAAGTCATGGCCTTTA
ACAACACTTTTCTTAAAAACA
Found at i:83610919 original size:43 final size:43
Alignment explanation
Indices: 83610771--83610920 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 43
83610761 GTTTCCCCAC
* * * * * *
83610771 AAACGCCGCTAAAGGTCATGGCCTTTACCGACACTTTTTTCTAA
1 AAACACCGCTAAAAGTTATGGCCTTTAACGACGCTTTTCT-TAA
* * * ** * *
83610815 AAACACCACTAAAAATAATAACCTTTAGCGACGCTTTTCTCAA
1 AAACACCGCTAAAAGTTATGGCCTTTAACGACGCTTTTCTTAA
* *
83610858 AAACACCCCTAAAAGTTATGGCCTTTAACAACGCTTTTCTTAA
1 AAACACCGCTAAAAGTTATGGCCTTTAACGACGCTTTTCTTAA
* *
83610901 AAATACCGCTAAAGGTTATG
1 AAACACCGCTAAAAGTTATG
83610921 AAATTTAAAA
Statistics
Matches: 84, Mismatches: 22, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
43 54 0.64
44 30 0.36
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (43 bp):
AAACACCGCTAAAAGTTATGGCCTTTAACGACGCTTTTCTTAA
Found at i:83611102 original size:19 final size:19
Alignment explanation
Indices: 83611057--83611103 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
83611047 ATCAAATTAA
*
83611057 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
83611076 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
83611095 AATAAAAAT
1 AATAAAAAT
83611104 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:83611127 original size:31 final size:32
Alignment explanation
Indices: 83611047--83611127 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 32
83611037 AAAATTCATT
83611047 ATCAAAT-TAAAATAAA-AATAAAAATATAGA
1 ATCAAATATAAAATAAATAATAAAAATATAGA
83611077 ATCAAA-ACTAAAATAAATAATAAAAAT-TAG-
1 ATCAAATA-TAAAATAAATAATAAAAATATAGA
*
83611107 ATTAAATATAAATATAAATAA
1 ATCAAATATAAA-ATAAATAA
83611128 AATACAGCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
30 15 0.33
31 21 0.47
32 9 0.20
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (32 bp):
ATCAAATATAAAATAAATAATAAAAATATAGA
Found at i:83616371 original size:17 final size:18
Alignment explanation
Indices: 83616338--83616371 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83616328 TATTTCTTAA
83616338 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
83616356 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
83616372 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:83616814 original size:14 final size:14
Alignment explanation
Indices: 83616795--83616847 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
83616785 TAAAACAAAA
*
83616795 AAACCACAAACTCT
1 AAACCAAAAACTCT
* *
83616809 AAACCATAAACCCT
1 AAACCAAAAACTCT
83616823 AAACCAAAAACTCT
1 AAACCAAAAACTCT
83616837 AAACCAAAAAC
1 AAACCAAAAAC
83616848 AATAAACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:83616853 original size:14 final size:14
Alignment explanation
Indices: 83616795--83616854 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
83616785 TAAAACAAAA
* *
83616795 AAACCACAAACTCT
1 AAACCAAAAACACT
* *
83616809 AAACCATAAACCCT
1 AAACCAAAAACACT
*
83616823 AAACCAAAAACTCT
1 AAACCAAAAACACT
*
83616837 AAACCAAAAACAAT
1 AAACCAAAAACACT
83616851 AAAC
1 AAAC
83616855 ATTATCTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (14 bp):
AAACCAAAAACACT
Found at i:83616853 original size:28 final size:28
Alignment explanation
Indices: 83616786--83616854 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
83616776 TACTAACTGT
* *
83616786 AAAACAAAAAAACCACAAACTCTAAACCA
1 AAAAC-AATAAACCAAAAACTCTAAACCA
* **
83616815 TAAACCCTAAACCAAAAACTCTAAACCA
1 AAAACAATAAACCAAAAACTCTAAACCA
83616843 AAAACAATAAAC
1 AAAACAATAAAC
83616855 ATTATCTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.10
Consensus pattern (28 bp):
AAAACAATAAACCAAAAACTCTAAACCA
Found at i:83617489 original size:14 final size:15
Alignment explanation
Indices: 83617461--83617498 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
83617451 TACCATATTT
83617461 ACCTCTAAACCCCAA
1 ACCTCTAAACCCCAA
*
83617476 ACCTC-AAACTCCAA
1 ACCTCTAAACCCCAA
83617490 ACC-CTAAAC
1 ACCTCTAAAC
83617499 TCTAGGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.71
15 5 0.24
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (15 bp):
ACCTCTAAACCCCAA
Found at i:83617631 original size:40 final size:41
Alignment explanation
Indices: 83617556--83617777 Score: 297
Period size: 41 Copynumber: 5.5 Consensus size: 41
83617546 TTTTGTGGCA
* *
83617556 TTTTTCAAAAGGCGTCGCTAAAAGCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
*
83617597 TTTTTCAAAAAGCGCCGCT-AAAGCTCGATCTATAGCGGTG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* * *
83617637 TTTTTCAAAAAACGCCGCTAAAAGCTCGATCTATAGCTGTG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* * *
83617678 TTTCTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* * *
83617719 TTTTTCCAAAAGCG-CGCTAAAACCTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* *
83617759 TTTTTC-CAAAGTGCCGCTA
1 TTTTTCAAAAAGCGCCGCTA
83617778 TTGTTCAGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 5 0.03
40 74 0.45
41 85 0.52
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
Found at i:83617691 original size:81 final size:80
Alignment explanation
Indices: 83617556--83617777 Score: 302
Period size: 81 Copynumber: 2.8 Consensus size: 80
83617546 TTTTGTGGCA
* * *
83617556 TTTTTCAAAAGGCGTCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGC
1 TTTTTCAAAAAGCG-CGCTAAAAGCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAACC
*
83617621 TCGATCTATAGCGGTG
65 TCGATCTATAGCGGCG
* * * *
83617637 TTTTTCAAAAAACGCCGCTAAAAGCTCGATCTATAGCTGTGTTTCTCCAAAAGCGCCGCTAAAAC
1 TTTTTCAAAAAGCG-CGCTAAAAGCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCT-AAAC
83617702 CTCGATCTATAGCGGCG
64 CTCGATCTATAGCGGCG
* * * *
83617719 TTTTTCCAAAAGCGCGCTAAAACCTCGACCTATAGCGGCGTTTTTCC-AAAGTGCCGCTA
1 TTTTTCAAAAAGCGCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTA
83617778 TTGTTCAGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 10 0.08
81 81 0.66
82 31 0.25
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (80 bp):
TTTTTCAAAAAGCGCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAACCT
CGATCTATAGCGGCG
Found at i:83617817 original size:41 final size:41
Alignment explanation
Indices: 83617771--83617879 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 41
83617761 TTTCCAAAGT
* * * * * *
83617771 GCCGCTATTGTTCAGTTTTTAGCGGTGTTTGGACCAAAAAC
1 GCCGCTATTGCTCAGTTTATAACGGCGCTTAGACCAAAAAC
83617812 GCCGCTATTGCTCAGTTTATAACGGCGCTTAGACCAAAAAC
1 GCCGCTATTGCTCAGTTTATAACGGCGCTTAGACCAAAAAC
* * * * *
83617853 GCTGCTATTACTTAGTTTTTTACGGCG
1 GCCGCTATTGCTCAGTTTATAACGGCG
83617880 TTTTTTTGCA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (41 bp):
GCCGCTATTGCTCAGTTTATAACGGCGCTTAGACCAAAAAC
Found at i:83618537 original size:22 final size:23
Alignment explanation
Indices: 83618487--83618540 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
83618477 ATGGATTTTG
* *
83618487 ATTTTAATGAATTTAATAAATGA
1 ATTTTAATAAATTTAACAAATGA
*
83618510 A-GTTAATAAATTTAACAAAT-A
1 ATTTTAATAAATTTAACAAATGA
83618531 ATTTTAATAA
1 ATTTTAATAA
83618541 TTTTTTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
ATTTTAATAAATTTAACAAATGA
Found at i:83622782 original size:39 final size:39
Alignment explanation
Indices: 83622728--83622802 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
83622718 TCCGCAACGT
* *
83622728 ATGCCTCAATCATCTGTTGATAAACCATGAGGGTTTCGG
1 ATGCCTCAACCATCTGTTGATAAACCATAAGGGTTTCGG
83622767 ATGCCTCAACCATCTGTTGATAAACCATAAGGGTTT
1 ATGCCTCAACCATCTGTTGATAAACCATAAGGGTTT
83622803 TGAACTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (39 bp):
ATGCCTCAACCATCTGTTGATAAACCATAAGGGTTTCGG
Found at i:83624979 original size:47 final size:47
Alignment explanation
Indices: 83624864--83624985 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
83624854 GCCCATAATT
* * *
83624864 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCATAAGC
*
83624910 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA-GCCT--TTACATCCATAAGC
*
83624957 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
83624986 ACTCAAATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 26 0.39
47 30 0.45
48 5 0.07
49 1 0.01
50 5 0.07
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCATAAGC
Found at i:83628501 original size:19 final size:20
Alignment explanation
Indices: 83628470--83628518 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
83628460 TATCTTAACC
*
83628470 ATTAAATCTAAAAA-AAT-T
1 ATTAAAACTAAAAATAATAT
83628488 ATTACAAACTAAAAATAATAT
1 ATTA-AAACTAAAAATAATAT
83628509 ATTAAAACTA
1 ATTAAAACTA
83628519 TCTTAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 9 0.33
21 5 0.19
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTAAAACTAAAAATAATAT
Found at i:83631537 original size:19 final size:19
Alignment explanation
Indices: 83631510--83631556 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
83631500 GTTATTATTT
* *
83631510 TTTATTAAATAAAATAATC
1 TTTACTAAATAAAATAATA
* *
83631529 TTTACTAAATGAAATTATA
1 TTTACTAAATAAAATAATA
83631548 TTT-CTAAAT
1 TTTACTAAAT
83631557 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTACTAAATAAAATAATA
Found at i:83632820 original size:16 final size:15
Alignment explanation
Indices: 83632799--83632837 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
83632789 TCTAAATACA
83632799 AGTTATTCCAAACAAT
1 AGTTATTCCAAAC-AT
*
83632815 AGTTATTCTAAACAT
1 AGTTATTCCAAACAT
*
83632830 AGCTATTC
1 AGTTATTC
83632838 TTGAAATGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AGTTATTCCAAACAT
Found at i:83632991 original size:16 final size:16
Alignment explanation
Indices: 83632961--83633008 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
83632951 TTCTTAACAT
*
83632961 AACTATTCTCGAACAAA
1 AACTATTCT-AAACAAA
* *
83632978 AATTATTCTAAACAAC
1 AACTATTCTAAACAAA
83632994 AACTATTCTAAACAA
1 AACTATTCTAAACAA
83633009 GAGTTGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (16 bp):
AACTATTCTAAACAAA
Found at i:83634975 original size:17 final size:17
Alignment explanation
Indices: 83634947--83634987 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
83634937 ATACAAAAGA
83634947 AAATGT-ATATATTCTT
1 AAATGTAATATATTCTT
83634963 AAATGTAATATATTCTT
1 AAATGTAATATATTCTT
83634980 AAATGTAA
1 AAATGTAA
83634988 AACAAACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (17 bp):
AAATGTAATATATTCTT
Found at i:83635445 original size:24 final size:24
Alignment explanation
Indices: 83635413--83635459 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
83635403 TACAATTAAT
*
83635413 TTCTCGTTTTAGGAAGAAATATAC
1 TTCTCGTTTTAGGAAAAAATATAC
83635437 TTCTCGTTTTAGGAAAAAATATA
1 TTCTCGTTTTAGGAAAAAATATA
83635460 TGTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (24 bp):
TTCTCGTTTTAGGAAAAAATATAC
Found at i:83635632 original size:66 final size:66
Alignment explanation
Indices: 83635554--83635721 Score: 184
Period size: 66 Copynumber: 2.5 Consensus size: 66
83635544 GTGGCGTTTG
* * *
83635554 AGACCATAACAATCGACTTCTCTTTTGAGAATAACACGTATTTGAGAGT-AACAGAAA-TGGTGC
1 AGACCACAACAATCGACTTCTCTTTTGAGAATAACACGAATATGAGAGTGAA-A-AAAGTGGTG-
83635617 T-TA
63 TATA
* * **
83635620 AGACCACAACAATTGAATTCTCTTTTGAGAATAACTTGAATATGAGAGTGAAAAAAGTGGTGTAT
1 AGACCACAACAATCGACTTCTCTTTTGAGAATAACACGAATATGAGAGTGAAAAAAGTGGTGTAT
83635685 A
66 A
*
83635686 AGACCACAACAATCAACTT-TCCTCTTT-AGAATAACA
1 AGACCACAACAATCGACTTCT-CT-TTTGAGAATAACA
83635722 TGTAAGAGAG
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
65 5 0.06
66 76 0.88
67 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (66 bp):
AGACCACAACAATCGACTTCTCTTTTGAGAATAACACGAATATGAGAGTGAAAAAAGTGGTGTAT
A
Found at i:83637262 original size:24 final size:24
Alignment explanation
Indices: 83637235--83637283 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
83637225 CATTATAAGT
83637235 ATTCTCATCCCCATTCACAGGTTG
1 ATTCTCATCCCCATTCACAGGTTG
83637259 ATTCTCATCCCCATTCACAGGTTG
1 ATTCTCATCCCCATTCACAGGTTG
83637283 A
1 A
83637284 ATTTGTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (24 bp):
ATTCTCATCCCCATTCACAGGTTG
Found at i:83638622 original size:40 final size:39
Alignment explanation
Indices: 83638531--83638622 Score: 89
Period size: 40 Copynumber: 2.4 Consensus size: 39
83638521 TCAACTCTGA
* *
83638531 CCAACCCAACACACCATGTGGGGATAAAATCGACTTACT
1 CCAACCCAACACACCATATGGGGATAAAATCGACCTACT
* ** * *
83638570 -CATCCCTGCACACCGTATATGGGGATATAATCGACCTATT
1 CCAACCCAACACACC--ATATGGGGATAAAATCGACCTACT
83638610 CCAACCC-ACACAC
1 CCAACCCAACACAC
83638623 GATAAGGTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
38 11 0.27
40 25 0.61
41 5 0.12
ACGTcount: A:0.33, C:0.34, G:0.14, T:0.20
Consensus pattern (39 bp):
CCAACCCAACACACCATATGGGGATAAAATCGACCTACT
Found at i:83646083 original size:17 final size:18
Alignment explanation
Indices: 83646051--83646092 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
83646041 TCGTGTGGTT
*
83646051 CACCCGTGTGGGCCCACA
1 CACCCATGTGGGCCCACA
83646069 CACCCATGT-GGCCCACA
1 CACCCATGTGGGCCCACA
83646086 CGACCCA
1 C-ACCCA
83646093 CTTGCCTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.21, C:0.48, G:0.21, T:0.10
Consensus pattern (18 bp):
CACCCATGTGGGCCCACA
Found at i:83647527 original size:32 final size:31
Alignment explanation
Indices: 83647491--83647560 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
83647481 ACATAAAGCA
*
83647491 TTGTTATGAAC-ATAACTATTCTCAAACAACAG
1 TTGTTAT-AACAACAACTATTCT-AAACAACAG
* *
83647523 TTGTTCCTAACAACAACTATTCTAAACAAGAG
1 TTGTT-ATAACAACAACTATTCTAAACAACAG
83647555 TTGTTA
1 TTGTTA
83647561 CTCTAGAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
32 21 0.66
33 11 0.34
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (31 bp):
TTGTTATAACAACAACTATTCTAAACAACAG
Found at i:83648848 original size:28 final size:28
Alignment explanation
Indices: 83648808--83648861 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
83648798 TACTTAGACT
83648808 ATATTTAAATTCCATCATAAAACTAATC
1 ATATTTAAATTCCATCATAAAACTAATC
83648836 ATATTTAAATTCCATCATAAAACTAA
1 ATATTTAAATTCCATCATAAAACTAA
83648862 CCAAGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATTTAAATTCCATCATAAAACTAATC
Found at i:83653024 original size:26 final size:24
Alignment explanation
Indices: 83652994--83653043 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
83652984 AAATAAAAAA
*
83652994 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
83653020 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
83653044 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:83653149 original size:15 final size:16
Alignment explanation
Indices: 83653119--83653151 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
83653109 AAATGGTTAT
83653119 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
83653136 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
83653151 A
1 A
83653152 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:83657801 original size:36 final size:36
Alignment explanation
Indices: 83657759--83657831 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
83657749 CACATTTGAC
83657759 ATGGTATGGGGGCATGTTTCTCCAAATACAAGGGGA
1 ATGGTATGGGGGCATGTTTCTCCAAATACAAGGGGA
83657795 ATGGTATGGGGGCATGTTTCTCCAAATACAAGGGGA
1 ATGGTATGGGGGCATGTTTCTCCAAATACAAGGGGA
83657831 A
1 A
83657832 ACTTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.25
Consensus pattern (36 bp):
ATGGTATGGGGGCATGTTTCTCCAAATACAAGGGGA
Found at i:83662845 original size:18 final size:20
Alignment explanation
Indices: 83662819--83662855 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83662809 CAAACACCCC
83662819 ATGTGC-TTTCT-TCTTTTT
1 ATGTGCTTTTCTCTCTTTTT
*
83662837 ATGTTCTTTTCTCTCTTTT
1 ATGTGCTTTTCTCTCTTTT
83662856 ATAACGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 5 0.31
20 6 0.38
ACGTcount: A:0.05, C:0.19, G:0.08, T:0.68
Consensus pattern (20 bp):
ATGTGCTTTTCTCTCTTTTT
Found at i:83663020 original size:10 final size:10
Alignment explanation
Indices: 83663007--83663031 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
83662997 GTGTTATTTA
83663007 TAAATTTATT
1 TAAATTTATT
83663017 TAAATTTATT
1 TAAATTTATT
83663027 TAAAT
1 TAAAT
83663032 ATAATTTGAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAAATTTATT
Found at i:83663584 original size:23 final size:23
Alignment explanation
Indices: 83663537--83663586 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
83663527 ATTGCAATTT
**
83663537 AAAAATATAATTTAATTAGTCAA
1 AAAAATATAATTTAATTAGAAAA
*
83663560 AAAAATATAATTTAATTTGAAAA
1 AAAAATATAATTTAATTAGAAAA
83663583 AAAA
1 AAAA
83663587 GTTATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
AAAAATATAATTTAATTAGAAAA
Found at i:83663644 original size:19 final size:19
Alignment explanation
Indices: 83663609--83663648 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
83663599 TTGAAATCGT
*
83663609 AATTTAAAATTATATTTTG
1 AATTTAAAAATATATTTTG
83663628 AATTTAAAAA-ATAATTTTG
1 AATTTAAAAATAT-ATTTTG
83663647 AA
1 AA
83663649 GCCTCAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AATTTAAAAATATATTTTG
Found at i:83673282 original size:18 final size:18
Alignment explanation
Indices: 83673259--83673300 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
83673249 AAAACAAAAC
*
83673259 TTGAGAAAATTTAGAGAA
1 TTGAGAAAATTGAGAGAA
*
83673277 TTGAGAAAATTGAGAGAG
1 TTGAGAAAATTGAGAGAA
83673295 TTGAGA
1 TTGAGA
83673301 GTTTAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (18 bp):
TTGAGAAAATTGAGAGAA
Found at i:83673298 original size:9 final size:9
Alignment explanation
Indices: 83673259--83673320 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
83673249 AAAACAAAAC
*
83673259 TTGAGAAAA
1 TTGAGAGAA
*
83673268 TTTAGAGAA
1 TTGAGAGAA
*
83673277 TTGAGAAAA
1 TTGAGAGAA
*
83673286 TTGAGAGAG
1 TTGAGAGAA
*
83673295 TTGAGAG-T
1 TTGAGAGAA
*
83673303 TTAGAAAGAA
1 TT-GAGAGAA
83673313 TTGAGAGA
1 TTGAGAGA
83673321 GTTGGATTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 2 0.05
9 37 0.90
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:83673301 original size:27 final size:27
Alignment explanation
Indices: 83673272--83673332 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
83673262 AGAAAATTTA
*
83673272 GAGAATTGAG-AA-AATTGAGAGAGTT
1 GAGAGTTGAGAAAGAATTGAGAGAGTT
*
83673297 GAGAGTTTAGAAAGAATTGAGAGAGTT
1 GAGAGTTGAGAAAGAATTGAGAGAGTT
*
83673324 G-GATTTGAG
1 GAGAGTTGAG
83673333 TGAAAAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 8 0.27
26 8 0.27
27 14 0.47
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (27 bp):
GAGAGTTGAGAAAGAATTGAGAGAGTT
Found at i:83676419 original size:9 final size:9
Alignment explanation
Indices: 83676405--83676435 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
83676395 GATTAAGTAA
83676405 AATTAAATT
1 AATTAAATT
83676414 AATTAAATT
1 AATTAAATT
83676423 AATTAAAATT
1 AATT-AAATT
83676433 AAT
1 AAT
83676436 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:83679683 original size:16 final size:16
Alignment explanation
Indices: 83679662--83679701 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
83679652 ACTATGGTAA
*
83679662 TAATTACATTATTTTG
1 TAATTACATTATCTTG
83679678 TAATTACATTATCTTG
1 TAATTACATTATCTTG
83679694 TAATTACA
1 TAATTACA
83679702 AAGAATTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (16 bp):
TAATTACATTATCTTG
Found at i:83680073 original size:13 final size:13
Alignment explanation
Indices: 83680057--83680081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83680047 ATATTTTTTA
83680057 AATAAATTTTAAT
1 AATAAATTTTAAT
83680070 AATAAATTTTAA
1 AATAAATTTTAA
83680082 AGTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAAATTTTAAT
Found at i:83681892 original size:3 final size:3
Alignment explanation
Indices: 83681886--83681931 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
83681876 TTTTTACTTT
* *
83681886 TTC TTC TTC TTT TTC TTC TTC TTC TTC TATGC TTC TTC TTT TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-T-C TTC TTC TTC TTC TT
83681932 TTATTCCCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 33 0.89
4 2 0.05
5 2 0.05
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:83681892 original size:18 final size:18
Alignment explanation
Indices: 83681871--83681933 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
83681861 CCTCCTCCTT
*
83681871 TTCTT-TTTTTACTTTTTC
1 TTCTTCTTTTT-CTTCTTC
83681889 TTCTTCTTTTTCTTCTTC
1 TTCTTCTTTTTCTTCTTC
* *
83681907 TTCTTC-TATGCTTCTTC
1 TTCTTCTTTTTCTTCTTC
*
83681924 TTTTTCTTTT
1 TTCTTCTTTT
83681934 ATTCCCCAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 14 0.37
18 19 0.50
19 5 0.13
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.73
Consensus pattern (18 bp):
TTCTTCTTTTTCTTCTTC
Found at i:83681903 original size:9 final size:9
Alignment explanation
Indices: 83681869--83681931 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
83681859 TTCCTCCTCC
83681869 TTTTCTT-T
1 TTTTCTTCT
83681877 TTTTACTT-T
1 TTTT-CTTCT
83681886 TTCTTCTTCT
1 TT-TTCTTCT
83681896 TTTTCTTCT
1 TTTTCTTCT
*
83681905 TCTTCTTCT
1 TTTTCTTCT
*
83681914 ATGCTTCTTCT
1 -T-TTTCTTCT
83681925 TTTTCTT
1 TTTTCTT
83681932 TTATTCCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
8 4 0.08
9 29 0.60
10 7 0.15
11 8 0.17
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:83695744 original size:21 final size:22
Alignment explanation
Indices: 83695720--83695772 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
83695710 AAATTTTTTT
**
83695720 ATTTATAATTTGAT-ATAATAA
1 ATTTATAATGAGATCATAATAA
* *
83695741 ATTTTTAAGGAGATCATAATAA
1 ATTTATAATGAGATCATAATAA
83695763 ATTTAATAAT
1 ATTT-ATAAT
83695773 ATATCGTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.42
22 11 0.46
23 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (22 bp):
ATTTATAATGAGATCATAATAA
Found at i:83707091 original size:46 final size:46
Alignment explanation
Indices: 83707038--83707388 Score: 427
Period size: 46 Copynumber: 7.6 Consensus size: 46
83707028 TCTCTCTTAA
** * * *
83707038 ATGAAATGTGTAAAACCATGGTTGAAAGCTACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
83707084 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
83707130 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
83707176 ATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
83707222 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
83707268 GGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAGCGTG-C
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
83707313 AATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAATATGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
83707360 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
83707389 CACTATGACA
Statistics
Matches: 269, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.01
46 266 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:83707286 original size:138 final size:138
Alignment explanation
Indices: 83707037--83707398 Score: 494
Period size: 138 Copynumber: 2.6 Consensus size: 138
83707027 TTCTCTCTTA
** * * * * *
83707037 AATGAAATGTGTAAAACCATGGTTGAAAGCTACCATGGCAACATGATATGAAATGTGTAAGACCA
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCA
* * * ***
83707102 TGGTTGAAAGATACCATGGCAACATAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
66 TGGTTGAAAGATACCATGACAACATAACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGG
83707167 CAGCGTG-
131 CAGCGTGC
* * *
83707174 ACATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACC
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACC
*
83707239 ATGGTTGAAAGATACCATGACAACATAACGGGAAATGAACAAGACCATGGTTGAAAGATACCATG
65 ATGGTTGAAAGATACCATGACAACATAACAGGAAATGAACAAGACCATGGTTGAAAGATACCATG
83707304 GCAGCGTGC
130 GCAGCGTGC
* *
83707313 AATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAATATGACA-GAAAATGAGTAAGACC
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAGTAAGACC
* * *
83707377 ATAGTTGAAAGACACTATGACA
65 ATGGTTGAAAGATACCATGACA
83707399 TCATGTCAAA
Statistics
Matches: 197, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
137 6 0.03
138 190 0.96
139 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (138 bp):
AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCA
TGGTTGAAAGATACCATGACAACATAACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGG
CAGCGTGC
Found at i:83710187 original size:50 final size:50
Alignment explanation
Indices: 83710131--83710239 Score: 182
Period size: 50 Copynumber: 2.2 Consensus size: 50
83710121 TATACTTTTA
* * *
83710131 ATGTTTGGTAATAGACCTATAATGAATGAATGGGATTGAAATTGTTATGT
1 ATGTTTGGAAATAGACCTATAATGAATGAATGGGATTGAAATGGTTATGC
83710181 ATGTTTGGAAATAGACCTATAATGAATGAATGGGATTGAAATGGTTATGC
1 ATGTTTGGAAATAGACCTATAATGAATGAATGGGATTGAAATGGTTATGC
*
83710231 ACGTTTGGA
1 ATGTTTGGA
83710240 TTGGTTTTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.35
Consensus pattern (50 bp):
ATGTTTGGAAATAGACCTATAATGAATGAATGGGATTGAAATGGTTATGC
Found at i:83714313 original size:14 final size:14
Alignment explanation
Indices: 83714286--83714339 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
83714276 AATTTATTAT
* *
83714286 TTAATTAAAATTAAC
1 TTAATT-AACTTAAA
83714301 TTAATTAACTTAAA
1 TTAATTAACTTAAA
*
83714315 TTAACTAACTTTAATA
1 TTAATTAAC-TTAA-A
83714331 TTAATTAAC
1 TTAATTAAC
83714340 AAGGTTAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 14 0.42
15 10 0.30
16 9 0.27
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAACTTAAA
Done.