Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 51
Found at i:3414681 original size:106 final size:103
Alignment explanation
Indices: 3414318--3414760 Score: 394
Period size: 109 Copynumber: 4.2 Consensus size: 103
3414308 TTTTAGCTAG
* * ** * *
3414318 ACACAAGTTCAACTTCATAACGAAGGGATGGCTGGTTGTCAACGAACAACTTCCCAATTCCAGAA
1 ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AA-AA-TTTTCAATTTCAGAG
** * * *
3414383 CTGATTTCAACTCCACGACGGAGGATATCGT-GCTACCCGAGAAA
63 CCAATTTCAACTCCACGACGAAGGATAT--TAG--ACTCGAGACA
* * **
3414427 ACACAAGTCCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCA-TC
1 ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AA-AA-TTTTCAATTTCAGAG
* * **
3414491 CGCGATTTCAACTCCACGACGGAGGATATCGTTCCACTCGAGACA
63 C-CAATTTCAACTCCACGACGAAGGATA---TTAGACTCGAGACA
* * *
3414536 ATACAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAATATTTTTCAAATTTCAGAG
1 ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-A-TTTTC-AATTTCAGAG
*
3414601 CCAATTTCAACTTCAC-AGCGAAGGATATTAGACTCGAGACA
63 CCAATTTCAACTCCACGA-CGAAGGATATTAGACTCGAGACA
* * * *
3414642 ACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAGA-TTTC--GTTCAGAGTCA
1 ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAATTTTCAATTTCAGAGCCA
* * *
3414704 ATTTCAACTTCACAACGAAGGATATTAGACTTGAGACA
66 ATTTCAACTCCACGACGAAGGATATTAGACTCGAGACA
* *
3414742 GCACAAGCTCAACTTCACA
1 ACACAAGTTCAACTTCACA
3414761 GCGGAGGATA
Statistics
Matches: 288, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
100 61 0.21
101 1 0.00
103 4 0.01
105 1 0.00
106 53 0.18
107 1 0.00
108 10 0.03
109 154 0.53
110 2 0.01
112 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (103 bp):
ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAATTTTCAATTTCAGAGCCA
ATTTCAACTCCACGACGAAGGATATTAGACTCGAGACA
Found at i:3415296 original size:36 final size:37
Alignment explanation
Indices: 3415239--3415314 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
3415229 TTTCGTCCTA
*
3415239 CTAGGATTCAAACTCTCAAAAATAGGATATAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
*
3415276 CTAGGATTC-AACTC-CTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCTC-AAAAATAGGATAGAATTCTG
3415312 CTA
1 CTA
3415315 TGTTTTAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 26 0.72
37 9 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
Found at i:3415806 original size:11 final size:11
Alignment explanation
Indices: 3415786--3415867 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
3415776 TTAATTATTT
*
3415786 TTATTCTAATA
1 TTATTTTAATA
*
3415797 TTATTTTAATG
1 TTATTTTAATA
3415808 TT-TTTTAA-A
1 TTATTTTAATA
*
3415817 GTTATTAT-ATA
1 -TTATTTTAATA
3415828 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
3415842 TTATATTTATTA
1 TTAT-TTTAATA
*
3415854 TTATTTTACTA
1 TTATTTTAATA
3415865 TTA
1 TTA
3415868 ACGTATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 10 0.18
11 28 0.50
12 7 0.12
13 6 0.11
14 5 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:3416058 original size:16 final size:16
Alignment explanation
Indices: 3416037--3416070 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3416027 CATGTATTTA
3416037 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
3416053 TATTATTTTACTTTAT
1 TATTATATTACATTAT
3416069 TA
1 TA
3416071 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:3416075 original size:21 final size:22
Alignment explanation
Indices: 3416051--3416101 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
3416041 ATATTACATT
*
3416051 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
* *
3416072 ATTATTTTTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
3416094 TTTATTAT
1 ATTATTAT
3416102 ATATATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Found at i:3416332 original size:24 final size:27
Alignment explanation
Indices: 3416285--3416338 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
3416275 GCGTTTTTTT
*
3416285 TTATTTTACTACTTATTATCATTAT-TA
1 TTATTTTACTACTTA-TATAATTATATA
3416312 TTATTTTAC-ACTTA-ATAATTATATA
1 TTATTTTACTACTTATATAATTATATA
3416337 TT
1 TT
3416339 TGTATTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
26 5 0.20
27 9 0.36
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATTTTACTACTTATATAATTATATA
Found at i:3416820 original size:15 final size:16
Alignment explanation
Indices: 3416777--3416817 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3416767 TTTCAAAATT
* *
3416777 AAAAGGAAAAAG-ATA
1 AAAAAGAAAAAGAAAA
3416792 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
3416808 AAAAAGAAAA
1 AAAAAGAAAA
3416818 GAATTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:3426302 original size:17 final size:17
Alignment explanation
Indices: 3426257--3426305 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
3426247 ATAATATTTT
3426257 AATATCATTTTAAT-AAA
1 AATAT-ATTTTAATAAAA
*
3426274 AATAT-TAATTAATAAAA
1 AATATAT-TTTAATAAAA
3426291 AATATATTTTAATAA
1 AATATATTTTAATAA
3426306 TATTGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 1 0.04
16 5 0.19
17 20 0.74
18 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATTTTAATAAAA
Found at i:3428678 original size:2 final size:2
Alignment explanation
Indices: 3428673--3428702 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3428663 TATAGATTTA
3428673 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
3428703 GATTTTTATT
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:3429482 original size:45 final size:45
Alignment explanation
Indices: 3429383--3429474 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
3429373 AATTAACGAA
*
3429383 TTAGAATATTTGATAAGCGAAGATAAGTACAAGAGTTATTATTCT
1 TTAGAATATTCGATAAGCGAAGATAAGTACAAGAGTTATTATTCT
* * *
3429428 TTAGAATATTCGATAAGTGAATATAAGTATAAGAGTTATTATTCT
1 TTAGAATATTCGATAAGCGAAGATAAGTACAAGAGTTATTATTCT
3429473 TT
1 TT
3429475 GGGATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (45 bp):
TTAGAATATTCGATAAGCGAAGATAAGTACAAGAGTTATTATTCT
Found at i:3429611 original size:60 final size:59
Alignment explanation
Indices: 3429524--3429737 Score: 187
Period size: 60 Copynumber: 3.6 Consensus size: 59
3429514 GTTATGACTA
* ** ** *
3429524 TTATTTTAAATTAGTCGTTAAGTTTTTGAATATTTTAATTTCATTCCTAAACCATGATTC
1 TTATTTTAAATTGGTCCCTAAACTTTTGAATATTTTAATTTCATTCCTAAACTATGA-TC
* * * * *
3429584 TTATTTTAAATTGGCCCCTAAACTTTTGAATGTTTCATTTTCA-TCCTCAAACTATGGCTC
1 TTATTTTAAATTGGTCCCTAAACTTTTGAATATTTTAATTTCATTCCT-AAACTAT-GATC
** * * * * * * *
3429644 CCATTTTAAATTAGTTCTTAAACTTTTGAACATTTTGATTTCATCCCTAAACTATGACC
1 TTATTTTAAATTGGTCCCTAAACTTTTGAATATTTTAATTTCATTCCTAAACTATGATC
* *
3429703 TTCTTTCTAAATTGATCCCTAAACTTTTGAATATT
1 TTATTT-TAAATTGGTCCCTAAACTTTTGAATATT
3429738 CCAATCTCAT
Statistics
Matches: 117, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
59 9 0.08
60 104 0.89
61 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.46
Consensus pattern (59 bp):
TTATTTTAAATTGGTCCCTAAACTTTTGAATATTTTAATTTCATTCCTAAACTATGATC
Found at i:3429748 original size:120 final size:120
Alignment explanation
Indices: 3429526--3429749 Score: 290
Period size: 120 Copynumber: 1.9 Consensus size: 120
3429516 TATGACTATT
** * * *
3429526 ATTTTAAATTAGTCGTTAAGTTTTTGAATATTTTAATTTCATTCCTAAACCATGATTCTTATTTT
1 ATTTTAAATTAGTCGTTAAACTTTTGAACATTTTAATTTCATCCCTAAACCATGATCCTTATTTT
* * * * *
3429591 AAATTGGCCCCTAAACTTTTGAATGTTTCATTTTCATCCTCAAACTATGGCTCCC
66 AAATTGACCCCTAAACTTTTGAATATTCCAATCTCATCCTCAAACTATGGCTCCC
* * *
3429646 ATTTTAAATTAGTTC-TTAAACTTTTGAACATTTTGATTTCATCCCTAAACTATGA-CCTTCTTT
1 ATTTTAAATTAG-TCGTTAAACTTTTGAACATTTTAATTTCATCCCTAAACCATGATCCTTATTT
*
3429709 CTAAATTGATCCCTAAACTTTTGAATATTCCAATCTCATCC
65 -TAAATTGACCCCTAAACTTTTGAATATTCCAATCTCATCC
3429750 CCAATTTCAT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
119 6 0.07
120 80 0.91
121 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.44
Consensus pattern (120 bp):
ATTTTAAATTAGTCGTTAAACTTTTGAACATTTTAATTTCATCCCTAAACCATGATCCTTATTTT
AAATTGACCCCTAAACTTTTGAATATTCCAATCTCATCCTCAAACTATGGCTCCC
Found at i:3432929 original size:6 final size:6
Alignment explanation
Indices: 3432917--3432951 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
3432907 CTAGCCATAT
* *
3432917 GCTATA TCTATA TCTATA GCTATA GCTATA GCTAT
1 GCTATA GCTATA GCTATA GCTATA GCTATA GCTAT
3432952 GTAAATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (6 bp):
GCTATA
Found at i:3432939 original size:12 final size:12
Alignment explanation
Indices: 3432908--3432951 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
3432898 TATATGCTTC
*
3432908 TAGCCATATGCTA
1 TAGCTATAT-CTA
*
3432921 TATCTATATCTA
1 TAGCTATATCTA
*
3432933 TAGCTATAGCTA
1 TAGCTATATCTA
3432945 TAGCTAT
1 TAGCTAT
3432952 GTAAATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (12 bp):
TAGCTATATCTA
Found at i:3434924 original size:36 final size:36
Alignment explanation
Indices: 3434874--3434952 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
3434864 ACCGAATTAA
* *
3434874 ACGGGGAAGAGGAAAAACCGTTTATGCTAAATGGGG
1 ACGGGGAAGAGGAAAAACCATTTATGCTAAACGGGG
* * *
3434910 ACGGGGATGGGGAAAAACTATTTATGCTAAACGGGG
1 ACGGGGAAGAGGAAAAACCATTTATGCTAAACGGGG
3434946 ACGGGGA
1 ACGGGGA
3434953 CGGGTTTGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.38, T:0.16
Consensus pattern (36 bp):
ACGGGGAAGAGGAAAAACCATTTATGCTAAACGGGG
Found at i:3435138 original size:12 final size:12
Alignment explanation
Indices: 3435121--3435151 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3435111 ATATATATAT
3435121 ATACCCGACCCG
1 ATACCCGACCCG
*
3435133 ATACCCGGCCCG
1 ATACCCGACCCG
3435145 ATACCCG
1 ATACCCG
3435152 TTTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.48, G:0.19, T:0.10
Consensus pattern (12 bp):
ATACCCGACCCG
Found at i:3445838 original size:16 final size:17
Alignment explanation
Indices: 3445807--3445839 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3445797 AGGTAAGTTA
*
3445807 ATTCAAACTGTTTGTTT
1 ATTCAAACTCTTTGTTT
3445824 ATTCAAA-TCTTTGTTT
1 ATTCAAACTCTTTGTTT
3445840 GGCGTTGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (17 bp):
ATTCAAACTCTTTGTTT
Found at i:3450523 original size:13 final size:13
Alignment explanation
Indices: 3450523--3450575 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
3450513 TGACTCGACC
* *
3450523 CGACCCGTTTACC
1 CGACCCGTTGACT
3450536 CGACCCGTTGACT
1 CGACCCGTTGACT
3450549 CGACCCGTTGACCGT
1 CGACCCGTTGA-C-T
*
3450564 TGACCCGTTGAC
1 CGACCCGTTGAC
3450576 CGTTGACAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
13 22 0.63
14 2 0.06
15 11 0.31
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:3450526 original size:18 final size:18
Alignment explanation
Indices: 3450503--3450555 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
3450493 ACAACCCGAC
3450503 CCCGACCCGTTGACTCGA
1 CCCGACCCGTTGACTCGA
3450521 CCCGACCCGTT---T--A
1 CCCGACCCGTTGACTCGA
3450534 CCCGACCCGTTGACTCGA
1 CCCGACCCGTTGACTCGA
3450552 CCCG
1 CCCG
3450556 TTGACCGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.40
15 1 0.03
16 1 0.03
18 16 0.53
ACGTcount: A:0.15, C:0.47, G:0.21, T:0.17
Consensus pattern (18 bp):
CCCGACCCGTTGACTCGA
Found at i:3450570 original size:15 final size:15
Alignment explanation
Indices: 3450537--3450582 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
3450527 CCGTTTACCC
*
3450537 GACCCGTTGA-C-TC
1 GACCCGTTGACCGTT
3450550 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
3450565 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
3450580 GAC
1 GAC
3450583 AGTCGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 10 0.33
14 1 0.03
15 19 0.63
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:3450571 original size:8 final size:8
Alignment explanation
Indices: 3450550--3450582 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
3450540 CCGTTGACTC
3450550 GACCCGTT
1 GACCCGTT
3450558 GA-CCGTT
1 GACCCGTT
3450565 GACCCGTT
1 GACCCGTT
3450573 GA-CCGTT
1 GACCCGTT
3450580 GAC
1 GAC
3450583 AGTCGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.15, C:0.33, G:0.27, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:3451914 original size:18 final size:18
Alignment explanation
Indices: 3451888--3451923 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3451878 TCGAAAGGAC
*
3451888 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3451906 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3451924 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3453145 original size:24 final size:24
Alignment explanation
Indices: 3453027--3453142 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
3453017 TTCGATTTGA
3453027 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
3453051 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
3453075 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
3453099 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
3453123 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
3453143 CTGATTTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:3454006 original size:18 final size:19
Alignment explanation
Indices: 3453979--3454016 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3453969 TCTTGATATT
**
3453979 TTTTTAATATTTAATTATA
1 TTTTTAATATAAAATTATA
3453998 TTTTT-ATATAAAATTATA
1 TTTTTAATATAAAATTATA
3454016 T
1 T
3454017 ATCATATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTAATATAAAATTATA
Found at i:3458618 original size:44 final size:43
Alignment explanation
Indices: 3458568--3458655 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
3458558 AAATCTGTCA
*
3458568 GGAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAAAT
1 GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCA-GAAAT
*
3458612 GGAATTGGAATCCAATTTCATATTCTGTTTGGTTCGCAGAAAT
1 GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGAAAT
3458655 G
1 G
3458656 TCAAATGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 6 0.14
44 36 0.86
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (43 bp):
GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGAAAT
Found at i:3459194 original size:33 final size:33
Alignment explanation
Indices: 3459157--3459265 Score: 139
Period size: 33 Copynumber: 3.2 Consensus size: 33
3459147 CTAAACCCAA
*
3459157 ACCCGACCCGAATATCACACTTAAAAAAACCTG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCG
3459190 ACCCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCG
* *
3459223 ACCCAACTCGACCCGTATATCACA-TTTAAAAAACCCG
1 A--C--C-CGACCCGAATATCACACTTAAAAAAACCCG
3459260 ACCCGA
1 ACCCGA
3459266 ACAAAATAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
32 3 0.04
33 34 0.50
35 2 0.03
37 14 0.21
38 15 0.22
ACGTcount: A:0.40, C:0.36, G:0.09, T:0.15
Consensus pattern (33 bp):
ACCCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:3467513 original size:16 final size:15
Alignment explanation
Indices: 3467486--3467518 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
3467476 AATGAGACAC
3467486 ATAATTATTATTATA
1 ATAATTATTATTATA
3467501 ATAATTGATTATTATA
1 ATAATT-ATTATTATA
3467517 AT
1 AT
3467519 TACAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATAATTATTATTATA
Found at i:3471032 original size:16 final size:17
Alignment explanation
Indices: 3470997--3471078 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 17
3470987 TGTTAGAAGG
*
3470997 AAAAAATGAATAAATGA
1 AAAAAATGAATAAATAA
*
3471014 AAAAAATGAA-GAATAA
1 AAAAAATGAATAAATAA
* * *
3471030 AAATAAGTAAAAAAATAA
1 AAA-AAATGAATAAATAA
*
3471048 AATAAAAGGAA-AAAT-A
1 AA-AAAATGAATAAATAA
* *
3471064 AATAAATAAATAAAT
1 AAAAAATGAATAAAT
3471079 GAAATATTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
15 5 0.10
16 14 0.28
17 19 0.38
18 11 0.22
19 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAAATGAATAAATAA
Found at i:3471095 original size:2 final size:2
Alignment explanation
Indices: 3471088--3471115 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3471078 TGAAATATTA
3471088 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
3471116 GAGTAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3471230 original size:29 final size:29
Alignment explanation
Indices: 3471165--3471230 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
3471155 TATGAAATAT
*
3471165 AATAT-AATATAAACAAATAAAAAAACCA
1 AATATAAAAATAAACAAATAAAAAAACCA
* * * * *
3471193 AAAACAAAAATAAATAAATATATAAACCA
1 AATATAAAAATAAACAAATAAAAAAACCA
3471222 AATATAAAA
1 AATATAAAA
3471231 GTATACATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (29 bp):
AATATAAAAATAAACAAATAAAAAAACCA
Found at i:3471336 original size:2 final size:2
Alignment explanation
Indices: 3471329--3471411 Score: 143
Period size: 2 Copynumber: 42.5 Consensus size: 2
3471319 GATAATTACA
*
3471329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3471371 AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3471411 A
1 A
3471412 GTAATAATAC
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
1 2 0.03
2 75 0.97
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3471475 original size:21 final size:19
Alignment explanation
Indices: 3471440--3471490 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
3471430 GTAAAATATT
* *
3471440 TAAAAAAGTATATATATGTA
1 TAAAAAAATAAATATA-GTA
3471460 TAAAAATAATAAATATAGTA
1 TAAAAA-AATAAATATAGTA
*
3471480 TTAAAAAATAA
1 TAAAAAAATAA
3471491 CCAAATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 14 0.52
21 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TAAAAAAATAAATATAGTA
Found at i:3472060 original size:37 final size:37
Alignment explanation
Indices: 3472019--3472123 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
3472009 GTGCTTGTGG
* * *
3472019 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
3472056 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
3472093 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
3472124 GACGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:3473173 original size:106 final size:106
Alignment explanation
Indices: 3472854--3474234 Score: 1979
Period size: 106 Copynumber: 13.1 Consensus size: 106
3472844 GCATTGTTCT
* * * ** * *
3472854 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGACTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
** * * * * *
3472918 ACCAGCCTTCCCTTCATTGTGAAGTTGATCTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3472960 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * * * *
3473019 TCAGCCGCCCCTTCATCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * * *
3473061 G-CTCCAAGATCCTTCGCTGAGAATTTGAAATTGACTATGAAATTTGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
3473125 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGGCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3473166 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTTAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
3473231 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
3473272 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
3473337 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3473378 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
3473443 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3473484 GAGTCCAATATCCTTCGCTGTTAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
3473549 CCAGGGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * *
3473590 GAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGATAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
3473655 CCAGCGGTACCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3473696 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
3473761 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3473802 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
3473867 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
3473908 GAGTCTAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA-AA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
3473972 CCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATG
66 -CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
3474014 GAGTCCAATATCCTTCGCTGTGATGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
3474079 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
3474120 GACTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
3474185 CCAGCAGTCCATTCTTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3474226 GAGTCCAAT
1 GAGTCCAAT
3474235 CTCTGAAATT
Statistics
Matches: 1154, Mismatches: 110, Indels: 22
0.90 0.09 0.02
Matches are distributed among these distances:
100 76 0.07
101 5 0.00
102 4 0.00
104 3 0.00
105 7 0.01
106 1056 0.92
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:3475060 original size:22 final size:22
Alignment explanation
Indices: 3475034--3475132 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
3475024 TTATGTTTGG
*
3475034 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
3475056 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
3475078 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
3475100 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
3475122 TCAACGGTTTG
1 TCAAAGGTTTG
3475133 ATGGGGTAGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:3475744 original size:21 final size:21
Alignment explanation
Indices: 3475720--3475760 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3475710 TGCATGTGCT
3475720 TTTTGTCCTT-TTTTCTTTTGA
1 TTTT-TCCTTCTTTTCTTTTGA
*
3475741 TTTTTGCTTCTTTTCTTTTG
1 TTTTTCCTTCTTTTCTTTTG
3475761 TTCTTGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.02, C:0.15, G:0.10, T:0.73
Consensus pattern (21 bp):
TTTTTCCTTCTTTTCTTTTGA
Found at i:3475744 original size:22 final size:21
Alignment explanation
Indices: 3475730--3475803 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
3475720 TTTTGTCCTT
3475730 TTTTCTTTTGATTTTTGCTTC
1 TTTTCTTTTGATTTTTGCTTC
* *
3475751 TTTTCTTTTG-TTCTTGATTCTC
1 TTTTCTTTTGATTTTTG-CT-TC
* *
3475773 TTTTTTATTTGTTTTTTGCTTC
1 TTTTCT-TTTGATTTTTGCTTC
*
3475795 TTTGCTTTT
1 TTTTCTTTT
3475804 TTGTTCTTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.12
21 14 0.33
22 13 0.31
23 5 0.12
24 5 0.12
ACGTcount: A:0.04, C:0.14, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTTCTTTTGATTTTTGCTTC
Found at i:3475809 original size:46 final size:45
Alignment explanation
Indices: 3475727--3475815 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
3475717 GCTTTTTGTC
*
3475727 CTTTTTTCTTTTGATTTTTGCTTCTTTTCTTTTGTTCTTGATTCT
1 CTTTTTTCATTTGATTTTTGCTTCTTTTCTTTTGTTCTTGATTCT
* *
3475772 CTTTTTT-ATTTGTTTTTTGCTTCTTTGCTTTTTTGTTCTTGATT
1 CTTTTTTCATTTGATTTTTGCTTCTTT--TCTTTTGTTCTTGATT
3475816 GGATCTTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 17 0.44
45 7 0.18
46 15 0.38
ACGTcount: A:0.04, C:0.13, G:0.10, T:0.72
Consensus pattern (45 bp):
CTTTTTTCATTTGATTTTTGCTTCTTTTCTTTTGTTCTTGATTCT
Found at i:3477017 original size:23 final size:23
Alignment explanation
Indices: 3476991--3477039 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
3476981 TGTTCGAGGC
3476991 ATTGATCCAAAAACATGTCGGTT
1 ATTGATCCAAAAACATGTCGGTT
3477014 ATTGATCCAAAAACATGTCGGTT
1 ATTGATCCAAAAACATGTCGGTT
3477037 ATT
1 ATT
3477040 AGATAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (23 bp):
ATTGATCCAAAAACATGTCGGTT
Found at i:3478796 original size:18 final size:18
Alignment explanation
Indices: 3478760--3478804 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3478750 AAAAATGAAG
* *
3478760 AATAAAA-ATAAGTAAAA
1 AATAAAATAAAAGGAAAA
3478777 AATAAAATAAAAGGAAAA
1 AATAAAATAAAAGGAAAA
3478795 AAT-AAATAAA
1 AATAAAATAAA
3478805 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AATAAAATAAAAGGAAAA
Found at i:3478820 original size:2 final size:2
Alignment explanation
Indices: 3478813--3478837 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3478803 AATAAATGAA
3478813 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3478838 AATGAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3479752 original size:37 final size:37
Alignment explanation
Indices: 3479654--3479755 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
3479644 GTGCTTGTGG
* * * *
3479654 ATCATATCTTTAGGAGTTTAAATCATAGAAGAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGAAGAACTAT
*
3479691 ATCATATTTTTAGGAGTTTGAATCCTAGCAA-AATTAT
1 ATCATATTTTTAGGAGTTTGAATCCTAG-AAGAACTAT
*
3479728 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCATATTTTTAGGAGTTTGAATCCTAG
3479756 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 56 0.97
38 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCCTAGAAGAACTAT
Found at i:3481854 original size:2 final size:2
Alignment explanation
Indices: 3481838--3481898 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
3481828 TTTGATTGGC
*
3481838 AT AT A- AT AA AT 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 AT AT AT AT AT AT
3481879 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
3481899 GTTGATTCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3486679 original size:2 final size:2
Alignment explanation
Indices: 3486672--3486712 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3486662 AATAAAATAA
*
3486672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3486713 ATTACAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3486982 original size:16 final size:15
Alignment explanation
Indices: 3486941--3486982 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
3486931 AATTACAATT
3486941 ATTATATTTTATTAAA
1 ATTATA-TTTATTAAA
*
3486957 A-TATAATTATTATAA
1 ATTATATTTATTA-AA
3486972 ATTATATTTAT
1 ATTATATTTAT
3486983 AATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTATTAAA
Found at i:3487482 original size:10 final size:9
Alignment explanation
Indices: 3487462--3487486 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3487452 GCTTTCTAAT
3487462 AAAAAATAA
1 AAAAAATAA
3487471 AAAAAATAA
1 AAAAAATAA
3487480 AAAAAAT
1 AAAAAAT
3487487 TTTATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:3487526 original size:30 final size:29
Alignment explanation
Indices: 3487492--3487567 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 29
3487482 AAAATTTTAT
3487492 ATAATTACAATATAATTTTAAAAAATAATC
1 ATAATTACAATATAA-TTTAAAAAATAATC
* * *
3487522 ATAA-T-GAA-GTGA--TAAAAAATAATC
1 ATAATTACAATATAATTTAAAAAATAATC
3487546 ATAATTACAATATAATTATAAA
1 ATAATTACAATATAATT-TAAA
3487568 TATCAAATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
24 16 0.47
25 1 0.03
26 2 0.06
27 4 0.12
28 2 0.06
29 1 0.03
30 8 0.24
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (29 bp):
ATAATTACAATATAATTTAAAAAATAATC
Found at i:3487677 original size:14 final size:14
Alignment explanation
Indices: 3487660--3487746 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
3487650 TATTTATGTC
3487660 AATATTATTATTAA
1 AATATTATTATTAA
*
3487674 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
3487688 AATTTTATAAATAA
1 AATATTATTATTAA
* * *
3487702 AAAATTATGATTAT
1 AATATTATTATTAA
*
3487716 TATATT-TTATTAA
1 AATATTATTATTAA
**
3487729 AATAAAATTATTATA
1 AATATTATTATTA-A
3487744 AAT
1 AAT
3487747 TATATTTATT
Statistics
Matches: 52, Mismatches: 17, Indels: 7
0.68 0.22 0.09
Matches are distributed among these distances:
13 11 0.21
14 36 0.69
15 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:3487695 original size:28 final size:28
Alignment explanation
Indices: 3487660--3487749 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
3487650 TATTTATGTC
3487660 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
3487688 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
3487716 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
3487743 AA-ATTAT
1 AATATTAT
3487750 ATTTATTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.06
27 17 0.36
28 25 0.53
29 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:3487752 original size:31 final size:31
Alignment explanation
Indices: 3487689--3487757 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
3487679 TATATCTATA
*
3487689 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
3487719 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
3487750 A-TTTATTA
1 ATTTTATTA
3487758 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:3488318 original size:198 final size:199
Alignment explanation
Indices: 3487853--3488306 Score: 610
Period size: 200 Copynumber: 2.3 Consensus size: 199
3487843 ATCGAAATCA
* * * *
3487853 ATAATTATAATGTAATAAGTAAATTTACAATGTAACCGGTATAAATATATTGGTTTTATGAGAGA
1 ATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTTTATGAGAAA
* *
3487918 ATATATCAACATAATGTATCGAAACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATG
66 ATAGATCAACATAATATATCGAAACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATG
* *
3487983 CCAAACGAGGTGCACGCATAAAGTATCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGA
131 CCAAACGAGGTGCACACATAAAGTATCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCAA
*
3488048 AAGCG
195 AACCG
* * *
3488053 ATAATTACAATGTAATAGGTAAATTTACAATG-TACCCGGAAGAAATATATCGGTTTTATGAGAA
1 ATAATTATAATGTAATAGGTAAATTTACAATGTTA-CCGGTATAAATATATCGGTTTTATGAGAA
* * * * *** *
3488117 AATAGGTCTACATAATATATCGACAC-ATTTTAAGTTTGTGTCGATAC-TTTTTTCCAGAATGAA
65 AATAGATCAACATAATATATCGAAACAAATTTAA-AAAGTGTCGATACATTTTGTCCAGAATGAA
* * *
3488180 TGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATC
129 TGCCAAACGAGGTGCACACATAAAGTATCGATACATTTATAAA-AGTATCGATCCCAAAAACATC
3488244 AAAACCG
193 AAAACCG
** *
3488251 ATAATTATAATGTAATAGGTAAATTTGTAATGTTACAGGTATAAATATATCGGTTT
1 ATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTT
3488307 AGTTAGAAAA
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
197 3 0.01
198 72 0.33
199 60 0.27
200 86 0.39
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (199 bp):
ATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTTTATGAGAAA
ATAGATCAACATAATATATCGAAACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATG
CCAAACGAGGTGCACACATAAAGTATCGATACATTTATAAAAGTATCGATCCCAAAAACATCAAA
ACCG
Found at i:3488415 original size:87 final size:87
Alignment explanation
Indices: 3488324--3488510 Score: 320
Period size: 87 Copynumber: 2.1 Consensus size: 87
3488314 AAATATGTCA
* *
3488324 ATATAAGCGCTACCTATTGCATTATGTAAGCACTACCTAATATGTTATTGTACATAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACATAATAATATTT
3488389 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* * * *
3488411 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACATAATAATATTT
3488476 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
3488498 ATATAAGCGCTAC
1 ATATAAGCGCTAC
3488511 GTAGTATGTT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACATAATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:3488424 original size:23 final size:23
Alignment explanation
Indices: 3488398--3488449 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
3488388 TCCGGTTAAA
** *
3488398 TACCTATTTTATTATATAAGCGT
1 TACCTATTACATTATATAAGCGC
3488421 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
3488444 TACCTA
1 TACCTA
3488450 ATATGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:3488489 original size:64 final size:64
Alignment explanation
Indices: 3488421--3488577 Score: 260
Period size: 64 Copynumber: 2.5 Consensus size: 64
3488411 ATATAAGCGT
**
3488421 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
* *
3488485 TACCTATTTTATTATATAAGCGCTACGTAGTATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
* *
3488549 TATCTATTTTATTATATAAGCACTACCTA
1 TACCTATTTTATTATATAAGCGCTACCTA
3488578 TTACATTATA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 86 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (64 bp):
TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
Found at i:3488537 original size:151 final size:151
Alignment explanation
Indices: 3488334--3488664 Score: 527
Period size: 151 Copynumber: 2.2 Consensus size: 151
3488324 ATATAAGCGC
** * *
3488334 TACCTATTGCATTATGTAAGCACTACCTAATATGTTATTGTACATAATAATATTTCCGGTTAAAT
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACATAATAATATTTCCGGTTAAAT
** *
3488399 ACCTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTAC
66 ACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTAC
3488464 TTGATAATATTTCCGGTTAAA
131 TTGATAATATTTCCGGTTAAA
* * * *
3488485 TACCTATTTTATTATATAAGCGCTACGTAGTATGTTATTGTACTTGATAATATTTCCGGTTAAAT
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACATAATAATATTTCCGGTTAAAT
* * *
3488550 ATCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCATTACCTAATATGTTATTGTAG
66 ACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTAC
3488615 TTGATAATATTTCCGGTTAAA
131 TTGATAATATTTCCGGTTAAA
*
3488636 TACATATTTTATTATATAAGCGCTACCTA
1 TACCTATTTTATTATATAAGCGCTACCTA
3488665 TTACATTATA
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 164 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (151 bp):
TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACATAATAATATTTCCGGTTAAAT
ACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTAC
TTGATAATATTTCCGGTTAAA
Found at i:3488576 original size:87 final size:87
Alignment explanation
Indices: 3488485--3488723 Score: 374
Period size: 87 Copynumber: 2.7 Consensus size: 87
3488475 TCCGGTTAAA
** * * *
3488485 TACCTATTTTATTATATAAGCGCTACGTAGTATGTTATTGTACTTGATAATATTTCCGGTTAAAT
1 TACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAAT
3488550 ATC-TATTTTATTATATAAGCAC
66 A-CATATTTTATTATATAAGCAC
*
3488572 TACCTATTACATTATATAAGC-ATTACCTAATATGTTATTGTAGTTGATAATATTTCCGGTTAAA
1 TACCTATTACATTATATAAGCGA-TACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
*
3488636 TACATATTTTATTATATAAGCGC
65 TACATATTTTATTATATAAGCAC
*
3488659 TACCTATTACATTATATAAGAGATACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAAT
1 TACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAAT
3488724 GTTATAACAT
Statistics
Matches: 140, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 138 0.99
88 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (87 bp):
TACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAAT
ACATATTTTATTATATAAGCAC
Found at i:3488609 original size:23 final size:23
Alignment explanation
Indices: 3488559--3488603 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3488549 TATCTATTTT
*
3488559 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
3488582 ATTATATAAGCATTACCTAATA
1 ATTATATAAGCACTACCTAATA
3488604 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:3488696 original size:23 final size:23
Alignment explanation
Indices: 3488646--3488690 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3488636 TACATATTTT
* * *
3488646 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGAGATACCTAATAC
3488669 ATTATATAAGAGATACCTAATA
1 ATTATATAAGAGATACCTAATA
3488691 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGAGATACCTAATAC
Found at i:3494384 original size:21 final size:21
Alignment explanation
Indices: 3494360--3494463 Score: 102
Period size: 21 Copynumber: 4.8 Consensus size: 21
3494350 AGAACCCCAT
3494360 GGGGGTATCGATTCCCCTATA
1 GGGGGTATCGATTCCCCTATA
*
3494381 GGGGGTATCGATTCCCCTACA
1 GGGGGTATCGATTCCCCTATA
* * *
3494402 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGTATCGATTCCCC-T-ATA
* *
3494425 GGGGGAATCGGTTCCCCT-TCAA
1 GGGGGTATCGATTCCCCTAT--A
3494447 GGGGGGTATCGATTCCC
1 -GGGGGTATCGATTCCC
3494464 TCTGCACTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
21 35 0.49
22 3 0.04
23 33 0.46
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCTATA
Found at i:3494431 original size:23 final size:23
Alignment explanation
Indices: 3494360--3494463 Score: 108
Period size: 23 Copynumber: 4.7 Consensus size: 23
3494350 AGAACCCCAT
* *
3494360 GGGGGTATCGATTCCCC-T-ATA
1 GGGGGAATCGATTCCCCTTCAAA
* *
3494381 GGGGGTATCGATTCCCC-T-ACA
1 GGGGGAATCGATTCCCCTTCAAA
*
3494402 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTCAAA
* *
3494425 GGGGGAATCGGTTCCCCTTCAAG
1 GGGGGAATCGATTCCCCTTCAAA
*
3494448 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
3494464 TCTGCACTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
21 35 0.47
22 1 0.01
23 38 0.51
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGATTCCCCTTCAAA
Found at i:3501374 original size:29 final size:30
Alignment explanation
Indices: 3501337--3501393 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3501327 GGACTAATCT
3501337 TTTCAACTAAC-TTGATT-CTTGTTGTCTTG
1 TTTCAACTAACATTGATTCCTT-TTGTCTTG
* *
3501366 TTTCTACTAACATTGTTTCCTTTTGTCT
1 TTTCAACTAACATTGATTCCTTTTGTCT
3501394 GTTCTTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 11 0.46
31 3 0.12
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.54
Consensus pattern (30 bp):
TTTCAACTAACATTGATTCCTTTTGTCTTG
Found at i:3502060 original size:16 final size:16
Alignment explanation
Indices: 3502036--3502066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3502026 CATTTCTGAG
*
3502036 TCATGCATTAAAATAT
1 TCATCCATTAAAATAT
3502052 TCATCCATTAAAATA
1 TCATCCATTAAAATA
3502067 ATGATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.35
Consensus pattern (16 bp):
TCATCCATTAAAATAT
Found at i:3503066 original size:30 final size:30
Alignment explanation
Indices: 3503032--3503097 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
3503022 GCTGGAGAAT
3503032 GAGGCTACAATTATCTTTGTGAATACCTTG
1 GAGGCTACAATTATCTTTGTGAATACCTTG
3503062 GAGGCTACAATTATCTTTGTGAATACCTTG
1 GAGGCTACAATTATCTTTGTGAATACCTTG
*
3503092 AAGGCT
1 GAGGCT
3503098 CCATATATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (30 bp):
GAGGCTACAATTATCTTTGTGAATACCTTG
Found at i:3505627 original size:76 final size:76
Alignment explanation
Indices: 3505464--3505701 Score: 293
Period size: 76 Copynumber: 3.1 Consensus size: 76
3505454 GTCTCACTTG
* * * * *
3505464 AGATTGTTTTTCTTAAAACATA-CTTTGTCTCACATGAGACAA-TTTTACTCGAAATAAGACATT
1 AGATTGTTTTTCTTAAAACA-AGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAACATT
3505527 TCATTTGACTCA
65 TCATTTGACTCA
* * *
3505539 AGATTGTTTTTCTTAAAAGAAGATTTGTCTCGCTTGGGACAATTTTTACTCGAAACAATAAGATT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAA-AACATT
3505604 T-ATTTGACTCA
65 TCATTTGACTCA
* * * ** * *
3505615 AGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGATAGTTTTTACTTAAAAGAACACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAACATTT
*
3505680 CATTTCACTCA
66 CATTTGACTCA
3505691 AGATTGTTTTT
1 AGATTGTTTTT
3505702 AAAGAATATT
Statistics
Matches: 140, Mismatches: 19, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
74 1 0.01
75 40 0.29
76 94 0.67
77 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAACATTT
CATTTGACTCA
Found at i:3505660 original size:36 final size:37
Alignment explanation
Indices: 3505539--3505669 Score: 97
Period size: 36 Copynumber: 3.5 Consensus size: 37
3505529 ATTTGACTCA
* * *
3505539 AGATTGTTTTT-CTTAAAAGAAGATTTGTCTCGCTTG
1 AGATAGTTTTTACTTAAAACAAGATTTGTCTTGCTTG
* * * * * * **
3505575 GGACAATTTTTACTCGAAACAATAAGATTTAT-TTGACTCA
1 AGATAGTTTTTACT--TAA-AACAAGATTTGTCTTG-CTTG
*
3505615 AGATTGTTTTT-CTTAAAACAAGATTTGTCTTGCTTG
1 AGATAGTTTTTACTTAAAACAAGATTTGTCTTGCTTG
3505651 AGATAGTTTTTACTTAAAA
1 AGATAGTTTTTACTTAAAA
3505670 GAACACATTT
Statistics
Matches: 68, Mismatches: 20, Indels: 13
0.67 0.20 0.13
Matches are distributed among these distances:
36 29 0.43
37 14 0.21
39 6 0.09
40 19 0.28
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (37 bp):
AGATAGTTTTTACTTAAAACAAGATTTGTCTTGCTTG
Found at i:3505754 original size:39 final size:39
Alignment explanation
Indices: 3505713--3506158 Score: 660
Period size: 39 Copynumber: 11.5 Consensus size: 39
3505703 AAGAATATTG
* * * *
3505713 TCTCGCTTGAGATAGTTTCTCTTGAAAAAGAAGATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* * * **
3505752 TCTCGCTTTAGATAATTTCCCTTGAAACAGAAGATTTCG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
*
3505791 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3505830 TCTCGCTGGAGATAGTTTCCCTCGAAACAGAAGATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3505869 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAATATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3505908 TCTCACTTGAGATAGTTTCCCTCGAAATAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
3505947 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
**
3505986 TCTCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3506025 TCTCGCTTAAGATAGTTTCACTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3506064 TCTCGCTTAAGATAGTTTCACTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
*
3506103 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
* *
3506141 TCTCCCTTGAGATTGTTT
1 TCTCGCTTGAGATAGTTT
3506159 TCTTAAAACG
Statistics
Matches: 382, Mismatches: 25, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
38 20 0.05
39 362 0.95
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
Found at i:3507549 original size:89 final size:89
Alignment explanation
Indices: 3507445--3507740 Score: 315
Period size: 89 Copynumber: 3.3 Consensus size: 89
3507435 GATATCTCGT
* * * *
3507445 TCGATTCCATCACAGAAGGAGATAGATCAATATTTTTATTTTCGCTCAAATCCATCGCAAAATGA
1 TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
*
3507510 GTTGGATTAGCGTCAACTTTTAGC
66 GTTGGATCAGCGTCAACTTTTAGC
* * * * * * *
3507534 TCGATTCTATGACAGAAAGAGGTGGATCGACATTATTATTTTCGCTTAAATCCATCGCAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
* ** * * * *
3507599 -TGTAGATCAGCAACAACATCTCGT
66 GT-TGGATCAGCGTCAACTTTTAGC
* * * * * * *
3507623 TTGATTCCATCACATAAGAAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCGTAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
3507688 GTTGGATCAGCGTCAACTTTTAGC
66 GTTGGATCAGCGTCAACTTTTAGC
* * *
3507712 TCAATTCTATCATAGAAGGAGGTAGATCA
1 TCGATTCCATCACAGAAGGAGGTAGATCA
3507741 GCACACACAT
Statistics
Matches: 161, Mismatches: 44, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
88 1 0.01
89 159 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (89 bp):
TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGA
GTTGGATCAGCGTCAACTTTTAGC
Found at i:3515870 original size:2 final size:2
Alignment explanation
Indices: 3515836--3515861 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3515826 GCAGGTTAAA
3515836 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
3515862 CGTATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3517255 original size:31 final size:31
Alignment explanation
Indices: 3517195--3517255 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
3517185 TAATTTAAAA
3517195 TAGTTTTATAATATTAAAATTTAAATAATTT
1 TAGTTTTATAATATTAAAATTTAAATAATTT
*
3517226 TAGTTTTATAATATTGAAATTTAAATAATT
1 TAGTTTTATAATATTAAAATTTAAATAATT
3517256 CATATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TAGTTTTATAATATTAAAATTTAAATAATTT
Found at i:3517310 original size:22 final size:22
Alignment explanation
Indices: 3517277--3517400 Score: 141
Period size: 22 Copynumber: 5.6 Consensus size: 22
3517267 AATTATACTT
3517277 TTTTAAAAATAAATTAATTTATA
1 TTTT-AAAATAAATTAATTTATA
3517300 TTTTAAAATAAAATT--TTTCATA
1 TTTTAAAAT-AAATTAATTT-ATA
*
3517322 TTTTAAAATAAAATT-TTTTATA
1 TTTTAAAAT-AAATTAATTTATA
* *
3517344 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATTAATTTATA
3517366 -TTTAAAAT-AATTCAATTTATA
1 TTTTAAAATAAATT-AATTTATA
3517387 TTTTAAAATAAATT
1 TTTTAAAATAAATT
3517401 TTAAAATAGA
Statistics
Matches: 89, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.03
21 22 0.25
22 48 0.54
23 16 0.18
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTAAAATAAATTAATTTATA
Found at i:3517385 original size:43 final size:43
Alignment explanation
Indices: 3517277--3517399 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 43
3517267 AATTATACTT
***
3517277 TTTTAAAAATAAATTAATTTATATTTTAAAATAAAATTTTTCATA
1 TTTT-AAAATAAATTAATTTATATTTTAAAAT-AAATCAATCATA
*
3517322 TTTTAAAATAAAATT-TTTTATATTTTAAAATAAATCAATC-TA
1 TTTTAAAAT-AAATTAATTTATATTTTAAAATAAATCAATCATA
3517364 TATTTAAAAT-AATTCAATTTATATTTTAAAATAAAT
1 T-TTTAAAATAAATT-AATTTATATTTTAAAATAAAT
3517400 TTTAAAATAG
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 4 0.06
42 3 0.04
43 33 0.48
44 20 0.29
45 9 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (43 bp):
TTTTAAAATAAATTAATTTATATTTTAAAATAAATCAATCATA
Found at i:3517416 original size:11 final size:12
Alignment explanation
Indices: 3517386--3517425 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
3517376 TTCAATTTAT
3517386 ATTTTAAAATAA
1 ATTTTAAAATAA
*
3517398 ATTTTAAAATAG
1 ATTTTAAAATAA
3517410 A-TTT-AAAT-A
1 ATTTTAAAATAA
3517419 ATTTTAA
1 ATTTTAA
3517426 TTTTTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:3520610 original size:21 final size:20
Alignment explanation
Indices: 3520524--3520681 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
3520514 AAATGACCAA
**
3520524 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
3520543 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
3520563 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
3520583 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
3520604 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
3520625 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
3520645 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
3520666 GAAATTCGCAACGCGA
1 CAAAATCGCAACGCGA
3520682 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:3520694 original size:20 final size:20
Alignment explanation
Indices: 3520687--3520841 Score: 204
Period size: 20 Copynumber: 7.7 Consensus size: 20
3520677 CGCGAACACA
3520687 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
3520707 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
3520727 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
* *
3520747 TAAATCGCAATGCGTATCCA
1 TAAATCGCAACGCGTATCCG
*
3520767 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
3520787 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
3520807 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
3520828 TAAATCGCAACGCG
1 TAAATCGCAACGCG
3520842 ATATTTAAAG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 97 0.85
21 15 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:3520715 original size:40 final size:39
Alignment explanation
Indices: 3520648--3520842 Score: 203
Period size: 40 Copynumber: 4.9 Consensus size: 39
3520638 CGATTTTCCA
* **
3520648 AAATCGCAACGCGAATATG-AAATTCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAA-TCGCAACGCGAAC-CAT
* * *
3520688 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * *
3520728 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* ** *
3520768 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
3520808 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
3520843 TATTTAAAGC
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 92 0.71
41 36 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:3520735 original size:60 final size:60
Alignment explanation
Indices: 3520648--3520841 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
3520638 CGATTTTCCA
* ** *
3520648 AAATCGCAACGCGAATATG-AAATTCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAA-TCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** * *
3520708 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
3520768 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
3520829 AAATCGCAACGCG
1 AAATCGCAACGCG
3520842 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
60 77 0.70
61 33 0.30
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:3521263 original size:33 final size:33
Alignment explanation
Indices: 3521224--3521294 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3521214 TTCACTTAGA
*
3521224 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
3521257 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
3521290 TTTCA
1 TTTCA
3521295 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:3521418 original size:20 final size:20
Alignment explanation
Indices: 3521374--3521483 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
3521364 TGCAGAAGAG
*
3521374 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
3521395 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
3521415 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
3521436 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
3521450 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
3521469 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
3521484 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:3521431 original size:41 final size:38
Alignment explanation
Indices: 3521367--3521483 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
3521357 TTCAATTTGC
* *
3521367 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
3521405 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
3521446 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
3521479 AGAAT
1 AGAAT
3521484 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:3521453 original size:14 final size:14
Alignment explanation
Indices: 3521434--3521490 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3521424 GAGAAATGAA
3521434 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3521448 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3521467 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3521481 AATCGCAACG
1 AATCGCAACG
3521491 CGAATCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3521466 original size:33 final size:33
Alignment explanation
Indices: 3521426--3521494 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
3521416 CGCAACGAGA
3521426 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3521459 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3521492 GAA
1 GAA
3521495 TCCAAAATCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.20, G:0.25, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3521502 original size:33 final size:33
Alignment explanation
Indices: 3521426--3521506 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
3521416 CGCAACGAGA
*
3521426 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATCAAAATCGCAACGAGAGAATCGCAACGC
*
3521459 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATCAAAATCGCAACGAGAGAATCGCAACGC
3521492 G-AATCCAAAATCGCA
1 GAAAT-CAAAATCGCA
3521507 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 3 0.07
33 43 0.93
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATCAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3521543 original size:14 final size:14
Alignment explanation
Indices: 3521524--3521613 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
3521514 TTTCATTTCG
3521524 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
3521538 CGTTGCGATTTTAATTTCG
1 CGTTGCGA---T--TCTCT
*
3521557 CGTTACGATTCTCT
1 CGTTGCGATTCTCT
*
3521571 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
3521590 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3521604 CGTTGCGATT
1 CGTTGCGATT
3521614 TTCATTTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
14 30 0.52
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
19 20 0.34
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3521549 original size:33 final size:33
Alignment explanation
Indices: 3521507--3521621 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
3521497 CAAAATCGCA
3521507 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
3521540 TTGCGATTTTAATTTCGCGTTACGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
3521573 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
3521606 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
3521622 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:3521595 original size:19 final size:18
Alignment explanation
Indices: 3521502--3521599 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 18
3521492 GAATCCAAAA
*
3521502 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
3521521 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
3521535 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGA-TTTCATT
*
3521554 TCGCGTTACGA-TTC---
1 TCGCGTTGCGATTTCATT
*
3521568 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATT-TCATT
3521587 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3521600 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 4 0.07
17 5 0.08
19 31 0.52
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:3523479 original size:93 final size:93
Alignment explanation
Indices: 3523320--3523695 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
3523310 TAGATTGCTT
*
3523320 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3523385 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3523413 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3523478 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3523506 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3523571 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3523599 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTGTTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3523664 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3523691 AGTAA
1 AGTAA
3523696 TGCAATCCAT
Statistics
Matches: 281, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 275 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3523783 original size:19 final size:19
Alignment explanation
Indices: 3523743--3523871 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3523733 TAGTTTACTT
* *
3523743 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
3523763 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
3523782 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3523801 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
3523815 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
3523834 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
3523848 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
3523867 TCGCA
1 TCGCA
3523872 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:3523822 original size:33 final size:32
Alignment explanation
Indices: 3523779--3523871 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
3523769 CGCGAAACCA
**
3523779 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
3523811 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
3523844 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
3523872 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:3523869 original size:52 final size:52
Alignment explanation
Indices: 3523743--3523871 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
3523733 TAGTTTACTT
**
3523743 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
3523795 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
3523848 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
3523872 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:3523889 original size:19 final size:19
Alignment explanation
Indices: 3523867--3524001 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3523857 GAAACCAAAA
*
3523867 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3523886 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3523902 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3523919 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3523935 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3523952 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
3523971 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3523991 TCGTGTTGCGA
1 TCGCGTTGCGA
3524002 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3523908 original size:14 final size:14
Alignment explanation
Indices: 3523889--3523945 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3523879 TTTCATTTCG
3523889 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3523903 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3523920 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
3523936 CGTTGCGATT
1 CGTTGCGATT
3523946 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3523914 original size:33 final size:33
Alignment explanation
Indices: 3523872--3523964 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3523862 CAAAATCGCA
*
3523872 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
3523905 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
3523938 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
3523965 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:3525945 original size:14 final size:14
Alignment explanation
Indices: 3525926--3525961 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3525916 ATTGTTTAAT
3525926 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3525940 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3525954 TGATTTGT
1 TGATTTGT
3525962 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3526084 original size:19 final size:19
Alignment explanation
Indices: 3526068--3526165 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
3526058 AAAAATGACT
3526068 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3526087 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3526106 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
3526120 ATCGCAATGCGAAATTAAA
1 ATCGCAATGCGAAATGAAA
3526139 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3526159 ATCGCAA
1 ATCGCAA
3526166 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 15 0.22
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3526146 original size:52 final size:53
Alignment explanation
Indices: 3526068--3526183 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
3526058 AAAAATGACT
3526068 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
3526120 ATCGCAATGCGAAATTAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
3526173 ATCGCAATGCG
1 ATCGCAATGCG
3526184 TTTATAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.45
53 34 0.55
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:3526236 original size:19 final size:19
Alignment explanation
Indices: 3526212--3526390 Score: 164
Period size: 19 Copynumber: 10.4 Consensus size: 19
3526202 GATTCTCTCG
3526212 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3526231 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3526250 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
3526264 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3526283 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3526297 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3526316 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3526330 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
3526350 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
3526364 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3526383 TTGCGATT
1 TTGCGATT
3526391 CTCTCGTTGC
Statistics
Matches: 129, Mismatches: 10, Indels: 42
0.71 0.06 0.23
Matches are distributed among these distances:
14 28 0.22
16 23 0.18
17 20 0.16
18 3 0.02
19 43 0.33
20 12 0.09
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3526247 original size:52 final size:52
Alignment explanation
Indices: 3526190--3526390 Score: 213
Period size: 52 Copynumber: 3.9 Consensus size: 52
3526180 TGCGTTTATA
3526190 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
3526242 ATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * * *
3526292 -TCTCG--TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
* *
3526341 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATT
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATT
3526391 CTCTCGTTGC
Statistics
Matches: 121, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
45 8 0.07
46 5 0.04
47 17 0.14
49 7 0.06
50 5 0.04
51 2 0.02
52 46 0.38
53 19 0.16
54 5 0.04
55 6 0.05
56 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:3526302 original size:14 final size:14
Alignment explanation
Indices: 3526250--3526337 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
3526240 TCATTTCGCA
3526250 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
* *
3526264 TTGTGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3526281 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
3526297 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3526314 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3526330 TTGCGATT
1 TTGCGATT
3526338 TTCATTTCCG
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
16 14 0.24
17 14 0.24
19 11 0.19
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3526387 original size:67 final size:67
Alignment explanation
Indices: 3526231--3526423 Score: 300
Period size: 67 Copynumber: 2.9 Consensus size: 67
3526221 TCATTTCGCA
*
3526231 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTT-CGCATTGCGATTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTCT
3526295 CG
66 CG
*
3526297 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTC-
3526362 T-G
65 TCG
* * * **
3526364 TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGAT
3526424 AGTCAAATGC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
66 47 0.40
67 70 0.59
68 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (67 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTCT
CG
Found at i:3526412 original size:33 final size:33
Alignment explanation
Indices: 3526231--3526404 Score: 296
Period size: 33 Copynumber: 5.2 Consensus size: 33
3526221 TCATTTCGCA
3526231 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3526264 TTGTGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
3526297 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3526330 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
3526364 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
3526397 TTGCGATT
1 TTGCGATT
3526405 GTAATTTCCG
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
32 1 0.01
33 101 0.77
34 29 0.22
35 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:3526412 original size:100 final size:99
Alignment explanation
Indices: 3526231--3526412 Score: 303
Period size: 100 Copynumber: 1.8 Consensus size: 99
3526221 TCATTTCGCA
*
3526231 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTCTCTC
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGGGATTTTCATTTCGCATTGCGATTCTCTC
* *
3526296 GTTGCGATTTTCATTTCGCATTGCGATTCTCTCG
66 GTTGCGATTGTAATTTCGCATTGCGATTCTCTCG
*
3526330 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGGGATTTTCATTTCGCATTGCGATTCTC
3526394 TCGTTGCGATTGTAATTTC
64 TCGTTGCGATTGTAATTTC
3526413 CGTGTTGCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
99 15 0.19
100 61 0.79
101 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (99 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGGGATTTTCATTTCGCATTGCGATTCTCTC
GTTGCGATTGTAATTTCGCATTGCGATTCTCTCG
Found at i:3527261 original size:20 final size:20
Alignment explanation
Indices: 3527233--3527462 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
3527223 AAATTTCAGT
* * *
3527233 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
3527253 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
3527273 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
3527293 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
3527313 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
3527333 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
3527353 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
3527373 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
3527393 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
3527413 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
3527433 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
3527453 GTTGCGATTT
1 GTTGCGATTT
3527463 TGTAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:3527479 original size:21 final size:21
Alignment explanation
Indices: 3527449--3527527 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
3527439 ATTTTCATAT
*
3527449 TCGCGTTGCGATTTTGTAAAA
1 TCGCATTGCGATTTTGTAAAA
* * **
3527470 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGTAAAA
*
3527491 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGTAA-AA
3527512 TCGCATTGCGATTTTG
1 TCGCATTGCGATTTTG
3527528 GAAACTGATT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTTGTAAAA
Found at i:3532907 original size:41 final size:39
Alignment explanation
Indices: 3532828--3532908 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 39
3532818 ATTAAATTTC
**
3532828 TCATATTTTAAAATTTATTTTTAAAATAAAAATATTTTT
1 TCATATTTTAAAATTTAAGTTTAAAATAAAAATATTTTT
* *
3532867 TCATATTTTAACATATTTAAGTTTATAAA-AAACATTTTTTT
1 TCATATTTTAA-A-ATTTAAGTTTA-AAATAAAAATATTTTT
3532908 T
1 T
3532909 TCAAAAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 11 0.31
40 1 0.03
41 20 0.57
42 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (39 bp):
TCATATTTTAAAATTTAAGTTTAAAATAAAAATATTTTT
Found at i:3533353 original size:21 final size:21
Alignment explanation
Indices: 3533328--3533367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3533318 GCTTGTTATA
* *
3533328 ATATTGATGTGATAATTTACT
1 ATATTAATGCGATAATTTACT
3533349 ATATTAATGCGATAATTTA
1 ATATTAATGCGATAATTTA
3533368 TTACGTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
ATATTAATGCGATAATTTACT
Found at i:3535188 original size:12 final size:10
Alignment explanation
Indices: 3535153--3535187 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3535143 GTCTCCCCTA
*
3535153 ATTTTT-TAA
1 ATTTTTATAT
3535162 ATTTTTATAT
1 ATTTTTATAT
3535172 ATTTTTATAT
1 ATTTTTATAT
3535182 ATTTTT
1 ATTTTT
3535188 TATTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:3535571 original size:24 final size:23
Alignment explanation
Indices: 3535543--3535594 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
3535533 TTAGTTTATC
3535543 GTTCAAGAACAAATTTATTTATGT
1 GTTCAAGAACAAATTTATTTA-GT
** * *
3535567 GTTCATTAATATATTTATTTAGT
1 GTTCAAGAACAAATTTATTTAGT
3535590 GTTCA
1 GTTCA
3535595 CAGACATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (23 bp):
GTTCAAGAACAAATTTATTTAGT
Found at i:3535723 original size:2 final size:2
Alignment explanation
Indices: 3535716--3535778 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
3535706 TTATTTTTAG
3535716 AT AT AT AT AT A- 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 AT AT AT AT AT AT
3535757 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3535779 GAAAAAATAC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3535881 original size:29 final size:30
Alignment explanation
Indices: 3535825--3535879 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
3535815 TAATAAATTG
* *
3535825 AATATGAAAAATTATTATATTTAATTTAGA
1 AATATGAAAAATGATAATATTTAATTTAGA
3535855 AATAT-AAAAATGATAAT-TTTAATTT
1 AATATGAAAAATGATAATATTTAATTT
3535880 TATACCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 8 0.35
29 10 0.43
30 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (30 bp):
AATATGAAAAATGATAATATTTAATTTAGA
Found at i:3536741 original size:20 final size:20
Alignment explanation
Indices: 3536680--3537048 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
3536670 GATTTTCCAT
* ** *
3536680 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
3536700 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
3536720 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
3536740 AATCACAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
3536760 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
3536780 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3536800 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
3536820 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
3536840 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3536860 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3536880 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3536900 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3536920 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
3536940 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3536960 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3536980 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3537000 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3537020 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3537040 AATCACAAC
1 AATCGCAAC
3537049 ACTTAAATTT
Statistics
Matches: 301, Mismatches: 40, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 295 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:3537755 original size:24 final size:23
Alignment explanation
Indices: 3537716--3537761 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
3537706 AAATTTGGTC
3537716 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
3537740 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
3537762 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:3540133 original size:14 final size:15
Alignment explanation
Indices: 3540113--3540350 Score: 107
Period size: 19 Copynumber: 14.6 Consensus size: 15
3540103 GCGGAAATGA
*
3540113 AAATCGCAACGAGA-
1 AAATCGCAACGAAAT
*
3540127 GAATCGCAACGAAAT
1 AAATCGCAACGAAAT
3540142 AAATCGCAACGCGAAAT
1 AAATCGCAA--CGAAAT
3540159 GAAATC-CAACG--A-
1 -AAATCGCAACGAAAT
3540171 AAATCGCAATGCGAAATT
1 AAATCGCAA--CGAAA-T
3540189 AAAATCGCAATGCGAAAT
1 -AAATCGCAA--CGAAAT
3540207 GAAAATCGCAATGCGAAAT
1 --AAATCGCAA--CGAAAT
3540226 GAAAATCGCAACG-AA-
1 --AAATCGCAACGAAAT
*
3540241 GAATCGCAATGCGAAATT
1 AAATCGCAA--CGAAA-T
3540259 AAATCGCAATGCGAAAT
1 AAATCGCAA--CGAAAT
3540276 AAAATCGCAACGAAA-
1 -AAATCGCAACGAAAT
*
3540291 GAATCGCAATGCGAAAT
1 AAATCGCAA--CGAAAT
*
3540308 GAAAATCGCATGCGAAAT
1 --AAATCGCA-ACGAAAT
*
3540326 GAAAATCGCAACGAGAT
1 --AAATCGCAACGAAAT
3540343 -AATCGCAA
1 AAATCGCAA
3540351 TGCGAAATTA
Statistics
Matches: 189, Mismatches: 10, Indels: 50
0.76 0.04 0.20
Matches are distributed among these distances:
11 5 0.03
12 3 0.02
13 9 0.05
14 30 0.16
15 12 0.06
16 15 0.08
17 17 0.09
18 46 0.24
19 52 0.28
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.14
Consensus pattern (15 bp):
AAATCGCAACGAAAT
Found at i:3540194 original size:19 final size:19
Alignment explanation
Indices: 3540170--3540374 Score: 189
Period size: 19 Copynumber: 11.8 Consensus size: 19
3540160 AAATCCAACG
3540170 AAAATCGCAATGCGAAATT
1 AAAATCGCAATGCGAAATT
*
3540189 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATT
*
3540208 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATT
3540227 AAAATCGCAA--CG--A--
1 AAAATCGCAATGCGAAATT
*
3540240 AGAATCGCAATGCGAAATT
1 AAAATCGCAATGCGAAATT
3540259 -AAATCGCAATGCGAAA-T
1 AAAATCGCAATGCGAAATT
3540276 AAAATCGCAA--CG-AA--
1 AAAATCGCAATGCGAAATT
* *
3540290 AGAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATT
*
3540309 AAAATCGC-ATGCGAAATG
1 AAAATCGCAATGCGAAATT
*
3540327 AAAATCGCAA--CGAGA-T
1 AAAATCGCAATGCGAAATT
3540343 --AATCGCAATGCGAAATT
1 AAAATCGCAATGCGAAATT
*
3540360 ATAAA-CGCATTGCGA
1 A-AAATCGCAATGCGA
3540375 TTTTCATTTC
Statistics
Matches: 158, Mismatches: 9, Indels: 38
0.77 0.04 0.19
Matches are distributed among these distances:
13 9 0.06
14 17 0.11
15 5 0.03
16 8 0.05
17 11 0.07
18 42 0.27
19 64 0.41
20 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATT
Found at i:3540299 original size:101 final size:102
Alignment explanation
Indices: 3540191--3540374 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 102
3540181 GCGAAATTAA
3540191 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGC-ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
*
3540255 AATTA-AATCGCAATGCGAAATAAAATCGCAACGAAAG
65 AATTATAAACGCAATGCGAAATAAAATCGCAACGAAAG
*
3540292 AATCGCAATGCGAAATGAAAATCGCATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 AATCGCAATGCGAAATGAAAATCGCATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
3540357 ATTATAAACGCATTGCGA
66 ATTATAAACGCAATGCGA
3540375 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 23 0.29
101 44 0.56
102 11 0.14
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (102 bp):
AATCGCAATGCGAAATGAAAATCGCATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
ATTATAAACGCAATGCGAAATAAAATCGCAACGAAAG
Found at i:3540369 original size:51 final size:51
Alignment explanation
Indices: 3540191--3540358 Score: 279
Period size: 51 Copynumber: 3.3 Consensus size: 51
3540181 GCGAAATTAA
3540191 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAG
*
3540242 AATCGCAATGCGAAAT-TAAATCGCAATGCGAAAT-AAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACG-AAG
*
3540292 AATCGCAATGCGAAATGAAAATCGC-ATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA-AG
3540343 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
3540359 TATAAACGCA
Statistics
Matches: 110, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
49 12 0.11
50 46 0.42
51 52 0.47
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAG
Found at i:3540387 original size:19 final size:18
Alignment explanation
Indices: 3540365--3540459 Score: 107
Period size: 18 Copynumber: 5.6 Consensus size: 18
3540355 AAATTATAAA
3540365 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCA-TT
3540384 CGCATTGCGATTTTCATT
1 CGCATTGCGATTTTCATT
3540402 CGCATTGCGA--TTC--T
1 CGCATTGCGATTTTCATT
*
3540416 C-CGTTGCGATTTTCATT
1 CGCATTGCGATTTTCATT
3540433 CGCATTGC---TTTCATTT
1 CGCATTGCGATTTTCA-TT
3540449 CGCATTGCGAT
1 CGCATTGCGAT
3540460 AGTAATTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
13 7 0.11
14 2 0.03
15 8 0.12
16 13 0.20
17 2 0.03
18 17 0.26
19 16 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (18 bp):
CGCATTGCGATTTTCATT
Found at i:3540446 original size:15 final size:16
Alignment explanation
Indices: 3540426--3540456 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3540416 CCGTTGCGAT
3540426 TTTCA-TTCGCATTGC
1 TTTCATTTCGCATTGC
3540441 TTTCATTTCGCATTGC
1 TTTCATTTCGCATTGC
3540457 GATAGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (16 bp):
TTTCATTTCGCATTGC
Found at i:3540578 original size:14 final size:14
Alignment explanation
Indices: 3540559--3540595 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3540549 CATCAATTAC
3540559 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3540573 ACAAATCATCTTTT
1 ACAAATCAACTTTT
3540587 ACAAATCAA
1 ACAAATCAA
3540596 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3541033 original size:174 final size:169
Alignment explanation
Indices: 3540714--3541056 Score: 641
Period size: 174 Copynumber: 2.0 Consensus size: 169
3540704 CAACTTTTGC
3540714 AGCTCGACATCATTTTCACGCAGTTCACTTCTGAGATTAACCTGCAGAACCAAAATTGTTCAAAC
1 AGCTCGACATCATTTTCACGCAGTTCACTTCTGAGATTAACCTGCAGAACCAAAATTGTTCAAAC
3540779 AACACTTTCTACGCAAATATTGAATTCTAGTTATTAACCAAACATTTTCATTTATAAGTATATAA
66 AACACTTTCTACGCAAATATTGAATTCTAGTTATTAACCAAACATTTTCATTTATAAGTATATAA
3540844 ACTTACCAATTGTTTATGGACATTTTTATAACGCGGATG
131 ACTTACCAATTGTTTATGGACATTTTTATAACGCGGATG
3540883 AGCTCGACATCATTTTCACGCAGTTCACTTCTGAGATTAACCTGCAGAAACCAAACATTTGTTCA
1 AGCTCGACATCATTTTCACGCAGTTCACTTCTGAGATTAACCTGCAG-AACCAAA-A-TTGTTCA
3540948 AACAACACTTTCTACGCAAATTATTGAATTCTAGTTAATTAACCAAACATTTTCATTTATAAGTA
63 AACAACACTTTCTACGCAAA-TATTGAATTCTAGTT-ATTAACCAAACATTTTCATTTATAAGTA
3541013 TATAAACTTACCAATTGTTTATGGACATTTTTATAACGCGGATG
126 TATAAACTTACCAATTGTTTATGGACATTTTTATAACGCGGATG
3541057 CAGGTAGGCA
Statistics
Matches: 169, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
169 47 0.28
170 7 0.04
171 1 0.01
172 27 0.16
173 15 0.09
174 72 0.43
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (169 bp):
AGCTCGACATCATTTTCACGCAGTTCACTTCTGAGATTAACCTGCAGAACCAAAATTGTTCAAAC
AACACTTTCTACGCAAATATTGAATTCTAGTTATTAACCAAACATTTTCATTTATAAGTATATAA
ACTTACCAATTGTTTATGGACATTTTTATAACGCGGATG
Found at i:3542730 original size:14 final size:14
Alignment explanation
Indices: 3542711--3542767 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3542701 GCGAAATGAA
*
3542711 AATCGCAACGACAG
1 AATCGCAACGAAAG
3542725 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3542742 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3542758 AATCGCAACG
1 AATCGCAACG
3542768 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Done.