Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
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: 4148933
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:3913313 original size:54 final size:54
Alignment explanation
Indices: 3913231--3913338 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
3913221 TCTATCTTGA
3913231 CAATGATAGATGACAAGCACGAGGTATGGAGTTGGTTTAGATTGACCGACTTAG
1 CAATGATAGATGACAAGCACGAGGTATGGAGTTGGTTTAGATTGACCGACTTAG
3913285 CAATGATAGATGACAAGCACGAGGTATGGAGTTGGTTTAGATTGACCGACTTAG
1 CAATGATAGATGACAAGCACGAGGTATGGAGTTGGTTTAGATTGACCGACTTAG
3913339 GTGGTATGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (54 bp):
CAATGATAGATGACAAGCACGAGGTATGGAGTTGGTTTAGATTGACCGACTTAG
Found at i:3922424 original size:22 final size:22
Alignment explanation
Indices: 3922394--3922437 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3922384 GTTATTGTTG
3922394 ATGTATTAT-CAATAATGAAATGA
1 ATGTATTATGC-ATAAT-AAATGA
3922417 ATGT-TTATGCATAATAAATGA
1 ATGTATTATGCATAATAAATGA
3922438 TGCAAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
ATGTATTATGCATAATAAATGA
Found at i:3939024 original size:46 final size:46
Alignment explanation
Indices: 3938971--3939097 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
3938961 AGTTATGTAA
3938971 TTTCATTTGTGGCATCCTTTCATGCCAATTATG-AGCTGATATACAT
1 TTTCATTTGTGGCATCCTTTCATGCCAATTATGCA-CTGATATACAT
*
3939017 TTTCATTTGTGTCATCCTTTCATGCCAATTATGCACTGATATACAT
1 TTTCATTTGTGGCATCCTTTCATGCCAATTATGCACTGATATACAT
* *
3939063 TTTCATTTGTGGCATCATTTCATACCAATTATGCA
1 TTTCATTTGTGGCATCCTTTCATGCCAATTATGCA
3939098 TTTTTCTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 75 0.99
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (46 bp):
TTTCATTTGTGGCATCCTTTCATGCCAATTATGCACTGATATACAT
Found at i:3944131 original size:54 final size:54
Alignment explanation
Indices: 3944016--3944214 Score: 290
Period size: 54 Copynumber: 3.7 Consensus size: 54
3944006 CCAAGATAAT
* * * * * * *
3944016 AATTCACAAACTTATTATGAATTACGTAGGGTTACACACACAATGCCAATACGAA
1 AATTCATAAACTTATTATGAATTTCTTA-GTTTGCACACACAATGCCCATACGGA
* * * *
3944071 AATTCATAAACTCATTATGAATTTCTTAATTTGCACACATAGTGCCCATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCCATACGGA
3944125 AATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCCATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCCATACGGA
3944179 AATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
1 AATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
3944215 GCATAATGTC
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 105 0.81
55 24 0.19
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (54 bp):
AATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCCATACGGA
Found at i:3945187 original size:36 final size:36
Alignment explanation
Indices: 3945127--3945204 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
3945117 TAACACTATG
* * *
3945127 CATTTTCATTTGTGGTATCCTTTCATG-CAGATTATA
1 CATTGTCATTTATGGCATCCTTTCATGCCA-ATTATA
* *
3945163 CATTGTCATTTATGGCATCTTTTCATGCCAATTATG
1 CATTGTCATTTATGGCATCCTTTCATGCCAATTATA
3945199 CATTGT
1 CATTGT
3945205 TCTTCATCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (36 bp):
CATTGTCATTTATGGCATCCTTTCATGCCAATTATA
Found at i:3945533 original size:56 final size:56
Alignment explanation
Indices: 3945415--3946358 Score: 1514
Period size: 56 Copynumber: 16.8 Consensus size: 56
3945405 CCCACTACCA
* * * * *
3945415 ATACAGAAATTCATATACTTATTATCAATTTCTTAACTTTTTTCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTTGCACACAAAGTGCCC
* *
3945472 ATACGAAAATTCATAAACTTATTATGACTTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * * *
3945528 ATACGAAAATTCATAAACTTATTATGAATTTCTT-TTTTTTGTACACAAAGCGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
3945583 ATACGGAAATTCATAAACTTATTATAAATTTATTAACTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTTGCACACAAAGTGCCC
3945640 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
3945696 ATATGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACATATAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
3945752 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
3945808 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
*
3945864 ATACGGAAATTCATAAACTTATTATGAATTTTTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
3945920 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGCGCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
*
3945976 ATACGGAAATTTATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * **
3946032 A-ACCGGAAATTCATAAACTTATTATTAATTTCATAGTTTTTGCACACTCAGTGCCC
1 ATA-CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
3946088 ATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
3946144 AAACGGAAATTCATAAACTTATTATGAATTTTTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
3946200 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTTACACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * * *
3946256 ATGCGGAAATTCATAAACTTATTATGATTTTTTTAGTTTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
*
3946312 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTCCACAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACAC
3946359 TCAGTTTCAT
Statistics
Matches: 821, Mismatches: 62, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
55 50 0.06
56 691 0.84
57 80 0.10
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
Found at i:3953473 original size:13 final size:13
Alignment explanation
Indices: 3953430--3953465 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
3953420 CATATATGCA
3953430 TTTGCATTTTGCATC
1 TTTGCATTTT-CA-C
3953445 TTTGCATTTTCAC
1 TTTGCATTTTCAC
3953458 TTTGCATT
1 TTTGCATT
3953466 CTTACTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.14, C:0.19, G:0.11, T:0.56
Consensus pattern (13 bp):
TTTGCATTTTCAC
Found at i:3953501 original size:21 final size:21
Alignment explanation
Indices: 3953471--3953514 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3953461 GCATTCTTAC
*
3953471 TTTTACGTTTTCATTTGTATT
1 TTTTACGTTTTCATTTGCATT
*
3953492 TTTTATGTTTTCATTTGCATT
1 TTTTACGTTTTCATTTGCATT
3953513 TT
1 TT
3953515 GCATTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (21 bp):
TTTTACGTTTTCATTTGCATT
Found at i:3957655 original size:39 final size:39
Alignment explanation
Indices: 3957575--3957669 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
3957565 TAGATCCATG
* * *
3957575 TGGGGCATTTT-AAAGGATCACATCAATATGATAAAACGT
1 TGGGGCATTTTGAAA-GCTCACATCAACAAGATAAAACGT
*
3957614 TGGGGCATTTTGAAAGCTCACATCAACAAGA-AGAAATGT
1 TGGGGCATTTTGAAAGCTCACATCAACAAGATA-AAACGT
*
3957653 TGGGGCATGTTGAAAGC
1 TGGGGCATTTTGAAAGC
3957670 CCATTTCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.02
39 45 0.92
40 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGGGCATTTTGAAAGCTCACATCAACAAGATAAAACGT
Found at i:3957742 original size:74 final size:75
Alignment explanation
Indices: 3957647--3957822 Score: 239
Period size: 74 Copynumber: 2.4 Consensus size: 75
3957637 CAACAAGAAG
* * *
3957647 AAATGTTGGGGCATGTTGAAAGCCCATTTCAATCAGAAAT-AAGAATGTTGATGTGTTTTGAATA
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAAGAATGTTGATGCGTTTTGAACA
3957711 TTTGTATAAGC
65 TTTGTATAAGC
* * * * *
3957722 AAATGTT-GGGCATGCCGAAAGCTCATTTTAATCAGAATCAGGAATGTTGATGCGTTTTGAACGT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAACAT
*
3957786 TTGTATCAGC
66 TTGTATAAGC
*
3957796 AAATGTTGGGGCATGCTGAAGGCCCAT
1 AAATGTTGGGGCATGCTGAAAGCCCAT
3957823 ATCATCATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
73 3 0.03
74 61 0.70
75 23 0.26
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGCGTTTTGAACAT
TTGTATAAGC
Found at i:3958777 original size:54 final size:54
Alignment explanation
Indices: 3958702--3958851 Score: 205
Period size: 54 Copynumber: 2.8 Consensus size: 54
3958692 AAATCTAGAA
*
3958702 CAGAAGCCACAGA-AAAGGATGAATGTGTTGTCAAATATTTTACAAACATCTAGG
1 CAGAAGCCACA-ATAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTAGG
* * * * *
3958756 CAGAAGCCACAATAAAGGATGAACGTGTTGTCAAATGCTTCACGAACATCTGGG
1 CAGAAGCCACAATAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTAGG
*
3958810 CAGAAGCCAC-ATGAAATGATGAATGTGTTGTCAAATGTTTTA
1 CAGAAGCCACAAT-AAAGGATGAATGTGTTGTCAAATGTTTTA
3958852 TGAACCAGTG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.96
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (54 bp):
CAGAAGCCACAATAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTAGG
Found at i:3959269 original size:20 final size:22
Alignment explanation
Indices: 3959224--3959280 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
3959214 TACATATTAT
3959224 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
3959246 TCTTCAGAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
3959268 TTTTTAAAGATGA
1 TCTTCAAAGATGA
3959281 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:3960092 original size:86 final size:86
Alignment explanation
Indices: 3959947--3960658 Score: 1156
Period size: 86 Copynumber: 8.3 Consensus size: 86
3959937 CCCACATCTG
*
3959947 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGAGTCATCTGTAAGACCTCCAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
*
3960012 TTAAATCCTTCGGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
* * *
3960033 TAAGACCTCCAGTGCAAGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCTAGTGCAAGATA
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
3960098 TTAAATCCTCCGGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
* *
3960119 TAAGACCTCTAGTACAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
*
3960184 TTAAATCCTTCGGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
*
3960205 TAAGACCTCCATTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
*
3960270 TTAAATCCTCCGGGTCATCTA
66 TTAAATCCTCCGGGTCATCCA
* *
3960291 TAAAACCTCCAGTGCAGGATGTTTAAAATCCTTCGAGTCATCTGTAAGACCTCCAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
3960356 TTAAATCCTCCGGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
3960377 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
* *
3960442 ATAAATCCTCCTGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
* ** *
3960463 TAAGACCTCCAGTGCAGGATGATTAAAATCCTTCGAATCATCTGTAAGACCTCCAGTTCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
* *
3960528 TTAAATTCTCTGGGTCATCCA
66 TTAAATCCTCCGGGTCATCCA
* * *
3960549 TAAGACCTCCAGTGCAGGATGTTTAAAATTCTTTGGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
* ** *
3960614 ATAAGA-CCTCATGGCCATCCA
66 TTAA-ATCCTCCGGGTCATCCA
*
3960635 TAAGACCTACAGTGCAGGATGTTT
1 TAAGACCTCCAGTGCAGGATGTTT
3960659 TCAAAAAGCC
Statistics
Matches: 580, Mismatches: 45, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
86 579 1.00
87 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (86 bp):
TAAGACCTCCAGTGCAGGATGTTTAAAATCCTTCGGGTCATCTGTAAGACCTCCAGTGCAAGATG
TTAAATCCTCCGGGTCATCCA
Found at i:3960737 original size:22 final size:21
Alignment explanation
Indices: 3960709--3960771 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
3960699 GGGTCATCTG
3960709 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
3960731 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
3960751 TAAGACCTACAGTGCATGATG
1 TAAGACCTACAGTGCA-GATG
3960772 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.06
20 9 0.29
21 10 0.32
22 8 0.26
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:3960787 original size:116 final size:116
Alignment explanation
Indices: 3960583--3961011 Score: 786
Period size: 116 Copynumber: 3.7 Consensus size: 116
3960573 AAAATTCTTT
*
3960583 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCATGGCCATCCATAAGACCTACAGT
1 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
*
3960648 GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCC
66 GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
3960699 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
1 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
*
3960764 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
66 GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
* *
3960815 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGTCCATCCATAAGACCTACAGT
1 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
*
3960880 GTAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
66 GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
*
3960931 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTCCAGT
1 GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
*
3960996 GCAAGATGTTTTCAAA
66 GCAGGATGTTTTCAAA
3961012 TGAGATTTTA
Statistics
Matches: 301, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 301 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (116 bp):
GGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGT
GCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTTC
Found at i:3960969 original size:22 final size:21
Alignment explanation
Indices: 3960941--3961003 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
3960931 GGGTCATCTG
3960941 TAAGACCTACAGTGCAAGATGA
1 TAAGACCT-CAGTGCAAGATGA
* * *
3960963 TAAGACCTCAGGGC--CATCCA
1 TAAGACCTCAGTGCAAGAT-GA
3960983 TAAGACCTCCAGTGCAAGATG
1 TAAGACCT-CAGTGCAAGATG
3961004 TTTTCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.06
20 9 0.29
21 10 0.32
22 8 0.26
23 2 0.06
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTCAGTGCAAGATGA
Found at i:3961272 original size:3 final size:3
Alignment explanation
Indices: 3961264--3961334 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
3961254 CCATTTTAAA
* *
3961264 ATT ATT ATT AAT ATT A-T ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3961311 ATT ATT ATT ATT -TT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
3961335 AATTATAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3962572 original size:46 final size:46
Alignment explanation
Indices: 3962511--3962612 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
3962501 AGTGTATTTT
*
3962511 TCACTTTCCCGTTTTCTTAAATACCCTAATTAAAATGGATTTTAAA
1 TCACTTTCCCCTTTTCTTAAATACCCTAATTAAAATGGATTTTAAA
3962557 TCACTTTCCCCTTTTCTTAAATACCCTAATTAAAATGGATTTTAAA
1 TCACTTTCCCCTTTTCTTAAATACCCTAATTAAAATGGATTTTAAA
3962603 TC-CATTTCCC
1 TCAC-TTTCCC
3962613 TCTAAAGGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
45 1 0.02
46 53 0.98
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (46 bp):
TCACTTTCCCCTTTTCTTAAATACCCTAATTAAAATGGATTTTAAA
Found at i:3969180 original size:26 final size:26
Alignment explanation
Indices: 3969144--3969211 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
3969134 AGGTAATTAG
* *
3969144 GTGGGTTGTGGTGGATTATGTGGTTA
1 GTGGGTAGTGGTGGATTAAGTGGTTA
3969170 GTGGGTAGTGGTGGATTAAGTGGTTA
1 GTGGGTAGTGGTGGATTAAGTGGTTA
3969196 GTGGGTAGTGGTGGAT
1 GTGGGTAGTGGTGGAT
3969212 AGTGGGTAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.37
Consensus pattern (26 bp):
GTGGGTAGTGGTGGATTAAGTGGTTA
Found at i:3972022 original size:64 final size:64
Alignment explanation
Indices: 3971889--3972045 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
3971879 TAATGAAGGT
* * ** *
3971889 ATGCATCGATGCAC-CACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTC-CTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
* * *
3971953 ATGCATCGATGCACTCCTTATGCATCGATGCATTAATTGCATTCGATGTT-T-TTATCTTAAA-A
1 ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTA--TTAAAGA
3972015 G
64 G
3972016 AGTGCATCGATGCACTACC-AATGCATCGAT
1 A-TGCATCGATGCACT-CCTAATGCATCGAT
3972046 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 71 0.89
65 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
Found at i:3976912 original size:64 final size:64
Alignment explanation
Indices: 3976779--3976935 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
3976769 TAATGAAGGT
* * ** *
3976779 ATGCATCGATGCAC-CACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTC-CTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
* * *
3976843 ATGCATCGATGCACTCCTTATGCATCGATGCATTAATTGCATTCGATGTT-T-TTATCTTAAA-A
1 ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTA--TTAAAGA
3976905 G
64 G
3976906 AGTGCATCGATGCACTACC-AATGCATCGAT
1 A-TGCATCGATGCACT-CCTAATGCATCGAT
3976936 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 71 0.89
65 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
Found at i:3978568 original size:86 final size:86
Alignment explanation
Indices: 3978305--3978727 Score: 428
Period size: 86 Copynumber: 5.0 Consensus size: 86
3978295 TACCATGCGG
* * * * ** * *
3978305 TTGATATGTCATCGAGCTGAATGGAATCAAACTCGACA-TTTTTTTATTAACA-A-AACCCTTAT
1 TTGATATGTCCTTGAGCTGAATGTAATCAAACTCGA-AGGTTTTTGGTTGACAGATAACCCTTCT
* **
3978367 CGCCTTGAGTTATTATGTAAAT
65 CGCCTTGAGCTATGCTGTAAAT
* * *
3978389 TTGATATGTCCTTGAGCCGAATGTAATCAAACTCGAAGG-TTTTGGTTGAAAAATAACCCTTCTC
1 TTGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAACCCTTCTC
* *
3978453 GCCCTGAGTTATGCTGTAAAT
66 GCCTTGAGCTATGCTGTAAAT
* * * * *
3978474 TTGATATGTCATTGAGTTGAGTGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAGCCCTTCTT
1 TTGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAACCCTTCTC
3978539 GCCTTGAGCTATGCTGTAAAT
66 GCCTTGAGCTATGCTGTAAAT
* * * * * *
3978560 TTGATATGTCCTTGAGCTGAGTGCAATCAAACTTGAAGGTTTTTTGCTGGCAGATAACCCTTCTC
1 TTGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAACCCTTCTC
* *
3978625 GCCTTGAGCTATGTTGCAAAT
66 GCCTTGAGCTATGCTGTAAAT
* * * * * * * *
3978646 TCAGCT-T-CCCTTGAGCTAAATGGAATCGAACTCGAAGGTTTTT-GTTGACAGATAGCCTTTCT
1 T-TGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAACCCTTCT
* *
3978708 CGCCTTGAACTATACTGTAA
65 CGCCTTGAGCTATGCTGTAA
3978728 TAGGCTGAGA
Statistics
Matches: 284, Mismatches: 50, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
83 9 0.03
84 64 0.23
85 92 0.32
86 117 0.41
87 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
TTGATATGTCCTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAACCCTTCTC
GCCTTGAGCTATGCTGTAAAT
Found at i:3978590 original size:171 final size:170
Alignment explanation
Indices: 3978318--3978727 Score: 434
Period size: 171 Copynumber: 2.4 Consensus size: 170
3978308 ATATGTCATC
* ** * * * * *
3978318 GAGCTGAATGGAATCAAACTCGACATTTTTTTATTAACA-A-AACCCTTATCGCCTTGAGTTATT
1 GAGCTAAATGGAATCAAACTCGA-AGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA-T
* *
3978381 A-TGTAAATTTGATATGTCCTTGAGCCGAATGTAATCAAACTCGAAGG-TTTTGGTTGAAAAATA
64 ACTGTAAATTTGATATGTCCTTGAGCCGAATGCAATCAAACTCGAAGGTTTTTGGCTGAAAAATA
* * * *
3978444 ACCCTTCTCGCCCTGAGTTATGCTGTAAATT-TGATATGTCATT
129 ACCCTTCTCGCCCTGAGCTATGCTGCAAATTCAGAT-T-CCATT
* * * * * *
3978487 GAGTTGAGTGTAATCAAACTCGAAGGTTTTTGGTTGACAGATAGCCCTTCTTGCCTTGAGCTATG
1 GAGCTAAATGGAATCAAACTCGAAGGTTTTT-GTTGACAGATAGCCCTTCTCGCCTTGAGCTATA
* * * * ** *
3978552 CTGTAAATTTGATATGTCCTTGAGCTGAGTGCAATCAAACTTGAAGGTTTTTTGCTGGCAGATAA
65 CTGTAAATTTGATATGTCCTTGAGCCGAATGCAATCAAACTCGAAGGTTTTTGGCTGAAAAATAA
* * * *
3978617 CCCTTCTCGCCTTGAGCTATGTTGCAAATTCAGCTTCCCTT
130 CCCTTCTCGCCCTGAGCTATGCTGCAAATTCAGATTCCATT
* * *
3978658 GAGCTAAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCTTTCTCGCCTTGAACTATAC
1 GAGCTAAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
3978723 TGTAA
66 TGTAA
3978728 TAGGCTGAGA
Statistics
Matches: 197, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
168 6 0.03
169 25 0.13
170 37 0.19
171 88 0.45
172 39 0.20
173 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (170 bp):
GAGCTAAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
TGTAAATTTGATATGTCCTTGAGCCGAATGCAATCAAACTCGAAGGTTTTTGGCTGAAAAATAAC
CCTTCTCGCCCTGAGCTATGCTGCAAATTCAGATTCCATT
Found at i:3987297 original size:22 final size:23
Alignment explanation
Indices: 3987271--3987353 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 23
3987261 TTGGTGCAGA
*
3987271 GGGAATCGATTCCCCCTCATGA-
1 GGGAACCGATTCCCCCTCATGAG
*
3987293 GGGAACCGATTCCCCCT-TTGAAG
1 GGGAACCGATTCCCCCTCATG-AG
*
3987316 GGGAACCGATTCCCCC-CA-CAG
1 GGGAACCGATTCCCCCTCATGAG
* *
3987337 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
3987354 GGGGTTCTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 18 0.35
22 17 0.33
23 16 0.31
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.18
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTCATGAG
Found at i:3987319 original size:23 final size:22
Alignment explanation
Indices: 3987269--3987331 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 22
3987259 TTTTGGTGCA
*
3987269 GAGGGAATCGATTCCCCCTCAT
1 GAGGGAACCGATTCCCCCTCAT
*
3987291 GAGGGAACCGATTCCCCCT-TT
1 GAGGGAACCGATTCCCCCTCAT
3987312 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
3987332 CACAGGGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 2 0.05
22 19 0.51
23 16 0.43
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (22 bp):
GAGGGAACCGATTCCCCCTCAT
Found at i:3991762 original size:23 final size:21
Alignment explanation
Indices: 3991748--3991786 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3991738 ATGAATGTAA
3991748 AAACATGGAAAATATAAAAAT
1 AAACATGGAAAATATAAAAAT
3991769 AAACATGGAAAATA-AAAA
1 AAACATGGAAAATATAAAA
3991787 GCAAAGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AAACATGGAAAATATAAAAAT
Found at i:3996265 original size:27 final size:26
Alignment explanation
Indices: 3996228--3996293 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
3996218 GAGCTGATGA
* *
3996228 TGGTGGGTTAGGTAATTAGGTATGTAG
1 TGGTGGATTAGGTAATTA-GTAGGTAG
** *
3996255 TGGTGGATTAGGTGGTTAGTGGGTAG
1 TGGTGGATTAGGTAATTAGTAGGTAG
3996281 TGGTGGATTAGGT
1 TGGTGGATTAGGT
3996294 GGGTAATGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (26 bp):
TGGTGGATTAGGTAATTAGTAGGTAG
Found at i:3996295 original size:19 final size:18
Alignment explanation
Indices: 3996265--3996316 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
3996255 TGGTGGATTA
3996265 GGTGG-TTAGTGGGTAGT
1 GGTGGATTAGTGGGTAGT
*
3996282 GGTGGATTAGGTGGGTAAT
1 GGTGGATTA-GTGGGTAGT
3996301 GGTGGA-TAGTGGGTAG
1 GGTGGATTAGTGGGTAG
3996317 GGTAGGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.39
18 5 0.16
19 14 0.45
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (18 bp):
GGTGGATTAGTGGGTAGT
Found at i:3996312 original size:26 final size:26
Alignment explanation
Indices: 3996257--3996312 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
3996247 GTATGTAGTG
* * * *
3996257 GTGGATTAGGTGGTTAGTGGGTAGTG
1 GTGGATTAGGTGGGTAATGGGGAGTA
3996283 GTGGATTAGGTGGGTAATGGTGGA-TA
1 GTGGATTAGGTGGGTAATGG-GGAGTA
3996309 GTGG
1 GTGG
3996313 GTAGGGTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (26 bp):
GTGGATTAGGTGGGTAATGGGGAGTA
Found at i:3996336 original size:3 final size:3
Alignment explanation
Indices: 3996323--3996354 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
3996313 GTAGGGTAGG
3996323 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T
3996355 TATTATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3996889 original size:19 final size:18
Alignment explanation
Indices: 3996848--3996883 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3996838 AAATAAATTT
*
3996848 AAAATTATACCCTAACCC
1 AAAATTATACCCAAACCC
3996866 AAAATTATACCACAAACC
1 AAAATTATACC-CAAACC
3996884 TTAAATCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATTATACCCAAACCC
Found at i:3997037 original size:31 final size:32
Alignment explanation
Indices: 3996978--3997039 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
3996968 TAACTACATG
*
3996978 TTTAGTACCTAAACTATCACTTTTTTTTCAAT
1 TTTAGTACCTAAACTATCACATTTTTTTCAAT
*
3997010 TTTAGTACCTAAACTTTCA-ATTTTTTTCAA
1 TTTAGTACCTAAACTATCACATTTTTTTCAA
3997040 ACCTATACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTAGTACCTAAACTATCACATTTTTTTCAAT
Found at i:3997139 original size:32 final size:32
Alignment explanation
Indices: 3997098--3997186 Score: 128
Period size: 31 Copynumber: 2.8 Consensus size: 32
3997088 AAAAATTTAA
* **
3997098 GTACT-AAATGAAACAAAAAGTTAACAATGGG
1 GTACTAAAATGAAACAAAAAGTAAACAACCGG
*
3997129 GTACTAAAATGAAACAAAAAGTAAAC-GCCGG
1 GTACTAAAATGAAACAAAAAGTAAACAACCGG
3997160 GTACTAAAATGAAACAAAAAGTAAACA
1 GTACTAAAATGAAACAAAAAGTAAACA
3997187 TTAGGTATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 33 0.63
32 19 0.37
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.16
Consensus pattern (32 bp):
GTACTAAAATGAAACAAAAAGTAAACAACCGG
Found at i:3997744 original size:52 final size:52
Alignment explanation
Indices: 3997677--3997779 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
3997667 TAATTATTTC
*
3997677 TAATTTACTAATAGATAATAAGAAA-GATGCTAAATTACTACTTAATAATTAA
1 TAATTTACTAATAGATAATAA-AAAGGATGCTAAAATACTACTTAATAATTAA
* * *
3997729 TAATTTACTAATAGATAATAAAAAGGTTGCTAAAATATTAGTTAATAATTA
1 TAATTTACTAATAGATAATAAAAAGGATGCTAAAATACTACTTAATAATTA
3997780 CTACTCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.07
52 43 0.93
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (52 bp):
TAATTTACTAATAGATAATAAAAAGGATGCTAAAATACTACTTAATAATTAA
Found at i:4003042 original size:20 final size:20
Alignment explanation
Indices: 4003011--4003060 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
4003001 CCCATATTGA
*
4003011 GAGTATCAATACACTACCCT
1 GAGTATCGATACACTACCCT
4003031 CG-GTATCGAT--ACTACCCT
1 -GAGTATCGATACACTACCCT
4003049 GAGTATCGATAC
1 GAGTATCGATAC
4003061 CAAAATTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
20 7 0.28
21 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (20 bp):
GAGTATCGATACACTACCCT
Found at i:4008191 original size:20 final size:20
Alignment explanation
Indices: 4008144--4008193 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4008134 CCTACAGGAG
*
4008144 TATTGATACTCAGGGTCTAG
1 TATTGATACTCAGGGTCTAA
*
4008164 TATCGATACTCAAGGGTC-AA
1 TATTGATACTC-AGGGTCTAA
4008184 TATTGATACT
1 TATTGATACT
4008194 GAGGTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (20 bp):
TATTGATACTCAGGGTCTAA
Found at i:4013093 original size:23 final size:23
Alignment explanation
Indices: 4013025--4013103 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
4013015 TTGTGCTTAA
4013025 TGCATCGATGCA-TCCTTGAATG
1 TGCATCGATGCACTCCTTGAATG
* * *
4013047 TGCATCGAT--ACACCATGAAGG
1 TGCATCGATGCACTCCTTGAATG
*
4013068 TGCACCGATGCACTCCTTGAATG
1 TGCATCGATGCACTCCTTGAATG
4013091 TGCATCGATGCAC
1 TGCATCGATGCAC
4013104 AAGGACATGC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 9 0.20
23 21 0.46
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACTCCTTGAATG
Found at i:4013120 original size:43 final size:41
Alignment explanation
Indices: 4013023--4013125 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 41
4013013 TTTTGTGCTT
* *
4013023 AATGCATCGATGCATCCTTGAATGTGCATCGATACACCATG
1 AATGCATCGATGCATCCTTGAATGTGCATCGATACACAAGG
* *
4013064 AAGGTGCACCGATGCACTCCTTGAATGTGCATCGATGCACAAGG
1 AA--TGCATCGATGCA-TCCTTGAATGTGCATCGATACACAAGG
4013108 ACATGCATCGATGCATCC
1 A-ATGCATCGATGCATCC
4013126 GTCAGGTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 2 0.04
42 3 0.06
43 22 0.42
44 25 0.47
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (41 bp):
AATGCATCGATGCATCCTTGAATGTGCATCGATACACAAGG
Found at i:4015591 original size:18 final size:18
Alignment explanation
Indices: 4015568--4015608 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4015558 TTTTACAAAA
*
4015568 GATTTTCTAAGAATATTC
1 GATTTTCTAAGAATACTC
4015586 GATTTTCTAAGAATACTC
1 GATTTTCTAAGAATACTC
4015604 GATTT
1 GATTT
4015609 AATTACTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (18 bp):
GATTTTCTAAGAATACTC
Found at i:4015797 original size:20 final size:20
Alignment explanation
Indices: 4015768--4015805 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4015758 TTTCAAAGGG
4015768 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
4015788 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
4015806 GAATTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:4015877 original size:64 final size:65
Alignment explanation
Indices: 4015767--4015976 Score: 186
Period size: 65 Copynumber: 3.2 Consensus size: 65
4015757 TTTTCAAAGG
* * * *
4015767 GATGCACCGATGCACCAAT-CCATGCATCGATGCAC-CA--ATGAATTAATTGAACATCAAATGT
1 GATGCATCGATGCA-C-ATGCCATGCATCGATGCACTCAGGCT-ATTTAA-TGAACATCGAATGT
*
4015828 AGTT
62 ATTT
* * * * *
4015832 CATGCATCGATGCAC-TCTCCATGTATCGATGCACTC-GGGT-TTTAATGAAAACATCGAATGCA
1 GATGCATCGATGCACAT-GCCATGCATCGATGCACTCAGGCTATTTAATG--AACATCGAATGTA
4015894 TTT
63 TTT
*
4015897 GATGCATCGATGCACATGCCATGCATCGATGGACTCAGGCTATTTCAA--AACATCGAATGTATT
1 GATGCATCGATGCACATGCCATGCATCGATGCACTCAGGCTATTT-AATGAACATCGAATGTATT
4015960 T
65 T
4015961 GATGCATCGATGCACA
1 GATGCATCGATGCACA
4015977 CTTAGTGCAC
Statistics
Matches: 120, Mismatches: 14, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 51 0.43
65 56 0.47
66 5 0.04
67 3 0.03
68 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (65 bp):
GATGCATCGATGCACATGCCATGCATCGATGCACTCAGGCTATTTAATGAACATCGAATGTATTT
Found at i:4015904 original size:65 final size:64
Alignment explanation
Indices: 4015833--4015976 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
4015823 AATGTAGTTC
* * * * *
4015833 ATGCATCGATGCAC-TCTCCATGTATCGATGCACTC-GGGTTTTAATGAAAACATCGAATGCATT
1 ATGCATCGATGCACAT-GCCATGCATCGATGCACTCAGGCTATT--TCAAAACATCGAATGCATT
4015896 TG
63 TG
* *
4015898 ATGCATCGATGCACATGCCATGCATCGATGGACTCAGGCTATTTCAAAACATCGAATGTATTTG
1 ATGCATCGATGCACATGCCATGCATCGATGCACTCAGGCTATTTCAAAACATCGAATGCATTTG
4015962 ATGCATCGATGCACA
1 ATGCATCGATGCACA
4015977 CTTAGTGCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 34 0.49
65 30 0.43
66 6 0.09
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACATGCCATGCATCGATGCACTCAGGCTATTTCAAAACATCGAATGCATTTG
Found at i:4017374 original size:17 final size:17
Alignment explanation
Indices: 4017347--4017389 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4017337 GTGATATTTA
4017347 ATTTGAT-ATATGATATG
1 ATTTGATGATATGA-ATG
*
4017364 ATTT-ATGATATGAATT
1 ATTTGATGATATGAATG
4017380 ATTTGATGAT
1 ATTTGATGAT
4017390 GATTTGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
ATTTGATGATATGAATG
Found at i:4018084 original size:20 final size:21
Alignment explanation
Indices: 4018040--4018088 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
4018030 GGGTATATCT
4018040 CTTTGAAAAGGGATCCATCCC
1 CTTTGAAAAGGGATCCATCCC
4018061 CTTTGAAAAGGGATCCATCCC
1 CTTTGAAAAGGGATCCATCCC
*
4018082 TTTTGAA
1 CTTTGAA
4018089 TGTTTAGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (21 bp):
CTTTGAAAAGGGATCCATCCC
Found at i:4019811 original size:18 final size:18
Alignment explanation
Indices: 4019788--4019835 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
4019778 CGGCTTAAGG
4019788 GTATCGATACTACCCCGA
1 GTATCGATACTACCCCGA
4019806 GTATCGATACTACCCCGA
1 GTATCGATACTACCCCGA
4019824 GTATCGATACTA
1 GTATCGATACTA
4019836 AAAATAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (18 bp):
GTATCGATACTACCCCGA
Found at i:4024559 original size:10 final size:10
Alignment explanation
Indices: 4024546--4024592 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 10
4024536 GTTCGTGAAC
4024546 GTTCGTTTAT
1 GTTCGTTTAT
4024556 GTTCGTTTAT
1 GTTCGTTTAT
4024566 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
4024580 GTTCGTTTAT
1 GTTCGTTTAT
4024590 GTT
1 GTT
4024593 TTTTCATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:4024562 original size:14 final size:14
Alignment explanation
Indices: 4024556--4024586 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4024546 GTTCGTTTAT
*
4024556 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
4024570 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
4024584 GTT
1 GTT
4024587 TATGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:4024562 original size:24 final size:24
Alignment explanation
Indices: 4024521--4024586 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
4024511 ACATAGGTCT
* *
4024521 CGTTCGTTCAT-TTACGTTCGTGAA
1 CGTTCGTTTATGTT-CGTTCATGAA
* **
4024545 CGTTCGTTTATGTTCGTTTATGTT
1 CGTTCGTTTATGTTCGTTCATGAA
*
4024569 CGTTCGGTTATGTTCGTT
1 CGTTCGTTTATGTTCGTT
4024587 TATGTTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.50
Consensus pattern (24 bp):
CGTTCGTTTATGTTCGTTCATGAA
Found at i:4024573 original size:34 final size:34
Alignment explanation
Indices: 4024522--4024602 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
4024512 CATAGGTCTC
4024522 GTTCGTTCATTTACGTTC-GTGAACGTTCGTTTAT
1 GTTCGTTCATTTACGTTCGGT-AACGTTCGTTTAT
* * *
4024556 GTTCGTTTATGTT-CGTTCGGTTATGTTCGTTTAT
1 GTTCGTTCAT-TTACGTTCGGTAACGTTCGTTTAT
**
4024590 GTTTTTTCATTTA
1 GTTCGTTCATTTA
4024603 TGTTTAACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
33 2 0.05
34 32 0.84
35 4 0.11
ACGTcount: A:0.12, C:0.14, G:0.20, T:0.54
Consensus pattern (34 bp):
GTTCGTTCATTTACGTTCGGTAACGTTCGTTTAT
Found at i:4024587 original size:24 final size:24
Alignment explanation
Indices: 4024545--4024592 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4024535 CGTTCGTGAA
*
4024545 CGTTCGTTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
4024569 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
4024593 TTTTCATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.56
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:4024603 original size:24 final size:24
Alignment explanation
Indices: 4024545--4024606 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
4024535 CGTTCGTGAA
*
4024545 CGTTCGTTTATGTTCGTTTATGTT
1 CGTTCATTTATGTTCGTTTATGTT
**
4024569 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCATTTATGTTCGTTTATGTT
**
4024593 TTTTCATTTATGTT
1 CGTTCATTTATGTT
4024607 TAACCCAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.10, C:0.11, G:0.19, T:0.60
Consensus pattern (24 bp):
CGTTCATTTATGTTCGTTTATGTT
Found at i:4025706 original size:16 final size:16
Alignment explanation
Indices: 4025684--4025721 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4025674 TCCAACGTTT
4025684 ATGTTCATTTATGTTC
1 ATGTTCATTTATGTTC
*
4025700 GTGTTCATTTATGTTC
1 ATGTTCATTTATGTTC
4025716 ATGTTC
1 ATGTTC
4025722 GTGTTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (16 bp):
ATGTTCATTTATGTTC
Found at i:4025823 original size:16 final size:16
Alignment explanation
Indices: 4025799--4025831 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4025789 AAATTTTTTT
*
4025799 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4025815 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4025831 T
1 T
4025832 TTATTTATTA
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:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:4026464 original size:19 final size:17
Alignment explanation
Indices: 4026430--4026463 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4026420 TTAGAATTAT
*
4026430 GAGAGATAATTATTTTG
1 GAGAGATAAATATTTTG
4026447 GAGAGATATAATATTTT
1 GAGAGATA-AATATTTT
4026464 TATAATCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
GAGAGATAAATATTTTG
Found at i:4028931 original size:40 final size:41
Alignment explanation
Indices: 4028801--4028935 Score: 188
Period size: 41 Copynumber: 3.3 Consensus size: 41
4028791 CATTTTTCCA
* *
4028801 ACAAACGTCGCAACAGA-TAAGTACTTTAGCGGCGTTTTTAT
1 ACAAACGCCGCAACA-ATTTAGTACTTTAGCGGCGTTTTTAT
4028842 ACAAACGCCGCAACAATTTAGTACTTTAGCGGCGTTTTTAT
1 ACAAACGCCGCAACAATTTAGTACTTTAGCGGCGTTTTTAT
*
4028883 ACAAACGCCGCAACAATTTAGTAC-TT-GTGGCGTTTTT-T
1 ACAAACGCCGCAACAATTTAGTACTTTAGCGGCGTTTTTAT
4028921 CAACAAACGCCGCAA
1 --ACAAACGCCGCAA
4028936 TAGAGTTGTA
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 16 0.18
41 61 0.69
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (41 bp):
ACAAACGCCGCAACAATTTAGTACTTTAGCGGCGTTTTTAT
Found at i:4029044 original size:41 final size:40
Alignment explanation
Indices: 4028999--4029093 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
4028989 ATACTCTTAA
* * *
4028999 TTTAGTGGCGTTTGTGACCAAACGCCGCTATAGACTTGTAC
1 TTTAGTGGCCTTT-TGACCAAACGCCGCAATAGACATGTAC
*** *
4029040 TTTAGTGGCCTTTTTTTCAAACGCCGCAATAGTCATGTAC
1 TTTAGTGGCCTTTTGACCAAACGCCGCAATAGACATGTAC
*
4029080 TTTAGTGGCATTTT
1 TTTAGTGGCCTTTT
4029094 TATAATAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 34 0.74
41 12 0.26
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (40 bp):
TTTAGTGGCCTTTTGACCAAACGCCGCAATAGACATGTAC
Found at i:4029065 original size:40 final size:40
Alignment explanation
Indices: 4029017--4029094 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
4029007 CGTTTGTGAC
* * *
4029017 CAAACGCCGCTATAGACTTGTACTTTAGTGGCCTTTTTTT
1 CAAACGCCGCAATAGACATGTACTTTAGTGGCATTTTTTT
*
4029057 CAAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTT
1 CAAACGCCGCAATAGACATGTACTTTAGTGGCATTTTT
4029095 ATAATAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (40 bp):
CAAACGCCGCAATAGACATGTACTTTAGTGGCATTTTTTT
Found at i:4029127 original size:42 final size:42
Alignment explanation
Indices: 4029058--4029220 Score: 164
Period size: 42 Copynumber: 3.9 Consensus size: 42
4029048 CCTTTTTTTC
** * * * *
4029058 AAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTTATAAT
1 AAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGTAAT
* * * *
4029100 AAATGCGGCAATAGTTTTGTCCCTTAGTGGTGTTTCTGTAAT
1 AAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGTAAT
** * *
4029142 AAACGTTGCACTATTTTTGTCCCTTAGTGGCGTTTTTGTAAT
1 AAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGTAAT
* * * *
4029184 AAACGCCGTAATAGTTTTATCCCTTAGTAGTGTTTTT
1 AAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTT
4029221 AATATAAATG
Statistics
Matches: 96, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (42 bp):
AAACGCCGCAATAGTTTTGTCCCTTAGTGGCGTTTTTGTAAT
Found at i:4031353 original size:15 final size:16
Alignment explanation
Indices: 4031321--4031353 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4031311 CTTGCTCCCA
*
4031321 TAAAATTTTATAAATT
1 TAAAAGTTTATAAATT
4031337 TAAAAGTTTAT-AATT
1 TAAAAGTTTATAAATT
4031352 TA
1 TA
4031354 GGAGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAAAGTTTATAAATT
Found at i:4035066 original size:45 final size:46
Alignment explanation
Indices: 4034978--4035076 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 46
4034968 GTCGCTATAG
* * *
4034978 ACCTTTTGCGACGTTTTTATCCAAAAAAAAAGCCATTATATATCTAA
1 ACCTTTTGCGACGTTTGTATCC-AAAAAAAAGCAACTATATATCTAA
* * * **
4035025 ACCTTTTGCGGCGTTTGTATTC-AAAAAATGCAACTATATATCTTG
1 ACCTTTTGCGACGTTTGTATCCAAAAAAAAGCAACTATATATCTAA
4035070 ACCTTTT
1 ACCTTTT
4035077 ACAGTGTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 25 0.57
47 19 0.43
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (46 bp):
ACCTTTTGCGACGTTTGTATCCAAAAAAAAGCAACTATATATCTAA
Found at i:4035655 original size:23 final size:23
Alignment explanation
Indices: 4035607--4035655 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4035597 TCGAATACCT
* *
4035607 AAAAATACTTTTTAAAATAATTAA
1 AAAAATAATTTTAAAAATAA-TAA
4035631 AAAAATAATTTTAAAAGATAA-AA
1 AAAAATAATTTTAAAA-ATAATAA
4035654 AA
1 AA
4035656 TGATCTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATAATTTTAAAAATAATAA
Found at i:4036165 original size:2 final size:2
Alignment explanation
Indices: 4036158--4036235 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
4036148 ACAAAACATT
4036158 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4036200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4036236 AATCAATAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4037932 original size:21 final size:22
Alignment explanation
Indices: 4037903--4037943 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4037893 AACCATCAAA
*
4037903 CAAATTCAAAC-ATCCAAAAAT
1 CAAAGTCAAACAATCCAAAAAT
4037924 CAAAGTCAAACAATCCAAAA
1 CAAAGTCAAACAATCCAAAA
4037944 GCATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.24, G:0.02, T:0.15
Consensus pattern (22 bp):
CAAAGTCAAACAATCCAAAAAT
Found at i:4039294 original size:21 final size:21
Alignment explanation
Indices: 4039270--4039353 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
4039260 TCCAGAACCC
* *
4039270 CAGGGGGTATTGATTCCCCTA
1 CAGGGGGAATCGATTCCCCTA
*
4039291 CAGGGGGAATCGGTTCCCCTTCA
1 CAGGGGGAATCGATTCCCC-T-A
* * *
4039314 AAGGGGGAATCGGTTCCCCTT
1 CAGGGGGAATCGATTCCCCTA
*
4039335 CAGGAGGGTATCGATTCCC
1 CAGG-GGGAATCGATTCCC
4039354 TATGCACCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 19 0.37
22 14 0.27
23 19 0.37
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTA
Found at i:4039342 original size:24 final size:23
Alignment explanation
Indices: 4039292--4039336 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4039282 ATTCCCCTAC
4039292 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
4039315 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGGTTCCCCTTCA
4039337 GGAGGGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:4046859 original size:134 final size:133
Alignment explanation
Indices: 4046618--4047458 Score: 762
Period size: 134 Copynumber: 6.3 Consensus size: 133
4046608 AAACAAGAAT
* * * *
4046618 TGTTGACTCATTCCACTTTTCTTCAGGGAAGATTGAATC-AAGATAGACTTATTCCACTGTCACT
1 TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAAG-CAGACTTATTCCACTGTCACT
* * * * * * *
4046682 C-AGAGAATATCAAATCTTGAAAAAAATAGATATGTTCCGCTTCTCCTTCAGGGAAAATCAGATA
65 CAAG-GAATATCAAATCTT-AAAAGAAGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATA
*
4046746 TAGGGA
128 TGGGGA
* * * * * *
4046752 TGTTGATTCATTCCACTATTCCTAAGAGAAGATTGAATTGATGCAGACTTGTTCCACTGTTACTC
1 TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACTC
* * * * *
4046817 AAGGAATATCAAATCTTAATATGAAGGGATATATTCTACTTCTTCTTGAGGGAAAATCAGATCTG
66 AAGGAATATCAAATCTTAA-AAGAAGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATG
*
4046882 GAGA
130 GGGA
* * * * * * * *
4046886 TGTTGATTTATTCCACTGTTCCTTAGGGAAGATTGAATTGAAGCAGACTTGTTCCACTATTACTT
1 TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACTC
* * * * * * * *
4046951 AGGGAATATAAAATCTTAAAAGAGAGGGATCTATTTTGCTTTTTATTGAGGGAAAATCATATTTG
66 AAGGAATATCAAATCTTAAAAGA-AGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATG
4047016 GGGA
130 GGGA
* * *
4047020 TGTTGATTCATTCCACTATTCCTCATGGAAGATTGAATCAAAGCAGACTTATTCCACTGTTACTC
1 TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACTC
* * * * * * * *
4047085 -AGGAATATAAAATCATGAAAAGAGATAGATCTGTTCCGCTTATTCTTAAGGGAAAATCATATAT
66 AAGGAATATCAAATC-TTAAAAGA-AGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATAT
4047149 GGGGA
129 GGGGA
* * * * * *
4047154 TGTTGATTTATTTCACTA-TCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCTACTGTCACT
1 TGTTGATTCATTCCACTATTC-CTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACT
* * * * * *
4047218 CAGGGAATATCAAATCTGAAAAGCGAGAGATCTATT-TCGTTTCTTCTTGAGCGAAAATCAGATC
65 CAAGGAATATCAAATCTTAAAAG-AAGAGATCTATTCT-GCTTCTTCTTGAGGGAAAATCAGATA
4047282 TGGGGGA
128 T-GGGGA
* * *
4047289 -GTTGATTCATTCCACT-GTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTGTCACT
1 TGTTGATTCATTCCACTATTC-CTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACT
* * * * * * *** * * * *
4047352 CAGGGAATATCAAATATAAAAAGAGGGGGATATATTCCATTTCTTCTTAAGGGAAGATTAGATCT
65 CAAGGAATATCAAATCTTAAAAGA-AGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATAT
4047417 GGGGGA
129 -GGGGA
* * *
4047423 -GTTGATTTATTCCACTGTTCTTCAGGGAAGATTGAA
1 TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAA
4047459 ACAAGTTTGA
Statistics
Matches: 592, Mismatches: 101, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
133 20 0.03
134 549 0.93
135 23 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (133 bp):
TGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAATCGAAGCAGACTTATTCCACTGTCACTC
AAGGAATATCAAATCTTAAAAGAAGAGATCTATTCTGCTTCTTCTTGAGGGAAAATCAGATATGG
GGA
Found at i:4047139 original size:268 final size:268
Alignment explanation
Indices: 4046618--4047458 Score: 878
Period size: 268 Copynumber: 3.1 Consensus size: 268
4046608 AAACAAGAAT
* * * * * *
4046618 TGTTGACTCATTCCACT-TTTCTTCAGGGAAGATTGAATC-AAGATAGACTTATTCCACTGTCAC
1 TGTTGATTTATTCCACTGTTCCTT-AGGGAAGATTGAATCGAAG-CAGACTTGTTCCACTATCAC
* * * * * * * * ** *
4046681 TCAGAGAATATCAAATCTTGAAAA-AAATAGATATGTTCCGCTTCTCCTTCAGGGAAAATCAGAT
64 TCAGGGAATATAAAATC-TGAAAAGAGAGAGATCTATTTCGTTTCTTATTGAGGGAAAATCAGAT
* * * * *
4046745 ATAGGGATGTTGATTCATTCCACTATTCCT-AAGAGAAGATTGAATTGATGCAGACTTGTTCCAC
128 TTGGGGATGTTGATTCATTCCACTATTCCTCAAG-GAAGATTGAATCGAAGCAGACTTATTCCAC
* * * * *
4046809 TGTTACTCAAGGAATATCAAATCTTAATATGA-AGGGATATATTCTACTTCTTCTTGAGGGAAAA
192 TGTTACTC-AGGAATATCAAATCATAAAAAGAGAGGGATATATTCCACTTCTTCTTAAGGGAAAA
*
4046873 TCAGATCTGGAGA
256 TCAGATCTGGGGA
* * *
4046886 TGTTGATTTATTCCACTGTTCCTTAGGGAAGATTGAATTGAAGCAGACTTGTTCCACTATTACTT
1 TGTTGATTTATTCCACTGTTCCTTAGGGAAGATTGAATCGAAGCAGACTTGTTCCACTATCACTC
* * * *
4046951 AGGGAATATAAAATCTTAAAAGAGAGGGATCTATTTTGCTTT-TTATTGAGGGAAAATCATATTT
66 AGGGAATATAAAATCTGAAAAGAGAGAGATCTATTTCG-TTTCTTATTGAGGGAAAATCAGATTT
* *
4047015 GGGGATGTTGATTCATTCCACTATTCCTCATGGAAGATTGAATCAAAGCAGACTTATTCCACTGT
130 GGGGATGTTGATTCATTCCACTATTCCTCAAGGAAGATTGAATCGAAGCAGACTTATTCCACTGT
* * ** * * * * *
4047080 TACTCAGGAATATAAAATCATGAAAAGAGATAGATCTGTTCCGCTTATTCTTAAGGGAAAATCAT
195 TACTCAGGAATATCAAATCATAAAAAGAGAGGGATATATTCCACTTCTTCTTAAGGGAAAATCAG
*
4047145 ATATGGGGA
260 ATCTGGGGA
* * * * * * *
4047154 TGTTGATTTATTTCACT-ATCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCTACTGTCACT
1 TGTTGATTTATTCCACTGTTC-CTTAGGGAAGATTGAATCGAAGCAGACTTGTTCCACTATCACT
* * * *
4047218 CAGGGAATATCAAATCTGAAAAGCGAGAGATCTATTTCGTTTCTTCTTGAGCGAAAATCAGATCT
65 CAGGGAATATAAAATCTGAAAAGAGAGAGATCTATTTCGTTTCTTATTGAGGGAAAATCAGAT-T
* * * * *
4047283 GGGGGA-GTTGATTCATTCCACT-GTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACT
129 TGGGGATGTTGATTCATTCCACTATTC-CTCAAGGAAGATTGAATCGAAGCAGACTTATTCCACT
* * * *
4047346 GTCACTCAGGGAATATCAAAT-ATAAAAAGAGGGGGATATATTCCATTTCTTCTTAAGGGAAGAT
193 GTTACTCA-GGAATATCAAATCATAAAAAGAGAGGGATATATTCCACTTCTTCTTAAGGGAAAAT
*
4047410 TAGATCTGGGGGA
257 CAGATCT-GGGGA
4047423 -GTTGATTTATTCCACTGTT-CTTCAGGGAAGATTGAA
1 TGTTGATTTATTCCACTGTTCCTT-AGGGAAGATTGAA
4047459 ACAAGTTTGA
Statistics
Matches: 470, Mismatches: 89, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
267 32 0.07
268 403 0.86
269 35 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (268 bp):
TGTTGATTTATTCCACTGTTCCTTAGGGAAGATTGAATCGAAGCAGACTTGTTCCACTATCACTC
AGGGAATATAAAATCTGAAAAGAGAGAGATCTATTTCGTTTCTTATTGAGGGAAAATCAGATTTG
GGGATGTTGATTCATTCCACTATTCCTCAAGGAAGATTGAATCGAAGCAGACTTATTCCACTGTT
ACTCAGGAATATCAAATCATAAAAAGAGAGGGATATATTCCACTTCTTCTTAAGGGAAAATCAGA
TCTGGGGA
Found at i:4047429 original size:402 final size:400
Alignment explanation
Indices: 4046618--4047463 Score: 1008
Period size: 402 Copynumber: 2.1 Consensus size: 400
4046608 AAACAAGAAT
* * *
4046618 TGTTGACTCATTCCACTTTTCTTCAGGGAAGATTGAATCAAGATAGACTTATTCCACTGTCACTC
1 TGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGACAGACTTATTCCACTGTCACTC
* * * *
4046683 AGAGAATATCAAATCTTGAAAAAAATAGATATGTTCCGCTTCTCCTTCAGGGAAAATCAGATATA
66 AGAGAATATAAAATCATGAAAAAAATAGATATGTTCCGCTTATCCTTAAGGGAAAATCAGATATA
* * *
4046748 GGGATGTTGATTCATTCCACTATTCCTAAGAGAAGATTGAATTGATGCAGACTTGTTCCACTGTT
131 GGGATGTTGATTCATTCCACTATTCCTAAGAGAAGATTGAATCGAGGCAGACTTGTTCCACTGTC
* * * *
4046813 ACTCAAGGAATATCAAATCTTAATATGAAGGGATATATTCTACTTCTTCTTGAGGGAAAATCAGA
196 ACTCAAGGAATATCAAATCTGAATAAGAAGAGATATATTCTA-TTCTTCTTGAGCGAAAATCAGA
* * * * *
4046878 TCTGGAGATGTTGATTTATTCCACTGTTCCTTAGGGAAGATTGAATTGAAGCAGACTTGTTCCAC
260 TCTGGAGATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAAGAAGACTTATTCCAC
* * * * * * *
4046943 TATTACTTAGGGAATATAAAATCTTAAAAGAGAGGGATCTATTTTGCTTTTTATTGAGGGAAAAT
325 TATCACTCAGGGAATATAAAATATAAAAAGAGAGGGA-CTATATTCCTTTTTATTAAGGGAAAAT
* *
4047008 CATATTTGGGGA
389 CAGATTGGGGGA
* * *
4047020 TGTTGATTCATTCCACTATTCCTCATGGAAGATTGAATCAA-AGCAGACTTATTCCACTGTTACT
1 TGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGA-CAGACTTATTCCACTGTCACT
* * * *
4047084 CAG-GAATATAAAATCATGAAAAGAGATAGATCTGTTCCGCTTATTCTTAAGGGAAAATCATATA
65 CAGAGAATATAAAATCATGAAAA-AAATAGATATGTTCCGCTTATCCTTAAGGGAAAATCAGATA
* * * * * * *
4047148 TGGGGATGTTGATTTATTTCACTA-TCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCTACT
129 TAGGGATGTTGATTCATTCCACTATTC-CTAAGAGAAGATTGAATCGAGGCAGACTTGTTCCACT
* * *
4047212 GTCACTCAGGGAATATCAAATCTGAA-AAGCGAGAGATCTATTTCGT-TTCTTCTTGAGCGAAAA
193 GTCACTCAAGGAATATCAAATCTGAATAAG-AAGAGATATA-TTC-TATTCTTCTTGAGCGAAAA
* *
4047275 TCAGATCTGGGGGA-GTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAATCGAGGAAGACTT
255 TCAGATCT-GGAGATGTTGATTCATTCCACTGTTC-CTCAGGGAAGATTGAATCGAAGAAGACTT
* * * *
4047338 ATTCCACTGTCACTCAGGGAATATCAAATATAAAAAGAGGGGGA-TATATTCCATTTCTTCTTAA
318 ATTCCACTATCACTCAGGGAATATAAAATATAAAAAGAGAGGGACTATATTCC-TTT-TTATTAA
* *
4047402 GGGAAGATTAGATCTGGGGGA
381 GGGAAAATCAGAT-TGGGGGA
* * *
4047423 -GTTGATTTATTCCACTGTTCTTCAGGGAAGATTGAAACAAG
1 TGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAG
4047464 TTTGATTTGC
Statistics
Matches: 374, Mismatches: 58, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
400 6 0.02
401 27 0.07
402 327 0.87
403 13 0.03
404 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (400 bp):
TGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGACAGACTTATTCCACTGTCACTC
AGAGAATATAAAATCATGAAAAAAATAGATATGTTCCGCTTATCCTTAAGGGAAAATCAGATATA
GGGATGTTGATTCATTCCACTATTCCTAAGAGAAGATTGAATCGAGGCAGACTTGTTCCACTGTC
ACTCAAGGAATATCAAATCTGAATAAGAAGAGATATATTCTATTCTTCTTGAGCGAAAATCAGAT
CTGGAGATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAAGAAGACTTATTCCACT
ATCACTCAGGGAATATAAAATATAAAAAGAGAGGGACTATATTCCTTTTTATTAAGGGAAAATCA
GATTGGGGGA
Found at i:4048525 original size:42 final size:41
Alignment explanation
Indices: 4048446--4048546 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 41
4048436 AGGACTTATG
* * *
4048446 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* *
4048487 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
4048529 GA-GAGCCCGAAGGACTTA
1 GATGA-CCCGAAGGACTTA
4048547 CTAATTTTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 18 0.35
42 34 0.65
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:4048693 original size:233 final size:233
Alignment explanation
Indices: 4047710--4048696 Score: 1358
Period size: 233 Copynumber: 4.2 Consensus size: 233
4047700 TTTTTTTCAA
* * * *
4047710 AAAAACATGTGAAAACATCCTGCCTGAAGGTCTTATGGATGGCTCGAATGACTTATCATCTTGCT
1 AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
* * ** *
4047775 -AGAAAGGCTTATAGATGACCCGAAGGATTTACTCATCATGCTCCAAAGACTTACTGATGGCCCG
66 CA-AAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCG
* * *
4047839 AAGGACTTAAC-AATTTTGGAAACAATTTACTAGGTAAAAAACCTTTCTTACTTTTCAAAAAATT
130 AAGGACTT-ACTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTT
* *
4047903 CAATTTTCAGATTTAAATGAGAAACGTTTCTAATTTTTCG
194 CAATTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCG
* * * * *
4047943 AAAAACATGTGAAAACACCCTGCCCGAAGGTCTTGTGGATAGCCCAAAGAACTTATCATCTTTCT
1 AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
* * * *
4048008 CAAAAGACTTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGGCCAA
66 CAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA
* * * * *
4048073 ATGACTTACCAATTTTGGAAACGGTTTACTTGGTAAGAAACCTTTCTTACTTTTTAAAAATTTCA
131 AGGACTTACTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCA
*
4048138 ATTTTCAGATTTAAATGAGAAATCTTTCTCATTTTTCG
196 ATTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCG
* ** * * * * * * *
4048176 AGAGTCATGTGAAAACATCCTACACAAATGTCTTATGGATGGCCCAAAGAACTTATCATCTTGCT
1 AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
* * *
4048241 TAAAAGACTTACAAATGGCCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTTG-TGGCCC-
66 CAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC-TGATGGCCCG
*
4048304 AGAGGACTTACTAATTTTAGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTC-AAAATTT
130 A-AGGACTTACTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTT
* *
4048368 ACAAATTTCAGATTTAAATGAAAAACCTTTCTCATTTTTCG
194 -CAATTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCG
* * * * *
4048409 AGAGACATGTGAAAACATCCTGTCCGAAGGACTTATGGATGGCCCGAAGGACTTATCATCTTGCT
1 AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
*
4048474 CGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA-GAGCCCG
66 CAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG-GCCCG
*
4048538 AAGGACTTACTAATTTTGGGAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTC
130 AAGGACTTACTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTC
*
4048603 AATTGGT-AGATTTAAATGAGAAACCTTTCTCATTTTTCG
195 AATT-TTCAGATTTAAATGAGAAACCTTTCTCATTTTTCG
* * *
4048642 AAAAACATGTTAAAACATACTGCCCGAAGGTCTTATGGATAGCCTGAAGGACTTA
1 AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTA
4048697 CTAAGAAAGA
Statistics
Matches: 666, Mismatches: 78, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
232 13 0.02
233 641 0.96
234 12 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (233 bp):
AAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
CAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA
AGGACTTACTAATTTTGGAAACAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCA
ATTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCG
Found at i:4050449 original size:44 final size:44
Alignment explanation
Indices: 4050354--4050449 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
4050344 TTGTATTCCC
*
4050354 AGATGATATGCACTTTCAAAAATGCCCCAACATTTATCATTTCT
1 AGATGATATGCACTTTAAAAAATGCCCCAACATTTATCATTTCT
* * * * *
4050398 TGTTGATATTGGAC-TTAAAAAATGCCTCAATC-TTTATTATTTCT
1 AGATGATA-TGCACTTTAAAAAATGCCCCAA-CATTTATCATTTCT
4050442 AGATGATA
1 AGATGATA
4050450 CGGACCCTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
44 37 0.88
45 5 0.12
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (44 bp):
AGATGATATGCACTTTAAAAAATGCCCCAACATTTATCATTTCT
Found at i:4051527 original size:7 final size:7
Alignment explanation
Indices: 4051515--4051758 Score: 190
Period size: 7 Copynumber: 35.3 Consensus size: 7
4051505 ATTTGTTTTC
4051515 TTTCTCT
1 TTTCTCT
4051522 TTTCTCT
1 TTTCTCT
4051529 TTTCTCT
1 TTTCTCT
4051536 TTTCTCT
1 TTTCTCT
4051543 TTTCTCT
1 TTTCTCT
4051550 TTTCTCT
1 TTTCTCT
4051557 TTTCTCT
1 TTTCTCT
4051564 TTTCTCT
1 TTTCTCT
4051571 TTTCTCT
1 TTTCTCT
4051578 TTTCT-T
1 TTTCTCT
*
4051584 TTTTTCT
1 TTTCTCT
*
4051591 TTTTTCT
1 TTTCTCT
* *
4051598 TTTTTTT
1 TTTCTCT
*
4051605 TTTTTCT
1 TTTCTCT
*
4051612 TTTTTCT
1 TTTCTCT
*
4051619 TTTACTTT
1 TTT-CTCT
4051627 TTTCT-T
1 TTTCTCT
4051633 TTTCTCT
1 TTTCTCT
4051640 TTT-T-T
1 TTTCTCT
4051645 TCTT-T-T
1 T-TTCTCT
4051651 TTTCT-T
1 TTTCTCT
*
4051657 TTTTTCTT
1 TTTCTC-T
*
4051665 TTTTTCTT
1 TTTCTC-T
4051673 TTTCTTCT
1 TTTC-TCT
4051681 TTT-TCTT
1 TTTCTC-T
*
4051688 TTTTTCT
1 TTTCTCT
4051695 TTT-TCTT
1 TTTCTC-T
4051702 TTTCTTCT
1 TTTC-TCT
4051710 TTTCTTCT
1 TTTC-TCT
4051718 TTT-TC-
1 TTTCTCT
*
4051723 TATCT-T
1 TTTCTCT
*
4051729 TTTCTATT
1 TTTCT-CT
4051737 TTTCTCT
1 TTTCTCT
4051744 TTTCT-T
1 TTTCTCT
*
4051750 TTTTTCT
1 TTTCTCT
4051757 TT
1 TT
4051759 CGTCTATTCT
Statistics
Matches: 208, Mismatches: 11, Indels: 36
0.82 0.04 0.14
Matches are distributed among these distances:
5 6 0.03
6 39 0.19
7 118 0.57
8 41 0.20
9 4 0.02
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTCT
Found at i:4051579 original size:62 final size:58
Alignment explanation
Indices: 4051510--4051758 Score: 200
Period size: 62 Copynumber: 4.3 Consensus size: 58
4051500 ACTTGATTTG
*
4051510 TTTTCTTTCTCT-TTTCTCTTTTCTCTTTTCTCTTTTCTCTTTTCTCTTTTCTCTTTTCTC
1 TTTTCTTTTTCTCTTT-TCTTTTCTCTTTTCTCTTTT-TCTTTTCT-TTTTCTCTTTTCTC
* * *
4051570 TTTTCTCTTTTCTTTTTTTCTTTTTTC-TTT-T-TTTTT-TTTTCTTTTT-TCTTTTACTT
1 TTTTCT-TTTTC-TCTTTTCTTTTCTCTTTTCTCTTTTTCTTTTCTTTTTCTCTTTT-CTC
*
4051626 TTTTCTTTTTCTC-TTT-TTTTCT-TTTTTTCTTTTT-TTCTT-TTTTTCT-TTTTCTTC
1 TTTTCTTTTTCTCTTTTCTTTTCTCTTTTCTCTTTTTCTT-TTCTTTTTCTCTTTTC-TC
* * *
4051680 TTTTTCTTTTTTTCTTTTTCTTTTTCTTCTTTTCTTCTTTTTC-TATCTTTTTCTATTTTTCTC
1 -TTTTCTTTTTCTC-TTTTC-TTTTC-TCTTTTC-TCTTTTTCTTTTCTTTTTCT-CTTTTCTC
*
4051743 TTTTCTTTTTTTCTTT
1 TTTTCTTTTTCTCTTT
4051759 CGTCTATTCT
Statistics
Matches: 158, Mismatches: 9, Indels: 43
0.75 0.04 0.20
Matches are distributed among these distances:
52 8 0.05
53 5 0.03
54 18 0.11
55 26 0.16
56 12 0.08
57 9 0.06
58 1 0.01
59 9 0.06
60 8 0.05
61 15 0.09
62 37 0.23
63 5 0.03
64 5 0.03
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (58 bp):
TTTTCTTTTTCTCTTTTCTTTTCTCTTTTCTCTTTTTCTTTTCTTTTTCTCTTTTCTC
Found at i:4051590 original size:8 final size:8
Alignment explanation
Indices: 4051577--4051758 Score: 190
Period size: 8 Copynumber: 24.0 Consensus size: 8
4051567 CTCTTTTCTC
4051577 TTTTCTTT
1 TTTTCTTT
4051585 TTTTC-TT
1 TTTTCTTT
4051592 TTTTC-TT
1 TTTTCTTT
4051599 TTTT-TTT
1 TTTTCTTT
4051606 TTTTC-TT
1 TTTTCTTT
4051613 TTTTC--T
1 TTTTCTTT
*
4051619 TTTAC-TT
1 TTTTCTTT
4051626 TTTTCTTT
1 TTTTCTTT
*
4051634 TTCTCTTT
1 TTTTCTTT
4051642 TTTTCTTT
1 TTTTCTTT
4051650 TTTTCTTT
1 TTTTCTTT
4051658 TTTTCTTT
1 TTTTCTTT
4051666 TTTTC--T
1 TTTTCTTT
4051672 TTTTCTTCT
1 TTTTCTT-T
4051681 TTTTCTTT
1 TTTTCTTT
4051689 TTTTC--T
1 TTTTCTTT
4051695 TTTTCTTT
1 TTTTCTTT
4051703 TTCTTCTTT
1 TT-TTCTTT
*
4051712 TCTTCTTT
1 TTTTCTTT
* * *
4051720 TTCTATCT
1 TTTTCTTT
*
4051728 TTTTCTAT
1 TTTTCTTT
*
4051736 TTTTC-TC
1 TTTTCTTT
4051743 TTTTCTTT
1 TTTTCTTT
4051751 TTTTCTTT
1 TTTTCTTT
4051759 CGTCTATTCT
Statistics
Matches: 148, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
6 17 0.11
7 36 0.24
8 80 0.54
9 15 0.10
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTCTTT
Found at i:4051721 original size:1 final size:1
Alignment explanation
Indices: 4051577--4051704 Score: 85
Period size: 1 Copynumber: 128.0 Consensus size: 1
4051567 CTCTTTTCTC
* * * * * ** * * *
4051577 TTTTCTTTTTTTCTTTTTTCTTTTTTTTTTTTTCTTTTTTCTTTTACTTTTTTCTTTTTCTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * *
4051642 TTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTCTTCTTTTTCTTTTTTTCTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4051705 CTTCTTTTCT
Statistics
Matches: 90, Mismatches: 37, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:4058483 original size:3 final size:3
Alignment explanation
Indices: 4058469--4058521 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
4058459 ATATATAAAA
*
4058469 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4058516 AAT AAT
1 AAT AAT
4058522 GTCGGGACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4059792 original size:30 final size:30
Alignment explanation
Indices: 4059758--4059833 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
4059748 AACCGACCGA
4059758 ACCGAATTAGTTCGGTTAATTCGGTCGGTC
1 ACCGAATTAGTTCGGTTAATTCGGTCGGTC
4059788 ACCGAATTAGTTCGGTTAATTCGGTCGGTC
1 ACCGAATTAGTTCGGTTAATTCGGTCGGTC
*
4059818 ACCGAATTAATTCGGT
1 ACCGAATTAGTTCGGT
4059834 CGGGGAACGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (30 bp):
ACCGAATTAGTTCGGTTAATTCGGTCGGTC
Found at i:4060050 original size:17 final size:17
Alignment explanation
Indices: 4060028--4060066 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4060018 TGAATCAAAT
4060028 TAATTAGATATTAATTA
1 TAATTAGATATTAATTA
*
4060045 TAATTAGATATTATTTA
1 TAATTAGATATTAATTA
4060062 -AATTA
1 TAATTA
4060067 ATTGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TAATTAGATATTAATTA
Found at i:4065141 original size:22 final size:23
Alignment explanation
Indices: 4065094--4065155 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
4065084 CGATTCCCTT
**
4065094 AGGGGGAATCTGTTCCCCTTCAA
1 AGGGGGAATCAATTCCCCTTCAA
4065117 AGGGGGAATCAATTCCCCTTC-A
1 AGGGGGAATCAATTCCCCTTCAA
* *
4065139 AGGGGGTATCGATTCCC
1 AGGGGGAATCAATTCCC
4065156 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCAATTCCCCTTCAA
Found at i:4071761 original size:101 final size:101
Alignment explanation
Indices: 4071586--4071794 Score: 400
Period size: 101 Copynumber: 2.1 Consensus size: 101
4071576 TGAATCTAAC
4071586 CACAAAATAAAACTCTTAAAATACTATCAACCCAAGTCCCAGATCATAATATCGAGTAATCATGG
1 CACAAAATAAAACTCTTAAAATACTATCAACCCAAGTCCCAGATCATAATATCGAGTAATCATGG
*
4071651 AACTAAAATTAAATATTATTTCACTGAAATTTCCCA
66 AACTAAAATTAAATATTATTTCACTGAAAATTCCCA
*
4071687 CACAAAATAAAACTCTTAAATTACTATCAACCCAAGTCCCAGATCATAATATCGAGTAATCATGG
1 CACAAAATAAAACTCTTAAAATACTATCAACCCAAGTCCCAGATCATAATATCGAGTAATCATGG
4071752 AACTAAAATTAAATATTATTTCACTGAAAATTCCCA
66 AACTAAAATTAAATATTATTTCACTGAAAATTCCCA
4071788 CACAAAA
1 CACAAAA
4071795 AGAAACCAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 106 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (101 bp):
CACAAAATAAAACTCTTAAAATACTATCAACCCAAGTCCCAGATCATAATATCGAGTAATCATGG
AACTAAAATTAAATATTATTTCACTGAAAATTCCCA
Found at i:4082864 original size:21 final size:21
Alignment explanation
Indices: 4082827--4082866 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4082817 CCCCCTTTGA
*
4082827 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
4082848 AGGGGAA-TAGATACCCCCC
1 AGGGGAACT-GATACCCCCC
4082867 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.35, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:4091202 original size:20 final size:20
Alignment explanation
Indices: 4091177--4091217 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4091167 TTTCTTTGAT
4091177 ATTAAAAAAATAAATAAATA
1 ATTAAAAAAATAAATAAATA
* * *
4091197 ATTAAAACAATTAATATATA
1 ATTAAAAAAATAAATAAATA
4091217 A
1 A
4091218 AATAAGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTAAAAAAATAAATAAATA
Found at i:4091285 original size:114 final size:111
Alignment explanation
Indices: 4091103--4091314 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 111
4091093 ATATATTTAT
* * * * * *
4091103 AAATAAAATATTTATTTATTTAGAAATATCATAAAAGGACTTCTAGGTGCCTTAAGACAACTCTT
1 AAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTACCTTAAGACAACTCCT
*
4091168 TTCTTTGATATTAAAAAAATAAATAAATAATTAAAACAATTAATATATA
66 TTC-TTAATATT-AAAAAATAAATAAAT-ATTAAAACAATTAATATATA
* * ** **
4091217 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTATTTTAAGACTGC-CC
1 AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTACCTTAAGACAACTCC
**
4091281 TTTCTTAATATTGTAAAATAAATAAATATTAAAA
65 TTTCTTAATATTAAAAAATAAATAAATATTAAAA
4091315 TAGGATTAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
111 7 0.09
112 13 0.16
113 7 0.09
114 38 0.46
115 17 0.21
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (111 bp):
AAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTACCTTAAGACAACTCCT
TTCTTAATATTAAAAAATAAATAAATATTAAAACAATTAATATATA
Found at i:4091385 original size:21 final size:21
Alignment explanation
Indices: 4091359--4091399 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4091349 ATTTTAATAA
4091359 ATAAAATACATAT-TATTTATT
1 ATAAAA-ACATATATATTTATT
*
4091380 ATAAAAATATATATATTTAT
1 ATAAAAACATATATATTTAT
4091400 GGTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAAACATATATATTTATT
Found at i:4091413 original size:3 final size:3
Alignment explanation
Indices: 4091405--4091434 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4091395 TTTATGGTTA
*
4091405 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4091435 TAACATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4092798 original size:3 final size:3
Alignment explanation
Indices: 4092790--4092868 Score: 106
Period size: 3 Copynumber: 25.7 Consensus size: 3
4092780 GGCCTGTTTG
**
4092790 TAA TAA TAA TTT TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TA-A
4092837 TAA -AA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
4092869 GAAAATGGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 57 0.84
4 9 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4093246 original size:124 final size:124
Alignment explanation
Indices: 4093069--4093883 Score: 826
Period size: 124 Copynumber: 6.8 Consensus size: 124
4093059 GGGATGATAA
* * * *
4093069 TATCTCCTTCTGTGAT-GTAATT-TGGAAAAGGGTTGAACAAGTTCTTCTTATTATAAAATTCTT
1 TATCTCCTTCTGTGATAG-AATTATGCAAAA-GGTTGAACAAATTCTTCTCATTATGAAATTCTT
* * * * * *
4093132 CTTCCTTCTTCAGATGAATTATTCTTATTATGAACTTTCCCTGGAAAAGTTGATGTTGACC
64 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
* * * * *
4093193 TATTTCCTTCTGTGATAG-ATTCATTCAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTC
1 TATCTCCTTCTGTGATAGAATT-ATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTC
* * * *
4093257 TTTCTTCTTCAAATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAAGTCGATGCTGATC
65 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
** * *
4093317 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCCTTGTG-AA--CTTCT
1 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTCT
* * * *
4093379 T-CTTTTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGTTGCTGATC
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
4093437 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTCTCATTATG-AA-T-TTCT
1 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTCT
* * *
4093499 T-CTTCTTCAGATTACGTGTTCTTCTCATTATGAACTCTAC-CTGG-CAA--TG-T--TGATC
66 TCCTTCTTCAGA-T--GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATGCTGATC
* *** ** * *
4093554 CA--T-C--AAATGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTC
1 TATCTCCTTCTGTGATAGAATT-ATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTC
*
4093613 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATGCTGATC
65 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
* *
4093673 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCATCTCATTATGAATTTCTTCT
1 TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTCT
* *
4093738 TCC-TCTTCAGATAAGTTCTTCTCATTATGAAC-TT-TCTGAAAAAGTT-A-----ATC
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
* *** ** *
4093788 CA--T-C--AAATGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
1 TATCTCCTTCTGTGATAGAATT-ATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTC
4093847 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
65 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
4093884 AACTGGTACT
Statistics
Matches: 592, Mismatches: 69, Indels: 72
0.81 0.09 0.10
Matches are distributed among these distances:
109 5 0.01
110 46 0.08
111 33 0.06
112 40 0.07
113 26 0.04
114 4 0.01
115 11 0.02
116 12 0.02
117 7 0.01
119 7 0.01
120 120 0.20
121 18 0.03
122 5 0.01
123 56 0.09
124 188 0.32
125 14 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (124 bp):
TATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
Found at i:4094774 original size:114 final size:114
Alignment explanation
Indices: 4094611--4094830 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
4094601 GATCATGCAG
* * * *
4094611 TTCATCTTTCAATTCCAATGATTGGTTCTAGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
4094676 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
4094725 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
4094790 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
4094831 CGAGAACGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:4095533 original size:12 final size:11
Alignment explanation
Indices: 4095516--4095573 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 11
4095506 CTATTTTTTC
4095516 TTTTTTCTCTCT
1 TTTTTTCT-TCT
4095528 TTTTTT-TTC-
1 TTTTTTCTTCT
*
4095537 -TTATTCTTCT
1 TTTTTTCTTCT
4095547 CTTTTTTCTTCAT
1 -TTTTTTCTTC-T
4095560 TTTTTTCTTCT
1 TTTTTTCTTCT
4095571 TTT
1 TTT
4095574 CATCTTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 2 0.05
11 5 0.13
12 24 0.62
13 1 0.03
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:4095535 original size:21 final size:21
Alignment explanation
Indices: 4095509--4095573 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
4095499 CTTGACCCTA
4095509 TTTTTTCTTTTTTCTCTCTTT
1 TTTTTTCTTTTTTCTCTCTTT
*
4095530 TTTTTTC-TTATTCTTCTCTTT
1 TTTTTTCTTTTTTC-TCTCTTT
*
4095551 TTTCTTCATTTTTT-TCTTCTTT
1 TTTTTTC-TTTTTTCTC-TCTTT
4095573 T
1 T
4095574 CATCTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.14
21 22 0.59
22 6 0.16
23 4 0.11
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTCTCTTT
Found at i:4095565 original size:30 final size:32
Alignment explanation
Indices: 4095514--4095581 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
4095504 CCCTATTTTT
*
4095514 TCTTTTTTCTCTCTTTTTTTTTCTTATTCTTC-
1 TCTTTTTTCTCTCTATTTTTTTCTTATT-TTCA
*
4095546 TCTTTTTTCT-TC-ATTTTTTTCTTCTTTTCA
1 TCTTTTTTCTCTCTATTTTTTTCTTATTTTCA
4095576 TCTTTT
1 TCTTTT
4095582 CATTTTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.09
30 18 0.55
31 2 0.06
32 10 0.30
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (32 bp):
TCTTTTTTCTCTCTATTTTTTTCTTATTTTCA
Found at i:4102934 original size:15 final size:15
Alignment explanation
Indices: 4102911--4102942 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4102901 TGCAATGAAT
4102911 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
4102926 AATGCATGTATGCAA
1 AATGAATGTATGCAA
4102941 AA
1 AA
4102943 GGTATTGATC
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:4106755 original size:45 final size:49
Alignment explanation
Indices: 4106704--4106794 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 49
4106694 GAAATTGTCT
*
4106704 CTATTATTAGAA-ATTA-AA-AATTAAAAATATAT-TTAATTTATAATC
1 CTATTATTAGAAGATTATAATAATGAAAAATATATATTAATTTATAATC
** *
4106749 CTATTATTTTAAGATTATAATTATGAAAAATATATATTAATTTATA
1 CTATTATTAGAAGATTATAATAATGAAAAATATATATTAATTTATA
4106795 TATATTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 10 0.26
46 4 0.11
47 2 0.05
48 12 0.32
49 10 0.26
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (49 bp):
CTATTATTAGAAGATTATAATAATGAAAAATATATATTAATTTATAATC
Found at i:4106908 original size:20 final size:20
Alignment explanation
Indices: 4106883--4106932 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4106873 TTTGATATTA
4106883 AAAAAAATAAATAAATAATT
1 AAAAAAATAAATAAATAATT
* *
4106903 AAAAAAATTAATATATAATT
1 AAAAAAATAAATAAATAATT
* *
4106923 TATAAAATAA
1 AAAAAAATAA
4106933 GATATTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAATAAATAAATAATT
Found at i:4107123 original size:3 final size:3
Alignment explanation
Indices: 4107115--4107144 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4107105 TTTATGGTTA
*
4107115 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4107145 TAACATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4108500 original size:3 final size:3
Alignment explanation
Indices: 4108492--4108573 Score: 98
Period size: 3 Copynumber: 27.7 Consensus size: 3
4108482 GGCCTGTTTG
**
4108492 TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
4108537 TAA T-A TAA -AA TAA TAA TAA TAA TAAA TAA TAG TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
4108574 GAAAATGGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 6 0.09
3 56 0.82
4 6 0.09
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4108550 original size:16 final size:15
Alignment explanation
Indices: 4108504--4108579 Score: 91
Period size: 16 Copynumber: 4.9 Consensus size: 15
4108494 ATAATAATTT
4108504 TAATAATAATAAATAA
1 TAATAATAA-AAATAA
*
4108520 -AATAATAATAATAA
1 TAATAATAAAAATAA
4108534 TAATAATATAAAATAA
1 TAATAATA-AAAATAA
4108550 TAATAATAATAAATAA
1 TAATAATAA-AAATAA
*
4108566 TAGTAATAGAAAAT
1 TAATAATA-AAAAT
4108580 GGAGAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
14 5 0.09
15 16 0.30
16 31 0.58
17 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAATAATAAAAATAA
Found at i:4110798 original size:2 final size:2
Alignment explanation
Indices: 4110791--4110820 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4110781 GGTTATTAGA
4110791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4110821 TGAAACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4111216 original size:235 final size:235
Alignment explanation
Indices: 4110804--4111277 Score: 833
Period size: 235 Copynumber: 2.0 Consensus size: 235
4110794 TATATATATA
4110804 TATATATATATATATATTGAAACAAATTAATTCATATTATGGCTATATTTGATATTTTGATCAAT
1 TATATATATATATATATTGAAACAAATTAATTCATATTATGGCTATATTTGATATTTTGATCAAT
*
4110869 TAGTTGAAACATAATGTCAACAAAGTGATCATATTTGTGTAGATTGATTTATTTAAAATATCAAG
66 TAGTTGAAACATAATGTCAACAAAGTGACCATATTTGTGTAGATTGATTTATTTAAAATATCAAG
*
4110934 ATGATTATGTGGTTTTTGTGATTCATGCGTTTGTTAATTGACTCAAAAGAAAGTAAATATTTGGC
131 ATGATTATGTGGTTTTTGTGATTCATGCGTTTGTTAATTGACTCAAAAGAAAGTAAATATTTGAC
*
4110999 CAATTTTCAAGCGACATTTGCGGTAATAACATGTGACAAT
196 CAATTTTCAAGCAACATTTGCGGTAATAACATGTGACAAT
4111039 TATATATATATATATATTGAAACAAATTAATTCATATTATGGCTATATTTGATATTTTGAT-AGA
1 TATATATATATATATATTGAAACAAATTAATTCATATTATGGCTATATTTGATATTTTGATCA-A
*
4111103 TTAGTTGAAACATAATGTCAACAAAGTGACCTTATTTGTGTAGATTGATTTATTTAAAATATCAA
65 TTAGTTGAAACATAATGTCAACAAAGTGACCATATTTGTGTAGATTGATTTATTTAAAATATCAA
* * **
4111168 GATGATTATGTGGTTTTTGTGATTCATGTGTTTGTTAATTGGCTCAAAAGAAAGTTGATATTTGA
130 GATGATTATGTGGTTTTTGTGATTCATGCGTTTGTTAATTGACTCAAAAGAAAGTAAATATTTGA
** *
4111233 CCGCTTTTCAAGCAACATTTGTGGTAATAACATGTGACAAT
195 CCAATTTTCAAGCAACATTTGCGGTAATAACATGTGACAAT
4111274 TATA
1 TATA
4111278 AGGTAATTTT
Statistics
Matches: 227, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
234 1 0.00
235 226 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (235 bp):
TATATATATATATATATTGAAACAAATTAATTCATATTATGGCTATATTTGATATTTTGATCAAT
TAGTTGAAACATAATGTCAACAAAGTGACCATATTTGTGTAGATTGATTTATTTAAAATATCAAG
ATGATTATGTGGTTTTTGTGATTCATGCGTTTGTTAATTGACTCAAAAGAAAGTAAATATTTGAC
CAATTTTCAAGCAACATTTGCGGTAATAACATGTGACAAT
Found at i:4112423 original size:17 final size:17
Alignment explanation
Indices: 4112399--4112442 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
4112389 AGGTTTGATC
4112399 GAGGAATTGATTTTGAG
1 GAGGAATTGATTTTGAG
*
4112416 GGGGAATTGATTTTGAG
1 GAGGAATTGATTTTGAG
4112433 GAGGAATTGA
1 GAGGAATTGA
4112443 ATTATAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.39, T:0.32
Consensus pattern (17 bp):
GAGGAATTGATTTTGAG
Found at i:4113686 original size:54 final size:54
Alignment explanation
Indices: 4113628--4113913 Score: 353
Period size: 54 Copynumber: 5.3 Consensus size: 54
4113618 ATTATGTGGG
* * * * * * *
4113628 TTGCACACATAGTGCTGAGATGGTTATTCATCAATATATGATAAATTTCGT-ACT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGA-A
* *
4113682 TTGCACACTTAGTGCCAAAACGGTTATTCATCAATATATGATGAATTTCGTGAA
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
* * * * *
4113736 TTGCACACTTAGTACTGAAATGGTTATTCATCAACATATGATGCA-TTC-TGTACT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTG-A-A
* *
4113790 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACCTATGATGAATTCCGTGAA
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
*
4113844 TTGCACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAA
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
* *
4113898 TTGCTCAATTAGTGCC
1 TTGCACACTTAGTGCC
4113914 TATTTGGTAA
Statistics
Matches: 201, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 4 0.02
54 189 0.94
55 4 0.02
56 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (54 bp):
TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
Found at i:4113764 original size:108 final size:108
Alignment explanation
Indices: 4113628--4113894 Score: 401
Period size: 108 Copynumber: 2.5 Consensus size: 108
4113618 ATTATGTGGG
* * * *
4113628 TTGCACACATAGTGCTGAGATGGTTATTCATCAATATATGATAAATTTCGTACTTTGCACACTTA
1 TTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTA
* *
4113693 GTGCCAAAACGGTTATTCATCAATATATGATGAATTTCGTGAA
66 GTGCCAAAACGGTTATTCATCAACATATGATGAATTCCGTGAA
* *
4113736 TTGCACACTTAGTACTGAAATGGTTATTCATCAACATATGATGCA-TTCTGTACTTTGCACACTT
1 TTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACACTT
* *
4113800 AGTGCCGAAACGGTTATTCATCAACCTATGATGAATTCCGTGAA
65 AGTGCCAAAACGGTTATTCATCAACATATGATGAATTCCGTGAA
* **
4113844 TTGCACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGT
1 TTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTTCGT
4113895 GAATTGCTCA
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
107 3 0.02
108 136 0.96
109 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (108 bp):
TTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTA
GTGCCAAAACGGTTATTCATCAACATATGATGAATTCCGTGAA
Found at i:4113987 original size:15 final size:15
Alignment explanation
Indices: 4113967--4113998 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4113957 TGACTAGTAT
4113967 AACATATAGTTACAC
1 AACATATAGTTACAC
4113982 AACATATAGTTACAC
1 AACATATAGTTACAC
4113997 AA
1 AA
4113999 TTAAAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AACATATAGTTACAC
Found at i:4121454 original size:54 final size:54
Alignment explanation
Indices: 4121386--4121627 Score: 326
Period size: 54 Copynumber: 4.5 Consensus size: 54
4121376 TTATAAGTTA
* * *
4121386 TGTGGGGTGCACACTTAGCGCCAATACGATCGTTCATAAACATATTATGAATTC
1 TGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTC
* * * * *
4121440 AGTGGGTTGTACACTCAGTGCTGATAC-AGTCGTTCATAAACTTATTATGAATTC
1 TGTGGGTTGCACACTTAGTGCCGATACGA-TCGTTCATAAACATATTATGAATTC
* *
4121494 CGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTC
1 TGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTC
* * *
4121548 TGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATAAACATATTATGAATTC
1 TGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTC
*
4121602 TGAT-GGTTGCACACTTAGTGTCGATA
1 TG-TGGGTTGCACACTTAGTGCCGATA
4121628 GTACACGTAG
Statistics
Matches: 166, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 164 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (54 bp):
TGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTC
Found at i:4121976 original size:20 final size:21
Alignment explanation
Indices: 4121951--4122001 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
4121941 AGGCTCAATA
*
4121951 GTATCGGTAC-CTATAGC-ATG
1 GTATCGATACTCTATA-CTATG
4121971 GTATCGATACTTCTATACTATG
1 GTATCGATAC-TCTATACTATG
4121993 GTATCGATA
1 GTATCGATA
4122002 GTCCCTTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 17 0.63
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (21 bp):
GTATCGATACTCTATACTATG
Found at i:4128537 original size:16 final size:19
Alignment explanation
Indices: 4128501--4128538 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4128491 TATTTAATGG
4128501 GTAGTATTAGATATAAGTA
1 GTAGTATTAGATATAAGTA
4128520 GTAGTA-TAGAT-TAA-TA
1 GTAGTATTAGATATAAGTA
4128536 GTA
1 GTA
4128539 ATTCTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 5 0.26
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
GTAGTATTAGATATAAGTA
Done.