Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 38 of 64
Found at i:5979885 original size:19 final size:18
Alignment explanation
Indices: 5979770--5979891 Score: 90
Period size: 19 Copynumber: 6.5 Consensus size: 18
5979760 ACAACTATTA
*
5979770 AATATT-AAATATTAAAT
1 AATATTAAAATATTAATT
*
5979787 ATTATTAAAAATATTAAATT
1 AATATT-AAAATATT-AATT
*
5979807 ATTTATTTAAAA-ATTAATT
1 A-ATA-TTAAAATATTAATT
*
5979826 AATAATTATAA-A-TAATT
1 AAT-ATTAAAATATTAATT
*
5979843 AATATTTCAATAATAATAATT
1 AATA-TT-AA-AATATTAATT
5979864 AATATTAAAATATTATATT
1 AATATTAAAATATTA-ATT
5979883 AATATTAAA
1 AATATTAAA
5979892 CATTAAAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.01
17 15 0.17
18 14 0.16
19 29 0.33
20 10 0.11
21 16 0.18
22 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTAAAATATTAATT
Found at i:5980221 original size:23 final size:22
Alignment explanation
Indices: 5980165--5980230 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
5980155 AGATATGATT
5980165 AAAAATATTTATATTATTATATTA
1 AAAAATA-TTAT-TTATTATATTA
5980189 AATAAA-ATTATTTATT-TAATTA
1 AA-AAATATTATTTATTAT-ATTA
*
5980211 ACAAAATATTATTTACTATA
1 A-AAAATATTATTTATTATA
5980231 ACAATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
21 1 0.03
22 13 0.36
23 15 0.42
24 4 0.11
25 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAAATATTATTTATTATATTA
Found at i:5980244 original size:18 final size:20
Alignment explanation
Indices: 5980200--5980255 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
5980190 ATAAAATTAT
*
5980200 TTATTTAAT-TAACAAAATA
1 TTATTTACTATAACAAAATA
*
5980219 TTATTTACTATAACAATAT-
1 TTATTTACTATAACAAAATA
5980238 TTA-TTACTA-AA-AAAATA
1 TTATTTACTATAACAAAATA
5980255 T
1 T
5980256 AATACTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 6 0.19
19 11 0.34
20 8 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATTTACTATAACAAAATA
Found at i:5982637 original size:24 final size:24
Alignment explanation
Indices: 5982610--5982660 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
5982600 CCAAAATTTG
* *
5982610 TAAAATATTATTAATATT-TTATAA
1 TAAAATATGATTAA-ATTATTAAAA
*
5982634 TAAATTATGATTAAATTATTAAAA
1 TAAAATATGATTAAATTATTAAAA
5982658 TAA
1 TAA
5982661 CAAATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TAAAATATGATTAAATTATTAAAA
Found at i:5985487 original size:15 final size:15
Alignment explanation
Indices: 5985457--5985636 Score: 64
Period size: 15 Copynumber: 11.9 Consensus size: 15
5985447 AAGGTTTCAA
* *
5985457 GGTTTTAGAGTCTTG
1 GGTTTTAGGGTTTTG
5985472 GGTTTTAGGGTTTT-
1 GGTTTTAGGGTTTTG
*
5985486 GGTTTT-GAGATTTTG
1 GGTTTTAG-GGTTTTG
* * **
5985501 AGGTTTCAAGGTTTAA
1 -GGTTTTAGGGTTTTG
* *
5985517 GGTTTT-GAGTATTTA
1 GGTTTTAGGGT-TTTG
5985532 GG-TTTAGGGTTTTG
1 GGTTTTAGGGTTTTG
** *
5985546 AATTTTAGGGTTTTA
1 GGTTTTAGGGTTTTG
* * *
5985561 GATTTTAGGATTTCAG
1 GGTTTTAGGGTTT-TG
5985577 GGTTTT-GGGTTTTG
1 GGTTTTAGGGTTTTG
** * *
5985591 AGGATCATAAGGATTTG
1 -GG-TTTTAGGGTTTTG
* *
5985608 AAGTTTTGGGGTTTTG
1 -GGTTTTAGGGTTTTG
*
5985624 GATTTTAGGGTTT
1 GGTTTTAGGGTTT
5985637 CAAATTTTAG
Statistics
Matches: 117, Mismatches: 37, Indels: 22
0.66 0.21 0.12
Matches are distributed among these distances:
13 1 0.01
14 20 0.17
15 64 0.55
16 24 0.21
17 8 0.07
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (15 bp):
GGTTTTAGGGTTTTG
Found at i:5985532 original size:53 final size:52
Alignment explanation
Indices: 5985443--5985558 Score: 137
Period size: 53 Copynumber: 2.2 Consensus size: 52
5985433 GTGGTCTCAT
* * *
5985443 TTTTAAGGTTTCAAGGTTTTAGAGTCTTGGGTTTTAGGGTTT-TGGTTTTGAGA
1 TTTTAAGGTTTCAAGGTTTAAGAGTCTTGAGTTTTA-GGTTTAGGGTTTTGA-A
* *
5985496 TTTTGAGGTTTCAAGGTTTAAG-GTTTTGAGTATTTAGGTTTAGGGTTTTGAA
1 TTTTAAGGTTTCAAGGTTTAAGAGTCTTGAGT-TTTAGGTTTAGGGTTTTGAA
*
5985548 TTTTAGGGTTT
1 TTTTAAGGTTT
5985559 TAGATTTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 22 0.41
53 32 0.59
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.50
Consensus pattern (52 bp):
TTTTAAGGTTTCAAGGTTTAAGAGTCTTGAGTTTTAGGTTTAGGGTTTTGAA
Found at i:5985557 original size:22 final size:22
Alignment explanation
Indices: 5985510--5985591 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
5985500 GAGGTTTCAA
* *
5985510 GGTTTAAGGTTTTGAGTATTTA-
1 GGTTTAGGGTTTTGAAT-TTTAG
5985532 GGTTTAGGGTTTTGAATTTTAG
1 GGTTTAGGGTTTTGAATTTTAG
* * *
5985554 GGTTTTA-GATTTTAGGATTTCAG
1 GG-TTTAGGGTTTT-GAATTTTAG
*
5985577 GGTTTTGGGTTTTGA
1 GGTTTAGGGTTTTGA
5985592 GGATCATAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 4 0.08
22 26 0.54
23 18 0.38
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.50
Consensus pattern (22 bp):
GGTTTAGGGTTTTGAATTTTAG
Found at i:5985674 original size:30 final size:29
Alignment explanation
Indices: 5985598--5985677 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
5985588 TTGAGGATCA
* * *
5985598 TAAGGATTTGAAGTTTTGGGGTTTTGGATT
1 TAAGGATTTGAAATTTT-AGGTTTTAGATT
* * *
5985628 TTAGGGTTTCAAATTTTAGGTTTTAGACTT
1 TAAGGATTTGAAATTTTAGGTTTTAGA-TT
*
5985658 TAAGGTTTTGAAATTTTAGG
1 TAAGGATTTGAAATTTTAGG
5985678 GTTTGAAGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 8 0.20
30 32 0.80
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (29 bp):
TAAGGATTTGAAATTTTAGGTTTTAGATT
Found at i:5985682 original size:15 final size:15
Alignment explanation
Indices: 5985625--5985684 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
5985615 GGGGTTTTGG
*
5985625 ATTTTAGGGTTTCAA
1 ATTTTAGGGTTTGAA
*
5985640 ATTTTA-GGTTTTAGA
1 ATTTTAGGGTTTGA-A
* * *
5985655 CTTTAAGGTTTTGAA
1 ATTTTAGGGTTTGAA
5985670 ATTTTAGGGTTTGAA
1 ATTTTAGGGTTTGAA
5985685 GGTTTTAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 6 0.17
15 24 0.69
16 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (15 bp):
ATTTTAGGGTTTGAA
Found at i:5985688 original size:8 final size:8
Alignment explanation
Indices: 5985656--5985771 Score: 80
Period size: 8 Copynumber: 14.4 Consensus size: 8
5985646 GGTTTTAGAC
5985656 TTTAAGGT
1 TTTAAGGT
*
5985664 TTTGAA-AT
1 TTT-AAGGT
*
5985672 TTTAGGGT
1 TTTAAGGT
*
5985680 TTGAAGGT
1 TTTAAGGT
5985688 TTTAAGAGT
1 TTTAAG-GT
*
5985697 TTTAGGGT
1 TTTAAGGT
5985705 TTTAA-GT
1 TTTAAGGT
* *
5985712 TATGAGGGT
1 T-TTAAGGT
5985721 TTTAAGGT
1 TTTAAGGT
5985729 TTT--GTGT
1 TTTAAG-GT
5985736 TTTAAAGGT
1 TTT-AAGGT
*
5985745 TTTAGGGT
1 TTTAAGGT
5985753 TTTGAA-GT
1 TTT-AAGGT
5985761 TTTAAGGT
1 TTTAAGGT
5985769 TTT
1 TTT
5985772 GAGGGTTTTG
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.01
7 11 0.13
8 52 0.63
9 18 0.22
10 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (8 bp):
TTTAAGGT
Found at i:5985690 original size:16 final size:16
Alignment explanation
Indices: 5985671--5985797 Score: 98
Period size: 16 Copynumber: 7.8 Consensus size: 16
5985661 GGTTTTGAAA
* * *
5985671 TTTTAGGGTTTGAAGG
1 TTTTAAGGTTTTAGGG
5985687 TTTTAAGAGTTTTAGGG
1 TTTTAAG-GTTTTAGGG
*
5985704 TTTTAA-GTTATGAGGG
1 TTTTAAGGTT-TTAGGG
*
5985720 TTTTAAGGTTTT-GTG
1 TTTTAAGGTTTTAGGG
5985735 TTTTAAAGGTTTTAGGG
1 TTTT-AAGGTTTTAGGG
*
5985752 TTTTGAA-GTTTTAAGG
1 TTTT-AAGGTTTTAGGG
*
5985768 TTTTGAGGGTTTTGAGGG
1 TTTT-AAGGTTTT-AGGG
* *
5985786 CTTTAGGGTTTT
1 TTTTAAGGTTTT
5985798 GCAAATTTAG
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
15 9 0.10
16 40 0.43
17 37 0.40
18 6 0.07
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (16 bp):
TTTTAAGGTTTTAGGG
Found at i:5985780 original size:25 final size:24
Alignment explanation
Indices: 5985671--5985782 Score: 122
Period size: 24 Copynumber: 4.6 Consensus size: 24
5985661 GGTTTTGAAA
5985671 TTTTAGGG-TTTGAAGGTTTTAAGAG
1 TTTTAGGGTTTTGAA-GTTTTAAG-G
* *
5985696 TTTTAGGGTTTT-AAGTTATGAGGG
1 TTTTAGGGTTTTGAAGTT-TTAAGG
* *
5985720 TTTTAAGGTTTTG-TGTTTTAAAGG
1 TTTTAGGGTTTTGAAGTTTT-AAGG
5985744 TTTTAGGGTTTTGAAGTTTTAAGG
1 TTTTAGGGTTTTGAAGTTTTAAGG
5985768 TTTTGAGGGTTTTGA
1 TTTT-AGGGTTTTGA
5985783 GGGCTTTAGG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
23 1 0.01
24 41 0.56
25 28 0.38
26 3 0.04
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (24 bp):
TTTTAGGGTTTTGAAGTTTTAAGG
Found at i:5985888 original size:52 final size:54
Alignment explanation
Indices: 5985815--5985922 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 54
5985805 TAGTGTTTAA
* * *
5985815 GGTTTTGAGGGTTTTAGAGGTTTA-GGTTTTTG-ATTTTAGAGTTTCAAAATTTT
1 GGTTTTGAGGGTTTGAGAGGTTTATAG-TTTTGAAATTTAGAGTTTCAAAATTTT
5985868 GGTTTT-AGGGTTTCGA-AGGTTTATAGTTTTGAAATTTAGAGTTTCAAAATTTT
1 GGTTTTGAGGGTTT-GAGAGGTTTATAGTTTTGAAATTTAGAGTTTCAAAATTTT
5985921 GG
1 GG
5985923 GGTCATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
52 19 0.39
53 30 0.61
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (54 bp):
GGTTTTGAGGGTTTGAGAGGTTTATAGTTTTGAAATTTAGAGTTTCAAAATTTT
Found at i:5992875 original size:67 final size:66
Alignment explanation
Indices: 5992732--5992914 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 66
5992722 GCCTAAAACG
* * * * *
5992732 CCTTCAATCATCC-CTTATGAAAAATGAAAGAGATTATT-AAAGGTATTTTTTTTTTATAGAAAA
1 CCTTCAATAATCCTC-TATAAAAAATGAAGGGGATTATTGAAAGATATTTTTTTTTTATAGAAAA
5992795 TA
65 TA
* *
5992797 CCTTCAATAATCTTCTCATATAAAATGAAGGGGATTATTGAAAGCAT-TTTTTTTTTTATAGAAA
1 CCTTCAATAATCCTCT-ATAAAAAATGAAGGGGATTATTGAAAG-ATATTTTTTTTTTATAGAAA
*
5992861 ATG
64 ATA
* * * *
5992864 CCTTTAATAATCCTCTTTAAAAAATTAGAGAGGATTATTGAAA-ATATTTTT
1 CCTTCAATAATCCTCTATAAAAAATGA-AGGGGATTATTGAAAGATATTTTT
5992915 GATAAAAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
65 14 0.14
66 32 0.33
67 51 0.52
68 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (66 bp):
CCTTCAATAATCCTCTATAAAAAATGAAGGGGATTATTGAAAGATATTTTTTTTTTATAGAAAAT
A
Found at i:5992888 original size:66 final size:65
Alignment explanation
Indices: 5992751--5992949 Score: 201
Period size: 67 Copynumber: 3.1 Consensus size: 65
5992741 ATCCCTTATG
* * * * * *
5992751 AAAAATGAAAGAGATTATT-AAAGGTATTTTTTTTTTATAGAAAATACCTTCAATAATCTTCTCA
1 AAAAATGAAGGGGATTATTGAAAGAT-TTTTTTTTTTATAGAAAATACCTTTAATAATCCTCT-T
5992815 TA
64 TA
* *
5992817 TAAAATGAAGGGGATTATTGAAAGCATTTTTTTTTTTATAGAAAATGCCTTTAATAATCCTCTTT
1 AAAAATGAAGGGGATTATTGAAAG-ATTTTTTTTTTTATAGAAAATACCTTTAATAATCCTCTTT
5992882 A
65 A
* * * ** *
5992883 AAAAATTAGAGAGGATTATTGAAA-A-TATTTTTGATA-AAAAAATACCTTTAATAATCCT-TTT
1 AAAAATGA-AGGGGATTATTGAAAGATTTTTTTTTTTATAGAAAATACCTTTAATAATCCTCTTT
5992944 A
65 A
5992945 AAAAA
1 AAAAA
5992950 ATTGTGAGAG
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
62 9 0.08
63 20 0.18
64 8 0.07
65 1 0.01
66 24 0.21
67 51 0.45
68 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (65 bp):
AAAAATGAAGGGGATTATTGAAAGATTTTTTTTTTTATAGAAAATACCTTTAATAATCCTCTTTA
Found at i:5995881 original size:2 final size:2
Alignment explanation
Indices: 5995876--5995902 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5995866 CACTTTTTTT
5995876 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
5995903 AGCGCTGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:5997963 original size:62 final size:60
Alignment explanation
Indices: 5997796--5997999 Score: 178
Period size: 62 Copynumber: 3.3 Consensus size: 60
5997786 TTTATATACT
* *
5997796 AAAATACCTTGAATAAT-TCACTCATAAAAATTTAAGGAGATTATTGAAAGCGTTTTTGGTAA
1 AAAATACCTTCAATAATCTC-TTCAT-AAAATTTAAGGAGATTATTG-AAGCGTTTTTGGTAA
*** * * * *
5997858 AAAATGTATTGAATAATCCTCTT-ATAAAGAATAAAGGAGATTATTGAATGCGTTTTTAGTAA
1 AAAATACCTTCAATAAT-CTCTTCATAAA-ATTTAAGGAGATTATTGAA-GCGTTTTTGGTAA
* * * * *
5997920 AAAATACCTTCAATAATCTCTTCGTCAAAATTTATGGACATTATTGAAGTTGTTTTTGGTAT
1 AAAATACCTTCAATAATCTCTTCAT-AAAATTTAAGGAGATTATTGAAG-CGTTTTTGGTAA
* *
5997982 GAAATGCCTTCAATAATC
1 AAAATACCTTCAATAATC
5998000 CTTGCTTAAA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
61 11 0.10
62 97 0.85
63 4 0.04
64 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (60 bp):
AAAATACCTTCAATAATCTCTTCATAAAATTTAAGGAGATTATTGAAGCGTTTTTGGTAA
Found at i:5998514 original size:210 final size:212
Alignment explanation
Indices: 5998202--5998612 Score: 539
Period size: 210 Copynumber: 1.9 Consensus size: 212
5998192 AATTGGAAAG
*
5998202 GATTATTGAAAGGCATTTTTGATAGAAAACGTCATTCAATAATCATCTCATAAAAATTGAAAGGA
1 GATTATTGAAAGGCATTTTTGACAGAAAACGTCATTCAATAATCATCTCATAAAAATTGAAAGGA
5998267 GATTATTGAAGGCATTTTTGGCAAAAAATGCCTTGAATAACCCTATTCAATTTTTTGTAAAGGAT
66 GATTATTGAAGGCATTTTTGGCAAAAAATGCCTTGAATAACCC-ATTCAATTTTTTGTAAAGGAT
** **
5998332 TA-TTCAAGGTATTTTCT-GCAAAAAACGCCTTTAATAATCCCCTCCCAACAATAGGAAGGGATT
130 TATTTCAAGACATTTTCTGGCAAAAAACGCCTTTAATAAT-CCCTCAAAACAATAGGAAGGGATT
5998395 ATTAAAGGTGTTGGGATGA
194 ATTAAAGGTGTTGGGATGA
* * *
5998414 GATTATTG-AAGGCATTTTTGACAGAAAATG-CTTTTAATAATCCA-CTCATAAAAATTG-AA-G
1 GATTATTGAAAGGCATTTTTGACAGAAAACGTCATTCAATAAT-CATCTCATAAAAATTGAAAGG
* ** * * *
5998474 AGGATTATTTAAGGCATTTTTAGTTAGAAAATGTCTTGAATAACCCATTCAATTTTTTGTAAGGG
65 A-GATTATTGAAGGCATTTTT-GGCAAAAAATGCCTTGAATAACCCATTCAATTTTTTGTAAAGG
* * * ** *
5998539 ATTATTTCAAGACATTTTTTGGCTAAAAATGCCTTTAATAATCTTTCAAAACAATGGGAAGGGAT
128 ATTATTTCAAGACATTTTCTGGCAAAAAACGCCTTTAATAATCCCTCAAAACAATAGGAAGGGAT
*
5998604 TATTGAAGG
193 TATTAAAGG
5998613 CATTTTTAGC
Statistics
Matches: 173, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
208 2 0.01
209 42 0.24
210 80 0.46
211 41 0.24
212 8 0.05
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (212 bp):
GATTATTGAAAGGCATTTTTGACAGAAAACGTCATTCAATAATCATCTCATAAAAATTGAAAGGA
GATTATTGAAGGCATTTTTGGCAAAAAATGCCTTGAATAACCCATTCAATTTTTTGTAAAGGATT
ATTTCAAGACATTTTCTGGCAAAAAACGCCTTTAATAATCCCTCAAAACAATAGGAAGGGATTAT
TAAAGGTGTTGGGATGA
Found at i:6000410 original size:21 final size:21
Alignment explanation
Indices: 6000378--6000435 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
6000368 TCTAAGGCTG
6000378 CAAGTCATTGCTGTTGCTCAT
1 CAAGTCATTGCTGTTGCTCAT
** * * *
6000399 TTAGTTATTGCTTTTGGTCAT
1 CAAGTCATTGCTGTTGCTCAT
6000420 CAAGTCATTGCTGTTG
1 CAAGTCATTGCTGTTG
6000436 TTGCTCAATG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (21 bp):
CAAGTCATTGCTGTTGCTCAT
Found at i:6002658 original size:49 final size:49
Alignment explanation
Indices: 6002560--6002658 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 49
6002550 ATTGAAATGG
**
6002560 ATTATTGAAGGTGTTTTTGACAAAAATGCCTTCAATAATCCCGTCATAA
1 ATTATTGAAGGTGTTTTTGACAAAAATGCCTTCAATAATCCCGAAATAA
* *
6002609 ATTATT-AGAGGTGTTTTGTGCCAAAAATGCCTTCAATAATGCC-AAATAA
1 ATTATTGA-AGGTGTTTT-TGACAAAAATGCCTTCAATAATCCCGAAATAA
6002658 A
1 A
6002659 AAATTGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 1 0.02
49 20 0.45
50 23 0.52
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (49 bp):
ATTATTGAAGGTGTTTTTGACAAAAATGCCTTCAATAATCCCGAAATAA
Found at i:6003553 original size:58 final size:56
Alignment explanation
Indices: 6003445--6003595 Score: 162
Period size: 56 Copynumber: 2.6 Consensus size: 56
6003435 TTTTTTGAAA
* ** * *
6003445 TTTTAATTTCAAGGAAAAATTGATACTTTCAACTTCCTAAAAATATTTTTTTCAAACCT
1 TTTTATTTTCAAGG-AAAATTGATACTTTCAACTTTTTAAAAATAGTTTTTACAAA--T
* * *
6003504 TTTTATTTTCAAGGGAAATTGATACTTTCAACTTTTTCCAAAAT-GTTTTTAGAAAT
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTT-AAAAATAGTTTTTACAAAT
*
6003560 TTTTATTTTTTAA-GAAAATTGATACTTTCAACTTTT
1 TTTTA-TTTTCAAGGAAAATTGATACTTTCAACTTTT
6003596 CCCTAAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
56 28 0.35
57 6 0.08
58 28 0.35
59 18 0.22
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (56 bp):
TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTAAAAATAGTTTTTACAAAT
Found at i:6003786 original size:9 final size:8
Alignment explanation
Indices: 6003772--6003815 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
6003762 AAACAAACAC
6003772 ATAAATAAA
1 ATAAA-AAA
6003781 ATAAATAAA
1 ATAAA-AAA
*
6003790 ATAAAAAT
1 ATAAAAAA
6003798 ATAAAAAA
1 ATAAAAAA
6003806 TATAAAAAA
1 -ATAAAAAA
6003815 A
1 A
6003816 GTGAATAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 10 0.31
9 22 0.69
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
ATAAAAAA
Found at i:6003810 original size:17 final size:17
Alignment explanation
Indices: 6003781--6003813 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6003771 CATAAATAAA
6003781 ATAAATAAAATAAAAAT
1 ATAAATAAAATAAAAAT
6003798 ATAAA-AAATATAAAAA
1 ATAAATAAA-ATAAAAA
6003814 AAGTGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAATAAAATAAAAAT
Found at i:6004196 original size:20 final size:21
Alignment explanation
Indices: 6004162--6004202 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6004152 TTTATCAGAT
*
6004162 TCTGGAAAGTAACGTC-AAAA
1 TCTGGAAAATAACGTCGAAAA
*
6004182 TCTGGAAAATCACGTCGAAAA
1 TCTGGAAAATAACGTCGAAAA
6004203 CTTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.20
Consensus pattern (21 bp):
TCTGGAAAATAACGTCGAAAA
Found at i:6004288 original size:11 final size:10
Alignment explanation
Indices: 6004275--6004304 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
6004265 AAATTCACCA
6004275 AAAAATTCTT
1 AAAAATTCTT
6004285 AAAAATCTCTT
1 AAAAAT-TCTT
6004296 AAAAATTCT
1 AAAAATTCT
6004305 AAACTGCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTCTT
Found at i:6005599 original size:15 final size:15
Alignment explanation
Indices: 6005578--6005612 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6005568 TTAATTTTTT
*
6005578 AAATGTATTGAATGA
1 AAATGTAATGAATGA
*
6005593 GAATGTAATGAATGA
1 AAATGTAATGAATGA
6005608 AAATG
1 AAATG
6005613 CATGCATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (15 bp):
AAATGTAATGAATGA
Found at i:6008857 original size:61 final size:61
Alignment explanation
Indices: 6008769--6008927 Score: 162
Period size: 62 Copynumber: 2.6 Consensus size: 61
6008759 TGCTTTTATA
* * * * *
6008769 CAAGGAAAATTGATACTTTCAATTTTTCCTTC-AAAATGTCTCTTTTT-GAAAATTTTATTTT
1 CAAGAAAAATTGATA-TTTCAACTTTTCC-TCAAAAATATCTATTTTTAAAAAATTTTATTTT
* * *
6008830 TAAGAAAAATTGGTATTTCCAACTTTTCC-CAAAAATATTTATTTTTCAAAAAATTTTATTTT
1 CAAGAAAAATTGATATTT-CAACTTTTCCTCAAAAATATCTATTTTT-AAAAAATTTTATTTT
* *
6008892 CAAGGAAAATTGATATTTTCAACTTTTCCTAAAAAA
1 CAAGAAAAATTGATA-TTTCAACTTTTCCTCAAAAA
6008928 AATTGATAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
59 1 0.01
60 15 0.19
61 21 0.26
62 35 0.44
63 8 0.10
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (61 bp):
CAAGAAAAATTGATATTTCAACTTTTCCTCAAAAATATCTATTTTTAAAAAATTTTATTTT
Found at i:6012085 original size:62 final size:62
Alignment explanation
Indices: 6012019--6012160 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 62
6012009 GTTTTCTACT
* * * *
6012019 AAAAATACTTTCAATAATTCTCT-TTAAAAAATT-AGAGCGGATTATTGAAGGTATTTTCT-GTA
1 AAAAATGCCTTCAATAATT-TCTAATAAAAAATTGA-AGCGGATTATTGAAGGGATTTT-TGGTA
*
6012081 AAAAATGCCTTCAATAATTTCTAATAAAAAATTGAAGTGGATTATTGAAGGGATTTTTGGTA
1 AAAAATGCCTTCAATAATTTCTAATAAAAAATTGAAGCGGATTATTGAAGGGATTTTTGGTA
6012143 AAAAATGCCTTCAATAAT
1 AAAAATGCCTTCAATAAT
6012161 CAAGAGGATT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
61 4 0.06
62 67 0.93
63 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATTTCTAATAAAAAATTGAAGCGGATTATTGAAGGGATTTTTGGTA
Found at i:6012188 original size:47 final size:47
Alignment explanation
Indices: 6012119--6012208 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
6012109 AAATTGAAGT
*
6012119 GGATTATTGAAGGGATTTTTGGTAAAAAATGCCTTCAATAATCAAGA
1 GGATTATTGAAGGGATTTTTGGTAAAAAACGCCTTCAATAATCAAGA
** *
6012166 GGATTATTGAAGTTATTTTTGGTAAAAAACGTCTTCAATAATC
1 GGATTATTGAAGGGATTTTTGGTAAAAAACGCCTTCAATAATC
6012209 CATTCGTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (47 bp):
GGATTATTGAAGGGATTTTTGGTAAAAAACGCCTTCAATAATCAAGA
Found at i:6018927 original size:161 final size:160
Alignment explanation
Indices: 6018717--6019579 Score: 839
Period size: 161 Copynumber: 5.4 Consensus size: 160
6018707 AAGTAAGTTT
* * * * *
6018717 ATGATATTAAACTTATTGAAATGAATG-ACTTGGTTTCCACAGTTGATATGTATGAAAAAGTTAT
1 ATGATATTAAACTTGTCG-AATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * *
6018781 CGTTTACGTCTGTTTAAGACTTTTTATGCTGTTAGTAA-GCAAAAATGCAAATTTGTTGTTATAG
65 CGTTTACGTCTATTTAAGACTTTTTATGCTGTTA-AAAGGCAAAAATACAAATTTGTTGTTATTG
*
6018845 TTCTATTTTAACAGTTTGCATAGCTTCAATAC
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** *
6018877 ATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGCAAA
1 ATGATATTAAACTTGTCG-AATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * * * * *
6018942 CGTTTATGTCTATTGAGGACTTTTTATGCTGTTAAAAGG-TAAAATGCAAATTTGTTATTATTGG
65 CGTTTACGTCTATTTAAGACTTTTTATGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGT
* *
6019006 TCTATTTTAACAGTTTTGATAGTTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
6019037 ATGATATTAAACTTGTTCGAATGATTGAACTTAGTTTCTACTA-TTGATATGTGCGACAAAGTTG
1 ATGATATTAAACTTG-TCGAATGATTGAACTTGGTTTCCA-TAGTTGATATGTGTGAAAAAGTTA
* * * *
6019101 TCGTTTACATCTATTGAAGACTATTTT-TG-TCGTTAAAAGGCAAAAATACAAACTTGCTGTTAT
64 TCGTTTACGTCTATTTAAGACT-TTTTATGCT-GTTAAAAGGCAAAAATACAAATTTGTTGTTAT
* * * *
6019164 TATTCTATTTTAACAATTTGGATGGTTTCAATAC
127 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
6019198 ATGATAATAAAATTATTCGAATGATTGAACTTGGTTTCCATAGTTGATATATGTGAAAAAATT-G
1 ATGATATTAAACTT-GTCGAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * ** *
6019262 CTGTTTA-GCTCTATTTAGGATTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGTTGTTATT
65 C-GTTTACG-TCTATTTAAGACTTTTTATGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATT
* * *
6019326 GTTCTGTTTTAATAGTTTGGATAGCTTTAATAC
128 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * ** * * *
6019359 ATGATATTAAACTTTGTTGAATGATTTAACTTAGTTTTTACAGTTGATATATGTGAAAAAATTAT
1 ATGATATTAAAC-TTGTCGAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* ** * * * * *
6019424 TGTTTACCAC-AGTATAAGACTTTTTGGTG-TCGTTAAAAGGCAAAATTACAAAGTTGCTGTTAT
65 CGTTTACGTCTA-TTTAAGACTTTTT-ATGCT-GTTAAAAGGCAAAAATACAAATTTGTTGTTAT
* * *
6019487 TGTTTTGTTTTAACAATTTGGATAGCTTCAATAC
127 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** *
6019521 AAGATATTAAACTTGTATAAATGATTGAATTTGGTTTCCATTA-TTGATATGTGTGAAAA
1 ATGATATTAAACTTGT-CGAATGATTGAACTTGGTTTCCA-TAGTTGATATGTGTGAAAA
6019580 GGTAAAATGA
Statistics
Matches: 578, Mismatches: 104, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
159 1 0.00
160 160 0.28
161 311 0.54
162 105 0.18
163 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (160 bp):
ATGATATTAAACTTGTCGAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATC
GTTTACGTCTATTTAAGACTTTTTATGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTT
CTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:6020329 original size:21 final size:21
Alignment explanation
Indices: 6020284--6020329 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6020274 GAAAGAGAAT
* *
6020284 AAGAACGTGCTAAAATTGAAG
1 AAGAACGTGCTAAAATGGAAC
* *
6020305 AAGAACGTGCTAGAATGGACC
1 AAGAACGTGCTAAAATGGAAC
6020326 AAGA
1 AAGA
6020330 GCATGCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (21 bp):
AAGAACGTGCTAAAATGGAAC
Found at i:6020801 original size:17 final size:17
Alignment explanation
Indices: 6020775--6020808 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6020765 AATCAATATT
*
6020775 AAAAGAAAATTTTTTAA
1 AAAAGAAAATTTCTTAA
*
6020792 AAAAGTAAATTTCTTAA
1 AAAAGAAAATTTCTTAA
6020809 TTTAGCGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAAGAAAATTTCTTAA
Found at i:6020979 original size:33 final size:33
Alignment explanation
Indices: 6020941--6021018 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 33
6020931 TTTTTAAAAT
*
6020941 GCCACTAAATTAGCAGCGTTTTCAGATACAAAC
1 GCCACTAAATTAGCAGCATTTTCAGATACAAAC
* * *
6020974 GCCACTAAA-AAGCGGCATTTTCATATACAAAC
1 GCCACTAAATTAGCAGCATTTTCAGATACAAAC
*
6021006 ACCACTAAATTAG
1 GCCACTAAATTAG
6021019 TGGTGTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (33 bp):
GCCACTAAATTAGCAGCATTTTCAGATACAAAC
Found at i:6021559 original size:15 final size:16
Alignment explanation
Indices: 6021541--6021574 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6021531 TGTATTTATT
6021541 TTTTTA-AAAAAATTA
1 TTTTTAGAAAAAATTA
*
6021556 TTTTTAGATAAAATTA
1 TTTTTAGAAAAAATTA
6021572 TTT
1 TTT
6021575 AATTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTAGAAAAAATTA
Found at i:6021665 original size:34 final size:34
Alignment explanation
Indices: 6021627--6021692 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
6021617 TAAAATTTGT
* * *
6021627 AATTTATGGGATATGTATATTTGATAAATTATTA
1 AATTTATGGGACATGAAAATTTGATAAATTATTA
* *
6021661 AATTTATTGGACATGAAAATTTGATAAGTTAT
1 AATTTATGGGACATGAAAATTTGATAAATTAT
6021693 ATTTAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (34 bp):
AATTTATGGGACATGAAAATTTGATAAATTATTA
Found at i:6021935 original size:34 final size:33
Alignment explanation
Indices: 6021875--6021954 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
6021865 AAATAAAAAC
*
6021875 TTTAAAAAATTTTAAATACATGAATTTAAAATT
1 TTTAAAAAATTTTAAATACATAAATTTAAAATT
* *
6021908 TTTAAAAAATTTTGAAGAT-TATAAATTTGAAATT
1 TTTAAAAAATTTT-AA-ATACATAAATTTAAAATT
6021942 TTTAAAAAGATTT
1 TTTAAAAA-ATTT
6021955 CCTATTTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 13 0.32
34 22 0.54
35 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (33 bp):
TTTAAAAAATTTTAAATACATAAATTTAAAATT
Found at i:6028130 original size:15 final size:15
Alignment explanation
Indices: 6028078--6028130 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
6028068 TTAGTATAGA
* *
6028078 AGATATAATAAGATA
1 AGATAAAATAAGATT
*
6028093 AGATAAAATAATATT
1 AGATAAAATAAGATT
6028108 --AT-AAATAAGATT
1 AGATAAAATAAGATT
6028120 AGATAAAATAA
1 AGATAAAATAA
6028131 TATCATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 9 0.29
13 2 0.06
14 2 0.06
15 18 0.58
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (15 bp):
AGATAAAATAAGATT
Found at i:6030902 original size:18 final size:17
Alignment explanation
Indices: 6030881--6030931 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
6030871 TGTCTCATTT
6030881 TTTATTAATTATTCTTAA
1 TTTATTAATTATT-TTAA
*
6030899 TTTATTAATTACTTTTTA
1 TTTATTAATTA-TTTTAA
6030917 TTTATT-ATTATTTTA
1 TTTATTAATTATTTTA
6030932 TAAGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 20 0.67
19 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTAATTATTTTAA
Found at i:6030950 original size:23 final size:22
Alignment explanation
Indices: 6030924--6030966 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6030914 TTATTTATTA
*
6030924 TTATTTTATAAGAAAATTTTTTT
1 TTATTGTAT-AGAAAATTTTTTT
*
6030947 TTATTGTATTGAAAATTTTT
1 TTATTGTATAGAAAATTTTT
6030967 ATATAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TTATTGTATAGAAAATTTTTTT
Found at i:6031768 original size:10 final size:10
Alignment explanation
Indices: 6031753--6031778 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6031743 GAAATTATCT
6031753 TTTTAATAAA
1 TTTTAATAAA
6031763 TTTTAATAAA
1 TTTTAATAAA
6031773 TTTTAA
1 TTTTAA
6031779 GATTTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:6039141 original size:14 final size:13
Alignment explanation
Indices: 6039117--6039150 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
6039107 TGAGAGATGG
6039117 TGAAAATAGAAGC
1 TGAAAATAGAAGC
6039130 TGAAAGATAGAAGC
1 TGAAA-ATAGAAGC
6039144 TAGAAAA
1 T-GAAAA
6039151 GCTACTCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 10 0.53
15 4 0.21
ACGTcount: A:0.56, C:0.06, G:0.24, T:0.15
Consensus pattern (13 bp):
TGAAAATAGAAGC
Found at i:6043125 original size:48 final size:48
Alignment explanation
Indices: 6043053--6043495 Score: 458
Period size: 48 Copynumber: 9.0 Consensus size: 48
6043043 TTTTGAGAAC
6043053 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
1 AGATGAG-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
6043102 AGATGAGGTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCA
1 AGATGAGTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** * * * * *
6043150 AGATAAGATTTCAAAAATTGTTAAGCCTCTACTGAGAGGAACTTTTCCA
1 AGATGAG-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
6043199 A-ATGAAATTTTTAAAATCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTTCA
1 AGATG-AGTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC--TTTTTCA
* * * *
6043249 AAATGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCA
1 AGATGAG-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* ** * * *
6043298 AGATAAGATTTCAAAAATTGTTAAGCCTCTGCTGAGAGTAGCTTTTTC-
1 AGATGAG-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * * * *
6043346 AGATAAAATTTTTAAAGTCGTTGAGCCTCTGCTAAGAGGAGCCCTTTTCA
1 AGAT-GAGTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * *
6043396 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGAGCCATTTTCA
1 AGATGAG-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* *
6043446 AGATGAAATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTCA
1 AGATG-AGTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
6043496 GATTTTAAAT
Statistics
Matches: 324, Mismatches: 59, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
48 105 0.32
49 95 0.29
50 91 0.28
51 33 0.10
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (48 bp):
AGATGAGTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:6043325 original size:148 final size:146
Alignment explanation
Indices: 6043055--6043485 Score: 596
Period size: 148 Copynumber: 2.9 Consensus size: 146
6043045 TTGAGAACAG
* * *
6043055 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAG-GTTTTAAAGT
1 ATGAAATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGT
* *
6043119 TGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTCTACTG
66 TGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTCTGCTG
6043184 AGAGGAACTTTTCCAA
131 AGAGGAACTTTTCCAA
* *
6043200 ATGAAATTTTTAAAATCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTTCAAAATGAGAATTTTAAA
1 ATGAAATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGC--TTTTTCAAGATGAGAATTTTAAA
*
6043265 GTTGTTGAGCCTCTACTGAGAAGAGCTTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTCTGC
64 GTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTCTGC
* * * *
6043330 TGAGAGTAGCTTTTTCAG
129 TGAGAGGAACTTTTCCAA
* * * *
6043348 ATAAAATTTTTAAAGTCGTTGAGCCTCTGCTAAGAGGAGCCCTTTTCAAGATGAGATTTTTAAAG
1 ATGAAATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGAATTTTAAAG
* * ** * * *
6043413 TTGTTGAGCTTCTGCTGAGAAGAGCCATTTTCAAGATGAA-ATTTTTAAAGTTATTGAGCCTCTG
65 TTGTTGAGCCTCTGCTGAGAAGAG-CTTTTTCAAGAT-AAGATTTCAAAAATTGTTAAGCCTCTG
6043477 CTGAGAGGA
128 CTGAGAGGA
6043486 GTCTTTTTCA
Statistics
Matches: 253, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
145 37 0.15
147 56 0.22
148 157 0.62
149 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (146 bp):
ATGAAATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGT
TGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTCTGCTG
AGAGGAACTTTTCCAA
Found at i:6043744 original size:24 final size:24
Alignment explanation
Indices: 6043714--6043772 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
6043704 TTGTCCAGTA
6043714 AAAAAAATATTATTAAATACAAAATAT
1 AAAAAAATA-TA--AAATACAAAATAT
* *
6043741 AAAAAAATATAAAATATAAAATACC
1 AAAAAAATATAAAATACAAAATA-T
6043766 AAAAAAA
1 AAAAAAA
6043773 AAAACAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
25 7 0.24
26 2 0.07
27 9 0.31
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAAAATATAAAATACAAAATAT
Found at i:6043748 original size:17 final size:17
Alignment explanation
Indices: 6043728--6043761 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6043718 AAATATTATT
6043728 AAATACAAAATATAAAA
1 AAATACAAAATATAAAA
*
6043745 AAATATAAAATATAAAA
1 AAATACAAAATATAAAA
6043762 TACCAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATACAAAATATAAAA
Found at i:6044833 original size:13 final size:13
Alignment explanation
Indices: 6044815--6044839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6044805 TTATAATTTT
6044815 TTAAAAAATAAAC
1 TTAAAAAATAAAC
6044828 TTAAAAAATAAA
1 TTAAAAAATAAA
6044840 ATAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAAATAAAC
Found at i:6044854 original size:29 final size:31
Alignment explanation
Indices: 6044818--6044884 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 31
6044808 TAATTTTTTA
6044818 AAAAATAAACTTAA-AA-AATA-AAATAAAAT
1 AAAAATAAACTTAATAATAATACAAA-AAAAT
6044847 AAAAATAAACTTAATAATAATACCAAAAAAAT
1 AAAAATAAACTTAATAATAATA-CAAAAAAAT
6044879 AAAAAT
1 AAAAAT
6044885 GTAAGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 14 0.41
30 2 0.06
31 4 0.12
32 11 0.32
33 3 0.09
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (31 bp):
AAAAATAAACTTAATAATAATACAAAAAAAT
Found at i:6045088 original size:18 final size:18
Alignment explanation
Indices: 6045049--6045091 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6045039 TATAAATTAA
*
6045049 TAATAAATAAAAACTAAT
1 TAATAAATAAAAACTAAG
*
6045067 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAACTAAG
6045085 TAATAAA
1 TAATAAA
6045092 AAATGAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
TAATAAATAAAAACTAAG
Found at i:6046196 original size:19 final size:19
Alignment explanation
Indices: 6046148--6046216 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
6046138 TTTTTAAAAT
6046148 TATTAATATTAAAA-AAT-
1 TATTAATATTAAAATAATA
*
6046165 TATTAAATTTTAATAATAATA
1 TATT-AATATTAA-AATAATA
* *
6046186 T-TTAATGTTAAAATATTA
1 TATTAATATTAAAATAATA
6046204 TATTAATATTAAA
1 TATTAATATTAAA
6046217 CATTTAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.09
18 14 0.33
19 19 0.44
20 5 0.12
21 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
TATTAATATTAAAATAATA
Found at i:6046374 original size:17 final size:17
Alignment explanation
Indices: 6046352--6046385 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6046342 TTTAAAAAGT
6046352 TACTATTAAAATAGTTA
1 TACTATTAAAATAGTTA
6046369 TACTATTAAAATAGTTA
1 TACTATTAAAATAGTTA
6046386 CATTTTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TACTATTAAAATAGTTA
Found at i:6046575 original size:18 final size:18
Alignment explanation
Indices: 6046548--6046590 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6046538 TTATTAAAAT
*
6046548 AATAATATTA-TTATATTA
1 AATAAAATTATTTAT-TTA
6046566 AATAAAATTATTTATTTA
1 AATAAAATTATTTATTTA
6046584 AATAAAA
1 AATAAAA
6046591 AAATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAAATTATTTATTTA
Found at i:6046580 original size:22 final size:22
Alignment explanation
Indices: 6046526--6046581 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
6046516 GAAATGATTA
* *
6046526 AAAATATTTGTTTTATTAAAAT
1 AAAATATTTATTATATTAAAAT
6046548 AATAATA-TTATTATATT-AAAT
1 AA-AATATTTATTATATTAAAAT
6046569 AAAATTATTTATT
1 AAAA-TATTTATT
6046582 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 15 0.52
23 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATATTTATTATATTAAAAT
Found at i:6046733 original size:26 final size:26
Alignment explanation
Indices: 6046697--6046746 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6046687 GATATAATTA
6046697 TTTAAAATTAAAATACCAAAAAATCT
1 TTTAAAATTAAAATACCAAAAAATCT
**
6046723 TTTAAAATTAAAATATTAAAAAAT
1 TTTAAAATTAAAATACCAAAAAAT
6046747 TTTAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
TTTAAAATTAAAATACCAAAAAATCT
Found at i:6047087 original size:16 final size:14
Alignment explanation
Indices: 6047055--6047081 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6047045 TAAAATTACA
6047055 AAAATCATTTTTTG
1 AAAATCATTTTTTG
6047069 AAAATCATTTTTT
1 AAAATCATTTTTT
6047082 ATGAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAAATCATTTTTTG
Found at i:6049805 original size:19 final size:17
Alignment explanation
Indices: 6049775--6049811 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
6049765 GATTATTAAA
6049775 GATATTAAATTAAAATT
1 GATATTAAATTAAAATT
6049792 GATATATAATATTAAAATT
1 GATAT-TAA-ATTAAAATT
6049811 G
1 G
6049812 GTAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
GATATTAAATTAAAATT
Found at i:6050118 original size:16 final size:16
Alignment explanation
Indices: 6050097--6050127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6050087 ATAATGTTTA
6050097 GGATTAAGATATTATG
1 GGATTAAGATATTATG
*
6050113 GGATTACGATATTAT
1 GGATTAAGATATTAT
6050128 TAATATTAGA
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:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (16 bp):
GGATTAAGATATTATG
Found at i:6052341 original size:26 final size:25
Alignment explanation
Indices: 6052306--6052358 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
6052296 ATTACTATTA
*
6052306 TTATTTATTAATATATAATTTTTTAT
1 TTATCTATTAATATAT-ATTTTTTAT
6052332 TTATCTATTAATATATATTTTTTAT
1 TTATCTATTAATATATATTTTTTAT
6052357 TT
1 TT
6052359 TTTTGTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATCTATTAATATATATTTTTTAT
Found at i:6052361 original size:33 final size:34
Alignment explanation
Indices: 6052324--6052388 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
6052314 TAATATATAA
*
6052324 TTTTTTATTTATCTATTAATATATATT-TTTTAT
1 TTTTTTATTTATCTATTAACATATATTATTTTAT
* *
6052357 TTTTTTGTTTGTCTATTAACATATATTATTTT
1 TTTTTTATTTATCTATTAACATATATTATTTT
6052389 TATCTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (34 bp):
TTTTTTATTTATCTATTAACATATATTATTTTAT
Found at i:6052402 original size:56 final size:62
Alignment explanation
Indices: 6052328--6052481 Score: 185
Period size: 56 Copynumber: 2.5 Consensus size: 62
6052318 ATATAATTTT
*
6052328 TTATTTATCTATTAATATATATTTTTTATTTTT-TT-GT-TTGTCTAT-TA-ACATATATTA
1 TTATTTATCTATTAATATATATTTTTTATTTTTCTTAGTATTATCTATCTATACATATATTA
* * * * *
6052385 TT-TTTATCTATTAATATATATATGTATGTTTTTCTTATTATTATTTATCTATACATATATTA
1 TTATTTATCTATTAATATATAT-TTTTTATTTTTCTTAGTATTATCTATCTATACATATATTA
6052447 TTATTTATCTATTAATATATATATTTTTTATTTTT
1 TTATTTATCTATT-A-ATATATATTTTTTATTTTT
6052482 ATCTTTTCGA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
56 19 0.24
57 10 0.13
58 2 0.03
59 1 0.01
60 6 0.08
61 2 0.03
62 12 0.15
63 10 0.13
64 9 0.11
65 8 0.10
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (62 bp):
TTATTTATCTATTAATATATATTTTTTATTTTTCTTAGTATTATCTATCTATACATATATTA
Found at i:6052448 original size:22 final size:22
Alignment explanation
Indices: 6052368--6052477 Score: 95
Period size: 22 Copynumber: 5.0 Consensus size: 22
6052358 TTTTTGTTTG
6052368 TCTATTAACATATATTATT-TTTA
1 TCTATT-A-ATATATTATTATTTA
*
6052391 TCTATTAATATA-TA-TATGTA
1 TCTATTAATATATTATTATTTA
* * **
6052411 TGTTTTTCT-TATTATTATTTA
1 TCTATTAATATATTATTATTTA
6052432 TCTA-TACATATATTATTATTTA
1 TCTATTA-ATATATTATTATTTA
*
6052454 TCTATTAATATATATATTTTTTA
1 TCTATTAATATAT-TATTATTTA
6052477 T
1 T
6052478 TTTTATCTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.04
20 13 0.19
21 13 0.19
22 23 0.33
23 17 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (22 bp):
TCTATTAATATATTATTATTTA
Found at i:6053313 original size:17 final size:17
Alignment explanation
Indices: 6053280--6053313 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6053270 TTTTCCTTAT
6053280 TTATTCATTTATTATTA
1 TTATTCATTTATTATTA
6053297 TTATT-ATTTATTGATTA
1 TTATTCATTTATT-ATTA
6053314 GATTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTCATTTATTATTA
Found at i:6053355 original size:16 final size:17
Alignment explanation
Indices: 6053334--6053365 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6053324 ATTTAGTATT
6053334 TCTTATTTTAT-TTTTA
1 TCTTATTTTATCTTTTA
6053350 TCTTATTTTATCTTTT
1 TCTTATTTTATCTTTT
6053366 TGATTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTATTTTATCTTTTA
Found at i:6056768 original size:15 final size:15
Alignment explanation
Indices: 6056748--6056778 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6056738 TTTGCATACA
*
6056748 TGCATTTTTATTCAT
1 TGCATTTTCATTCAT
6056763 TGCATTTTCATTCAT
1 TGCATTTTCATTCAT
6056778 T
1 T
6056779 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (15 bp):
TGCATTTTCATTCAT
Found at i:6064000 original size:23 final size:24
Alignment explanation
Indices: 6063974--6064051 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
6063964 ATACTATGCT
*
6063974 TGAAAAAAA-GAGAACAAATGAAA
1 TGAAAAAAATGAGAAAAAATGAAA
6063997 TGAAAAAAATGAGAAAAAATGAAA
1 TGAAAAAAATGAGAAAAAATGAAA
* ** *
6064021 AGAAAAAAGAAAAGAAAAAGTG-AA
1 TGAAAAAA-ATGAGAAAAAATGAAA
6064045 TGAAAAA
1 TGAAAAA
6064052 GGAAGACTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 9 0.19
24 28 0.60
25 10 0.21
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (24 bp):
TGAAAAAAATGAGAAAAAATGAAA
Found at i:6064024 original size:13 final size:13
Alignment explanation
Indices: 6063979--6064044 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 13
6063969 ATGCTTGAAA
6063979 AAAAGAGAACAAATG
1 AAAAGA-AA-AAATG
*
6063994 AAATGAAAAAAATG
1 AAAAG-AAAAAATG
6064008 ---AGAAAAAATG
1 AAAAGAAAAAATG
6064018 AAAAGAAAAAA-G
1 AAAAGAAAAAATG
*
6064030 AAAAGAAAAAGTG
1 AAAAGAAAAAATG
6064043 AA
1 AA
6064045 TGAAAAAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.19
11 1 0.02
12 11 0.26
13 11 0.26
14 5 0.12
15 6 0.14
16 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.08
Consensus pattern (13 bp):
AAAAGAAAAAATG
Found at i:6065177 original size:42 final size:41
Alignment explanation
Indices: 6065063--6065391 Score: 262
Period size: 41 Copynumber: 8.0 Consensus size: 41
6065053 CAAGGAGCCT
* * * *
6065063 TTTA-TTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGTGCAA
1 TTTATTTTTCAAAGTCGTTGA-GCCTCTGATTAGAAGAGCAA
* *
6065103 TTTATTTTTCAAAGT--TCTGATACCTCTAATTAGAAGAGCAA
1 TTTATTTTTCAAAGTCGT-TGA-GCCTCTGATTAGAAGAGCAA
* * *
6065144 TTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGATTC--
1 TTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAAGA-GCAA
* **
6065185 TGTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAG-AGAAGCCT
1 T-TTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAAG-AGCAA
* * * * *
6065228 TTTATTTTTCAAAGTCGTTAAGCCTTTGATTAGAGGAACCA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAA
* *
6065269 TTTATTTTTCAAAGTCATTGAGCCTCTAATTAGAAGAGCAA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAA
* **
6065310 TTTA-TTTTCAAAGTTGTTGA-CCTCTGATTAGAAGAGCTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGC--AA
* * *
6065351 TTTATGTTTCTCAAAGTCGTTGAACCTCTGCTTAGAGGAGC
1 TTTAT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAAGAGC
6065392 TTTGATCAAA
Statistics
Matches: 235, Mismatches: 35, Indels: 33
0.78 0.12 0.11
Matches are distributed among these distances:
39 16 0.07
40 18 0.08
41 112 0.48
42 49 0.21
43 12 0.05
44 13 0.06
45 15 0.06
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAA
Found at i:6065178 original size:83 final size:79
Alignment explanation
Indices: 6065063--6065341 Score: 280
Period size: 83 Copynumber: 3.4 Consensus size: 79
6065053 CAAGGAGCCT
* * * *
6065063 TTTATTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGTGCAATTTATTTTTCAAAGT-TCTGATAC
1 TTTATTTTCAAAGTCGTTGA-GCCTCTGATTAGAGGTAC-ATTTATTTTTCAAAGTCT-TGA-GC
6065126 CTCTAATTAGAAGAGCAA
62 CTCTAATTAGAAGAGCAA
* *
6065144 TTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGATTC-TGTTATTTTTTAAAAGTCGTTGA
1 TTTA-TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGG-TACAT-TTA-TTTTTCAAAGTC-TTGA
* **
6065208 GCCTCTGATTAG-AGAAGCCT
60 GCCTCTAATTAGAAG-AGCAA
* * *
6065228 TTTATTTTTCAAAGTCGTTAAGCCTTTGATTAGAGGAACCATTTATTTTTCAAAGTCATTGAGCC
1 TTTA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGTA-CATTTATTTTTCAAAGTC-TTGAGCC
6065293 TCTAATTAGAAGAGCAA
63 TCTAATTAGAAGAGCAA
*
6065310 TTTATTTTCAAAGTTGTTGA-CCTCTGATTAGA
1 TTTATTTTCAAAGTCGTTGAGCCTCTGATTAGA
6065342 AGAGCTTTGT
Statistics
Matches: 165, Mismatches: 21, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
80 11 0.07
81 18 0.11
82 39 0.24
83 55 0.33
84 38 0.23
85 3 0.02
86 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (79 bp):
TTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGTACATTTATTTTTCAAAGTCTTGAGCCTCT
AATTAGAAGAGCAA
Found at i:6065369 original size:166 final size:165
Alignment explanation
Indices: 6065058--6065387 Score: 420
Period size: 166 Copynumber: 2.0 Consensus size: 165
6065048 ATTGTCAAGG
* * * **
6065058 AGCCTTTTATTTTCAAAGTTGTGATGCCTCTGTTTAGAGGTGCAATTTATTTTTCAAAGTTCTGA
1 AGCCTTTTATTTTCAAAGTCGTGAAGCCTCTGATTAGAGGAACAATTTATTTTTCAAAGTTCTGA
6065123 TACCTCTAATTAGAAGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGATTCTGT
66 TACCTCTAATTAGAAGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGATTCTGT
* *
6065188 TATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGA
131 TATTTTCTAAAAGTCGTTGAACCTCTGATTAGAGA
* * *
6065223 AGCCTTTTATTTTTCAAAGTCGTTAAGCCTTTGATTAGAGGAACCATTTATTTTTCAAAG-TCAT
1 AGCCTTTTA-TTTTCAAAGTCGTGAAGCCTCTGATTAGAGGAACAATTTATTTTTCAAAGTTC--
* * *
6065287 TGA-GCCTCTAATTAGAAGAGCAATTTA-TTTTC-AAAGTTGTTGA-CCTCTGATTAGAAGAGCT
63 TGATACCTCTAATTAGAAGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAG-AG-GAT
* *
6065348 T-TGTTTATGTTTCTCAAAGTCGTTGAACCTCTGCTTAGAG
126 TCTG-TTAT-TTTCTAAAAGTCGTTGAACCTCTGATTAGAG
6065388 GAGCTTTGAT
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
163 11 0.08
164 14 0.10
165 23 0.16
166 92 0.64
167 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (165 bp):
AGCCTTTTATTTTCAAAGTCGTGAAGCCTCTGATTAGAGGAACAATTTATTTTTCAAAGTTCTGA
TACCTCTAATTAGAAGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGATTCTGT
TATTTTCTAAAAGTCGTTGAACCTCTGATTAGAGA
Found at i:6065717 original size:21 final size:22
Alignment explanation
Indices: 6065698--6065809 Score: 83
Period size: 23 Copynumber: 5.0 Consensus size: 22
6065688 TTTTTATTTG
6065698 TCTATTAACATATATTATTTTTA
1 TCTATTAACATATATTA-TTTTA
*
6065721 TCTATTAATATATATGTGTATTATTA
1 TCTATTAACATATA--T-TATT-TTA
**
6065747 T-TATTATTAT-TATTA-TTTA
1 TCTATTAACATATATTATTTTA
6065766 TCTATT--CATATATTATTATTTA
1 TCTATTAACATATATTA-T-TTTA
*
6065788 TCTATTAATATATATT-TTTTA
1 TCTATTAACATATATTATTTTA
6065809 T
1 T
6065810 TTTTATCTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 24
0.73 0.04 0.24
Matches are distributed among these distances:
18 2 0.03
19 9 0.12
20 5 0.07
21 7 0.09
22 12 0.16
23 13 0.18
24 9 0.12
25 11 0.15
26 6 0.08
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TCTATTAACATATATTATTTTA
Found at i:6065729 original size:68 final size:67
Alignment explanation
Indices: 6065646--6065802 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 67
6065636 AATTTTTTAT
* * * * * * *
6065646 TTATTTATCTATTAATATAT-TTTATTAATATTTTTTTTATTTTTTTTATTTGTCTATTAACATA
1 TTATTTATCTATTAATATATATGT-GTAATATTATTATTATTATTATTATTTATCTATT--CATA
6065710 TATTA
63 TATTA
*
6065715 TT-TTTATCTATTAATATATATGTGTATTATTATTATTATTATTATTATTTATCTATTCATATAT
1 TTATTTATCTATTAATATATATGTGTAATATTATTATTATTATTATTATTTATCTATTCATATAT
6065779 TA
66 TA
6065781 TTATTTATCTATTAATATATAT
1 TTATTTATCTATTAATATATAT
6065803 TTTTTATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
66 11 0.14
67 19 0.24
68 44 0.56
69 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (67 bp):
TTATTTATCTATTAATATATATGTGTAATATTATTATTATTATTATTATTTATCTATTCATATAT
TA
Found at i:6065747 original size:3 final size:3
Alignment explanation
Indices: 6065739--6065815 Score: 59
Period size: 3 Copynumber: 24.0 Consensus size: 3
6065729 TATATATGTG
6065739 TAT TAT TAT TAT TAT TAT TAT TATT TAT CTAT TCAT ATAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT T-AT -TAT TAT TA-T
* *
6065786 TAT CTAT TAA TAT ATAT T-T T-T TAT TTT TAT
1 TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT
6065816 CTTTTCGGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
2 4 0.06
3 38 0.61
4 19 0.31
5 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6066631 original size:24 final size:24
Alignment explanation
Indices: 6066603--6066700 Score: 77
Period size: 22 Copynumber: 4.4 Consensus size: 24
6066593 TTTTCCTTAT
6066603 TTATTTATTTATTTATTATTATTA
1 TTATTTATTTATTTATTATTATTA
* * **
6066627 TTATTTATTGA-TTA-GATTAGAA
1 TTATTTATTTATTTATTATTATTA
*
6066649 TTATTTA-GTATTT-TTATT-TTA
1 TTATTTATTTATTTATTATTATTA
* *
6066670 TT-TTTATTT-TTTATTTTTA-TC
1 TTATTTATTTATTTATTATTATTA
6066691 TTATTTATTT
1 TTATTTATTT
6066701 TTTGATTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
20 7 0.12
21 12 0.21
22 24 0.43
23 3 0.05
24 10 0.18
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (24 bp):
TTATTTATTTATTTATTATTATTA
Found at i:6066666 original size:6 final size:6
Alignment explanation
Indices: 6066657--6066689 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
6066647 AATTATTTAG
6066657 TATTTT TA-TTT TATTTT TATTTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TA-TTTT TATTTT TAT
6066690 CTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:6066670 original size:18 final size:18
Alignment explanation
Indices: 6066649--6066686 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6066639 TAGATTAGAA
6066649 TTATTTAGTA-TTTTTATT
1 TTATTT-GTATTTTTTATT
*
6066667 TTATTTTTATTTTTTATT
1 TTATTTGTATTTTTTATT
6066685 TT
1 TT
6066687 TATCTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTGTATTTTTTATT
Found at i:6066673 original size:11 final size:11
Alignment explanation
Indices: 6066657--6066709 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
6066647 AATTATTTAG
6066657 TATTTTTATTT
1 TATTTTTATTT
6066668 TATTTTTATTTTT
1 TATTTTTA--TTT
*
6066681 TATTTTTATCT
1 TATTTTTATTT
6066692 TATTTATT-TTT
1 TATTT-TTATTT
6066703 TGATTTT
1 T-ATTTT
6066710 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 19 0.53
12 6 0.17
13 11 0.31
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:6066694 original size:18 final size:18
Alignment explanation
Indices: 6066659--6066696 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6066649 TTATTTAGTA
*
6066659 TTTTTATTTTATTTTTAT
1 TTTTTATTTTATTCTTAT
6066677 TTTTTATTTT-TATCTTAT
1 TTTTTATTTTAT-TCTTAT
6066695 TT
1 TT
6066697 ATTTTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTATTCTTAT
Found at i:6066703 original size:24 final size:24
Alignment explanation
Indices: 6066657--6066709 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
6066647 AATTATTTAG
*
6066657 TATTTTTATTTTATTTTTATTTTT
1 TATTTTTATCTTATTTTTATTTTT
6066681 TATTTTTATCTTA--TTTATTTTT
1 TATTTTTATCTTATTTTTATTTTT
6066703 TGATTTT
1 T-ATTTT
6066710 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 10 0.37
23 5 0.19
24 12 0.44
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (24 bp):
TATTTTTATCTTATTTTTATTTTT
Found at i:6066813 original size:61 final size:57
Alignment explanation
Indices: 6066706--6066888 Score: 176
Period size: 61 Copynumber: 3.1 Consensus size: 57
6066696 TATTTTTTGA
* * * *
6066706 TTTTCTT-TAAATAAAATTCTAAAAAATA-TTTTTGAGGAAAAATTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAGTTCTAAAAAAAATTTTTTGAGG-AAAGTTGAAAGTATCAAT
* *
6066762 TTTCCTTGAAAAT-AAGTTTTTTCTAAAAAAAATTTTTTGAAGGAAAGTTGAAAGTATTAAT
1 TTTTCTTGAAAATAAAG----TTCTAAAAAAAATTTTTTG-AGGAAAGTTGAAAGTATCAAT
* * * *
6066823 TTTTCTCGAAATTAAAG-TCTTAGAAAAATATTTTTGAGGAGAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAGTTCTAAAAAAAAT-TTTTTGAGGA-AAGTTGAAAGTATCAAT
6066881 TTTTCTTG
1 TTTTCTTG
6066889 TACAAAAGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
56 8 0.08
57 18 0.17
58 29 0.28
60 11 0.11
61 32 0.31
62 6 0.06
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (57 bp):
TTTTCTTGAAAATAAAGTTCTAAAAAAAATTTTTTGAGGAAAGTTGAAAGTATCAAT
Found at i:6066868 original size:58 final size:57
Alignment explanation
Indices: 6066723--6066886 Score: 179
Period size: 61 Copynumber: 2.8 Consensus size: 57
6066713 TAAATAAAAT
* * * *
6066723 TCTAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTT
1 TCTAAAAAATATTTTTGAGG-AAAGTTGAAAGTATCAATTTTTCTCGAAAATAAG--TTC
* * *
6066783 TCTAAAAAAAATTTTTTGAAGGAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAG-TC
1 TCTAAAAAATA-TTTTTG-AGGAAAGTTGAAAGTATCAATTTTTCTCGAAAAT-AAGTTC
6066842 T-TAGAAAAATATTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCT
1 TCTA-AAAAATATTTTTGAGGA-AAGTTGAAAGTATCAATTTTTCT
6066887 TGTACAAAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
57 4 0.04
58 30 0.33
59 8 0.09
60 10 0.11
61 32 0.36
62 6 0.07
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (57 bp):
TCTAAAAAATATTTTTGAGGAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAGTTC
Found at i:6067642 original size:18 final size:18
Alignment explanation
Indices: 6067619--6067655 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6067609 CATGGTGAAA
*
6067619 TGAGATGAAGGTTTCAAT
1 TGAGATAAAGGTTTCAAT
6067637 TGAGATAAAGGTTTCAAT
1 TGAGATAAAGGTTTCAAT
6067655 T
1 T
6067656 CTTAATTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (18 bp):
TGAGATAAAGGTTTCAAT
Found at i:6067898 original size:2 final size:2
Alignment explanation
Indices: 6067891--6067916 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6067881 ATACATTACC
6067891 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
6067917 GGTTTCGATG
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):
TA
Found at i:6068150 original size:121 final size:121
Alignment explanation
Indices: 6067892--6068151 Score: 303
Period size: 121 Copynumber: 2.1 Consensus size: 121
6067882 TACATTACCT
* * * ** *
6067892 ATATATATATATATATATATATATAGGTTTCGATGGTTCAAGGTGAAAGCTCTGATACCATGAAG
1 ATATCTATATATATATATATACAAAGGTTTCGATACTTCAAGGTGAAAGCTCTGACACCATGAAG
*
6067957 AAATTCATGAGAATTTTATTTATGAATTCTTAAGAAACTTTCAAGAATACACACAC
66 AAATTCATAAGAATTTTATTTATGAATTCTTAAGAAACTTTCAAGAATACACACAC
* * * * * *
6068013 ACA-CACACACACATATATATACAAAGGTTTCGATTACTT-AGGGTGAACA-CTCTGACACCATG
1 ATATC-TATATATATATATATACAAAGGTTTCGA-TACTTCAAGGTGAA-AGCTCTGACACCATG
* * * *
6068075 AAGAAATTGATAAGAATTTTATTTATGAATTCTTAAGAAACTTTTAAGAATACA-AGATG
63 AAGAAATTCATAAGAATTTTATTTATGAATTCTTAAGAAACTTTCAAGAATACACACA-C
6068134 ATATCTATATATATATAT
1 ATATCTATATATATATAT
6068152 TCTATCTCTC
Statistics
Matches: 112, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
120 2 0.02
121 105 0.94
122 5 0.04
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (121 bp):
ATATCTATATATATATATATACAAAGGTTTCGATACTTCAAGGTGAAAGCTCTGACACCATGAAG
AAATTCATAAGAATTTTATTTATGAATTCTTAAGAAACTTTCAAGAATACACACAC
Found at i:6071647 original size:25 final size:25
Alignment explanation
Indices: 6071619--6071668 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6071609 GAGATAGAGT
*
6071619 TAAGGTCTCTAATATGCCAAATGGC
1 TAAGGTCTCTAATATACCAAATGGC
*
6071644 TAAGGTCTTTAATATACCAAATGGC
1 TAAGGTCTCTAATATACCAAATGGC
6071669 AAAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (25 bp):
TAAGGTCTCTAATATACCAAATGGC
Found at i:6082097 original size:17 final size:17
Alignment explanation
Indices: 6082065--6082100 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6082055 ATGACATAAT
**
6082065 AAAAAAAATTTTAATTG
1 AAAAAAAATTACAATTG
6082082 AAAAAAAATTACAATTG
1 AAAAAAAATTACAATTG
6082099 AA
1 AA
6082101 TTTAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAAAAATTACAATTG
Found at i:6090838 original size:15 final size:15
Alignment explanation
Indices: 6090814--6090844 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6090804 TGTTAAGTGT
*
6090814 AATGAGTGAGAATGC
1 AATGAATGAGAATGC
6090829 AATGAATGAGAATGC
1 AATGAATGAGAATGC
6090844 A
1 A
6090845 TGTATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:6094058 original size:31 final size:31
Alignment explanation
Indices: 6094023--6094115 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
6094013 ACTTTTCCCC
6094023 AAAATATTTTTTAGAAACTTTAATTTCGAGG
1 AAAATATTTTTTAGAAACTTTAATTTCGAGG
** * *
6094054 AAAATTGATACTTT--CAAC-TT--TTTCCA--
1 AAAA-T-ATTTTTTAGAAACTTTAATTTCGAGG
6094080 AAAATATTTTTTAGAAACTTTAATTTCGAGG
1 AAAATATTTTTTAGAAACTTTAATTTCGAGG
6094111 AAAAT
1 AAAAT
6094116 TGATACTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 18
0.63 0.11 0.25
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
26 7 0.16
27 2 0.04
28 5 0.11
29 5 0.11
30 2 0.04
31 12 0.27
32 1 0.02
33 5 0.11
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (31 bp):
AAAATATTTTTTAGAAACTTTAATTTCGAGG
Found at i:6094058 original size:57 final size:57
Alignment explanation
Indices: 6093997--6094325 Score: 394
Period size: 58 Copynumber: 5.7 Consensus size: 57
6093987 TTATATGAAA
* * *
6093997 AAAATTAATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAACTTTAATTTCAAGG
* *
6094054 AAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAACTTTAATTTCAAGG
* *
6094111 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAAGAAAAATTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTT-AG-AAACTTTAATTTCAAGG
* ** * **
6094171 AAAATTGATACCTTCAACTTTTTTTCAAAAATATTTTTTAAAAAGCTTGT--TTTCAAAT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTAGAAA-CTT-TAATTTCAAGG
* * * *
6094229 AAAATTGATACTTTCAATTTTTTCTCAAAACTATTTTTTAGAAAGC-TTATTTTCAAGG
1 AAAATTGATACTTTCAA-CTTTTCCCAAAAATATTTTTTAGAAA-CTTTAATTTCAAGG
*
6094287 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTT
6094326 TGAATTTTAT
Statistics
Matches: 237, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
56 1 0.00
57 84 0.35
58 97 0.41
59 5 0.02
60 45 0.19
61 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAACTTTAATTTCAAGG
Found at i:6094130 original size:31 final size:31
Alignment explanation
Indices: 6094038--6094131 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
6094028 ATTTTTTAGA
6094038 AACTTTAATTTCGAGGAAAATTGATACTTTC
1 AACTTTAATTTCGAGGAAAATTGATACTTTC
* ** *
6094069 AAC-TT--TTTCCA--AAAA-T-ATTTTTTAGA
1 AACTTTAATTTCGAGGAAAATTGATACTTT--C
6094095 AACTTTAATTTCGAGGAAAATTGATACTTTC
1 AACTTTAATTTCGAGGAAAATTGATACTTTC
6094126 AACTTT
1 AACTTT
6094132 TCCCTAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
26 7 0.15
27 2 0.04
28 5 0.11
29 5 0.11
30 2 0.04
31 13 0.28
32 1 0.02
33 5 0.11
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (31 bp):
AACTTTAATTTCGAGGAAAATTGATACTTTC
Found at i:6094362 original size:20 final size:19
Alignment explanation
Indices: 6094337--6094379 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
6094327 GAATTTTATT
6094337 TAAAGAAATAAGAAA-AAAAA
1 TAAAGAAA-AA-AAATAAAAA
6094357 TAAAGAAAAAAAATAAAAA
1 TAAAGAAAAAAAATAAAAA
6094376 TAAA
1 TAAA
6094380 AATCAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 11 0.50
20 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
TAAAGAAAAAAAATAAAAA
Found at i:6094364 original size:13 final size:13
Alignment explanation
Indices: 6094342--6094382 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
6094332 TTATTTAAAG
6094342 AAAT-AAGAAAAA
1 AAATAAAGAAAAA
6094354 AAATAAAGAAAAA
1 AAATAAAGAAAAA
*
6094367 AAATAAA-AATAA
1 AAATAAAGAAAAA
6094379 AAAT
1 AAAT
6094383 CAACTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (13 bp):
AAATAAAGAAAAA
Found at i:6094376 original size:6 final size:6
Alignment explanation
Indices: 6094342--6094408 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
6094332 TTATTTAAAG
* * *
6094342 AAATAA GAAA-AA AAATAA AGAAAAA AAATAA AAATAA AAAT-C AACTAA
1 AAATAA -AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA
6094390 AAAT-A AAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAA
6094409 GTACTAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
5 16 0.32
6 26 0.52
7 8 0.16
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:6095329 original size:41 final size:41
Alignment explanation
Indices: 6095273--6095490 Score: 126
Period size: 42 Copynumber: 5.1 Consensus size: 41
6095263 AAATCAAATC
* * *
6095273 AAATAAAAATGTTAATAGATAATTAA-AAGAAAATAAGTAGAT
1 AAAT-AAAATATTAATAGATAAATAATAA-AAAATAAATAGAT
* *
6095315 AAATAAAATATTAATAGATAAATAATAATATATAAATAGAT
1 AAATAAAATATTAATAGATAAATAATAAAAAATAAATAGAT
* * *
6095356 AAATAATAATA--AATACATATATATAATAATATATAAATAGAT
1 AAATAA-AATATTAATAGATA-A-ATAATAAAAAATAAATAGAT
* * * *
6095398 AAATAATAATA--AATATATATTAACAGATAAAATAA-AAATAAAA
1 AAATAA-AATATTAATAGATA--AATA-ATAAAA-AATAAATAGAT
* *
6095441 AAATAAAAAATATTAATAAATAGTAATAATAAATAAATACATA-AT
1 AAAT--AAAATATTAATAGATA--AATAATAAA-AAATAAATAGAT
6095486 AAATA
1 AAATA
6095491 CATAAGATAC
Statistics
Matches: 146, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
40 7 0.05
41 36 0.25
42 50 0.34
43 18 0.12
44 5 0.03
45 14 0.10
46 16 0.11
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (41 bp):
AAATAAAATATTAATAGATAAATAATAAAAAATAAATAGAT
Found at i:6095339 original size:4 final size:4
Alignment explanation
Indices: 6095303--6095542 Score: 73
Period size: 4 Copynumber: 60.8 Consensus size: 4
6095293 AATTAAAAGA
* * * * * *
6095303 AAAT AAGT AGAT AAAT AAA- ATAT TAAT AGAT AAAT -AAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
6095348 AAAT AGAT AAAT -AAT -AAT AAAT ACAT ATAT ATAAT -AAT ATAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
* * * * *
6095394 AGAT AAAT -AAT -AAT AAAT ATATAT TAAC AGAT AAA- ATAA- AAAT AAAA
1 AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAAT A-AAT AAAT AAAT
*
6095441 AAAT AAA- AAAT ATTAAT AAAT AGTAAT -AAT AAAT AAAT ACAT -AAT
1 AAAT AAAT AAAT A--AAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT
* *
6095486 AAAT ACAT AAGAT ACACA- AAAC AAA- AAAT ATATAT AATAT AAA- AAAT
1 AAAT AAAT AA-AT A-A-AT AAAT AAAT AAAT A-A-AT AA-AT AAAT AAAT
6095533 AAA- AAAT AAA
1 AAAT AAAT AAA
6095543 ATGGACCTAT
Statistics
Matches: 177, Mismatches: 34, Indels: 50
0.68 0.13 0.19
Matches are distributed among these distances:
3 44 0.25
4 104 0.59
5 15 0.08
6 14 0.08
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:6095343 original size:14 final size:14
Alignment explanation
Indices: 6095303--6095495 Score: 114
Period size: 14 Copynumber: 13.4 Consensus size: 14
6095293 AATTAAAAGA
6095303 AAATAAGTAGATAAAT
1 AAATAA-TA-ATAAAT
* *
6095319 AAAATATTAATAGAT
1 -AAATAATAATAAAT
*
6095334 AAATAATAATATAT
1 AAATAATAATAAAT
6095348 AAATAGATAAATAATAAT
1 AAATA-AT-AAT-A-AAT
6095366 AAATACATATATATAAT
1 AAATA-ATA-ATA-AAT
*
6095383 -AATATATAAATAGAT
1 AAATA-AT-AATAAAT
6095398 AAATAATAATAAAT
1 AAATAATAATAAAT
* * * *
6095412 ATATATTAACAGAT
1 AAATAATAATAAAT
6095426 -AA-AATAA-AAAT
1 AAATAATAATAAAT
6095437 AAA-AA-AATAAA-
1 AAATAATAATAAAT
*
6095448 AAATATTAATAAAT
1 AAATAATAATAAAT
*
6095462 -AGTAATAATAAAT
1 AAATAATAATAAAT
6095475 AAATACATAATAAAT
1 AAATA-ATAATAAAT
*
6095490 ACATAA
1 AAATAA
6095496 GATACACAAA
Statistics
Matches: 141, Mismatches: 21, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
11 8 0.06
12 12 0.09
13 18 0.13
14 37 0.26
15 24 0.17
16 18 0.13
17 13 0.09
18 11 0.08
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:6095389 original size:42 final size:41
Alignment explanation
Indices: 6095305--6095495 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 41
6095295 TTAAAAGAAA
* *
6095305 ATAAGTAGATAAATAA-AATATTAATAGATAA-ATAATAATAT
1 ATAAATAGATAAATAATAATA--AATACATAATATAATAATAT
6095346 ATAAATAGATAAATAATAATAAATACATATATATAATAATAT
1 ATAAATAGATAAATAATAATAAATACATA-ATATAATAATAT
* * * *
6095388 ATAAATAGATAAATAATAATAAATATATATTAACAGATAAAAT
1 ATAAATAGATAAATAATAATAAATACATAAT-ATA-ATAATAT
* * * *
6095431 AAAAATA-A-AAA-AATAAAAAATA-TTAATA-AATAGTA-
1 ATAAATAGATAAATAATAATAAATACATAATATAATAATAT
*
6095466 AT-AATAAATAAATACATAATAAATACATAA
1 ATAAATAGATAAATA-ATAATAAATACATAA
6095496 GATACACAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
34 4 0.03
35 2 0.02
36 7 0.06
37 2 0.02
38 10 0.08
39 6 0.05
40 17 0.14
41 20 0.16
42 45 0.36
43 12 0.10
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (41 bp):
ATAAATAGATAAATAATAATAAATACATAATATAATAATAT
Found at i:6095407 original size:22 final size:22
Alignment explanation
Indices: 6095305--6095408 Score: 137
Period size: 22 Copynumber: 5.0 Consensus size: 22
6095295 TTAAAAGAAA
*
6095305 ATAAGTAGATAAATAA-AATAT
1 ATAAATAGATAAATAATAATAT
6095326 -T-AATAGATAAATAATAATAT
1 ATAAATAGATAAATAATAATAT
*
6095346 ATAAATAGATAAATAATAATAA
1 ATAAATAGATAAATAATAATAT
* *
6095368 ATACAT--ATATATAATAATAT
1 ATAAATAGATAAATAATAATAT
6095388 ATAAATAGATAAATAATAATA
1 ATAAATAGATAAATAATAATA
6095409 AATATATATT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
19 12 0.17
20 23 0.32
21 1 0.01
22 35 0.49
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAATAGATAAATAATAATAT
Found at i:6098683 original size:15 final size:16
Alignment explanation
Indices: 6098653--6098686 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6098643 GTATCTTAAA
6098653 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
6098669 ATTATAATT-TTTTAT
1 ATTATAATTATTTTAT
6098684 ATT
1 ATT
6098687 TTTAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATAATTATTTTAT
Found at i:6100515 original size:27 final size:27
Alignment explanation
Indices: 6100457--6100515 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
6100447 ATGAAATATT
** *
6100457 ATTTATTTTAATTTAAAATTTTTATGA
1 ATTTATTTTAATAAAAAATTTTTATAA
*
6100484 TTTTATTTT-ATAAAAAATATTTTATAA
1 ATTTATTTTAATAAAAAAT-TTTTATAA
6100511 ATTTA
1 ATTTA
6100516 GATTTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTATTTTAATAAAAAATTTTTATAA
Found at i:6102567 original size:30 final size:30
Alignment explanation
Indices: 6102527--6102583 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6102517 CAATAGTTAC
* *
6102527 ATTGGGAGTGGAAGGATAGATGAACAGCCA
1 ATTGGCAGTGGAAGGATAGATAAACAGCCA
*
6102557 ATTGGCAGTGGAAGTATAGATAAACAG
1 ATTGGCAGTGGAAGGATAGATAAACAG
6102584 TCATGTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (30 bp):
ATTGGCAGTGGAAGGATAGATAAACAGCCA
Found at i:6103122 original size:3 final size:3
Alignment explanation
Indices: 6103114--6103138 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6103104 CATTTTGTAT
6103114 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6103139 AATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6103156 original size:21 final size:21
Alignment explanation
Indices: 6103132--6103175 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6103122 ATTATTATTA
*
6103132 TTATTATAATATTTTTTTTCT
1 TTATTATAATAATTTTTTTCT
* **
6103153 TTATTTTTCTAATTTTTTTCT
1 TTATTATAATAATTTTTTTCT
6103174 TT
1 TT
6103176 TTCTTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTATAATAATTTTTTTCT
Found at i:6103170 original size:22 final size:22
Alignment explanation
Indices: 6103144--6103184 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6103134 ATTATAATAT
6103144 TTTTTTTCTTTAT-TTTTCTAA
1 TTTTTTTCTTTATCTTTTCTAA
*
6103165 TTTTTTTCTTTTTCTTTTCT
1 TTTTTTTCTTTATCTTTTCT
6103185 TATCTGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTTTATCTTTTCTAA
Found at i:6104141 original size:21 final size:21
Alignment explanation
Indices: 6104116--6104159 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6104106 AAAAAAAATT
* *
6104116 TTTTAAATATTATTTTTGTTA
1 TTTTAAATATTATTATTATTA
*
6104137 TTTTAATTATTATTATTATTA
1 TTTTAAATATTATTATTATTA
6104158 TT
1 TT
6104160 ATTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTAAATATTATTATTATTA
Found at i:6104712 original size:17 final size:20
Alignment explanation
Indices: 6104689--6104738 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6104679 TCTCTTTTCT
*
6104689 TTAATAAAACATTAA-T-AA
1 TTAATAAAACAATAATTCAA
6104707 -TAATAAAACAATAATTCAA
1 TTAATAAAACAATAATTCAA
6104726 TTAATAAAACAAT
1 TTAATAAAACAAT
6104739 CAATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 2 0.07
20 12 0.43
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAATAAAACAATAATTCAA
Found at i:6104732 original size:20 final size:18
Alignment explanation
Indices: 6104689--6104744 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 18
6104679 TCTCTTTTCT
*
6104689 TTAATAAAACATTAATAA
1 TTAATAAAACAATAATAA
6104707 -TAATAAAACAATAATTCAA
1 TTAATAAAACAATAA-T-AA
6104726 TTAATAAAACAATCAATAA
1 TTAATAAAACAAT-AATAA
6104745 AATTTCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 4 0.12
20 13 0.39
21 2 0.06
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAATAAAACAATAATAA
Found at i:6115764 original size:6 final size:6
Alignment explanation
Indices: 6115744--6115791 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
6115734 TAAAAAAACA
* *
6115744 AAAAAT AAATA- AAAAAT AAAAAT AAAAAAGT AAAAAC AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAA-T AAAAAT AAAAAT AAAAA
6115792 GTGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
6 20 0.57
7 10 0.29
8 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:6115798 original size:20 final size:19
Alignment explanation
Indices: 6115737--6115799 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
6115727 TTTTTCTTAA
*
6115737 AAAAACAAAAA-ATAAA-T
1 AAAAACAAAAATAAAAAGT
*
6115754 AAAAAATAAAAATAAAAAAGT
1 -AAAAACAAAAAT-AAAAAGT
6115775 AAAAACAAAAATAAAAAGT
1 AAAAACAAAAATAAAAAGT
6115794 GAAAAA
1 -AAAAA
6115800 AATGACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.26
19 7 0.18
20 20 0.53
21 1 0.03
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (19 bp):
AAAAACAAAAATAAAAAGT
Found at i:6115799 original size:14 final size:13
Alignment explanation
Indices: 6115737--6115791 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
6115727 TTTTTCTTAA
*
6115737 AAAAACAAAAAAT
1 AAAAATAAAAAAT
6115750 --AAATAAAAAAT
1 AAAAATAAAAAAT
6115761 AAAAATAAAAAAGT
1 AAAAATAAAAAA-T
*
6115775 AAAAA-CAAAAAT
1 AAAAATAAAAAAT
6115787 AAAAA
1 AAAAA
6115792 GTGAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 10 0.27
12 6 0.16
13 15 0.41
14 6 0.16
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.11
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:6116823 original size:47 final size:48
Alignment explanation
Indices: 6116706--6116928 Score: 281
Period size: 49 Copynumber: 4.5 Consensus size: 48
6116696 TCAAGATAAA
6116706 TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTCCAAGATGATAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTT-CAAGATG--AGAT
* *
6116757 TTTTAAAGTTGTTGAGCCTCTATTTAGAAGAGCTTTTGAAGATG-GAT
1 TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTCAAGATGAGAT
*
6116804 TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAGATGA-ATT
1 TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGC-TTTTCAAGATGAGA-T
* * * *
6116853 TTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTT-ATAGGATGATGAA
1 TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTCA-A-GATGA-GAT
*
6116903 TTTTAAAGTTGTTGAGCCTCTGCTTA
1 TTTTAAAGTTGTTGAGCCTCTACTTA
6116929 AAGGAGTCCT
Statistics
Matches: 156, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
47 35 0.22
48 16 0.10
49 37 0.24
50 31 0.20
51 37 0.24
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTCAAGATGAGAT
Found at i:6116879 original size:49 final size:48
Alignment explanation
Indices: 6116695--6117060 Score: 282
Period size: 50 Copynumber: 7.8 Consensus size: 48
6116685 GAGCCTCAAC
* *
6116695 TTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTT
1 TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
* * *
6116742 TCCAAGATGATAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAAGAGC-TT
1 TTCAAGATG--A-ATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
* *
6116792 TTGAAGATGGATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
1 TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
* *
6116840 TTCAAGATGAATTTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTT
1 TTCAAGATGAA-TTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
* * *
6116889 TAT-AGGATGATGAA-TTTTAAAGTTGTTGAGCCTCTGCTTAAAGGAGTCCTT
1 T-TCA--A-GATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAG-CTTT
** * * *
6116940 TT-AA-AT---TTTCAAAAGTTATTGAGTCTCTACTTAGAGGAGCCTCT
1 TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAG-CTTT
** * * *
6116984 TT----A--AATTTCAAAAATTGTTGAGCCTCTACTTATAGGAGTTTT
1 TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
* * * *
6117026 TTTAA-A--ATTTTTTAAAGTTATTGAGCCTTTACTTA
1 TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTA
6117061 AAGAAGCCTC
Statistics
Matches: 266, Mismatches: 36, Indels: 36
0.79 0.11 0.11
Matches are distributed among these distances:
42 5 0.02
43 29 0.11
44 30 0.11
45 24 0.09
46 2 0.01
47 40 0.15
48 12 0.05
49 37 0.14
50 43 0.16
51 38 0.14
52 6 0.02
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (48 bp):
TTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
Found at i:6116927 original size:50 final size:49
Alignment explanation
Indices: 6116704--6116934 Score: 260
Period size: 47 Copynumber: 4.7 Consensus size: 49
6116694 CTTCAAGATA
*
6116704 AATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTCCA-AGATGATAG
1 AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTT--ATAGATGAT-G
* * *
6116755 ATTTTTAAAGTTGTTGAGCCTCTATTTAGAAGAGCTTTTGA-AGATG--G
1 AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTT-ATAGATGATG
*
6116802 ATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTT-TCA-A-GATG
1 AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTAT-AGATGATG
* *
6116849 AATTTTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTATAGGATGATG
1 AA--TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTATA-GATGATG
* *
6116901 AATTTTAAAGTTGTTGAGCCTCTGCTTAAAGGAG
1 AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAG
6116935 TCCTTTTAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 41 0.26
49 36 0.22
50 37 0.23
51 38 0.24
52 6 0.04
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (49 bp):
AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTATAGATGATG
Found at i:6116962 original size:44 final size:43
Alignment explanation
Indices: 6116907--6117158 Score: 202
Period size: 44 Copynumber: 5.7 Consensus size: 43
6116897 GATGAATTTT
*
6116907 AAAGTTGTTGAGCCTCTGCTTAAAGGAGTCCTTTTAAATTTTCA
1 AAAGTTGTTGAGCCTCTACTTAAAGGAG-CCTTTTAAATTTTCA
* * *
6116951 AAAGTTATTGAGTCTCTACTTAGAGGAGCCTCTTTAAA-TTTCA
1 AAAGTTGTTGAGCCTCTACTTAAAGGAGCCT-TTTAAATTTTCA
* * ** **
6116994 AAAATTGTTGAGCCTCTACTTATAGGAGTTTTTTTAAAATTTTTT
1 AAAGTTGTTGAGCCTCTACTTAAAGGAG-CCTTTT-AAATTTTCA
* * * *
6117039 AAAGTTATTGAGCCTTTACTTAAAGAAGCCTCTTTAAAATTTCA
1 AAAGTTGTTGAGCCTCTACTTAAAGGAGCCT-TTTAAATTTTCA
* * * * * *
6117083 AAACTTGTTAAGCCTCT-GTTCAGAGGAGCTTTTTAAATTTTAAA
1 AAAGTTGTTGAGCCTCTACTT-AAAGGAGCCTTTTAAATTTT-CA
* * * * *
6117127 AAAATTGTTGAACTTCTATTTAGAGGAGCCTT
1 AAAGTTGTTGAGCCTCTACTTAAAGGAGCCTT
6117159 AAAAAAAAGA
Statistics
Matches: 162, Mismatches: 38, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
43 46 0.28
44 85 0.52
45 31 0.19
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (43 bp):
AAAGTTGTTGAGCCTCTACTTAAAGGAGCCTTTTAAATTTTCA
Found at i:6117116 original size:88 final size:86
Alignment explanation
Indices: 6116911--6117128 Score: 258
Period size: 88 Copynumber: 2.5 Consensus size: 86
6116901 AATTTTAAAG
* * *
6116911 TTGTTGAGCCTCTGCTTAAAGGAGTCCTTTTAAATTTTCAAAAGTTATTGAGTCTCTACTTAGAG
1 TTGTTGAGCCTCTG-TTAAAGGAGTCTTTTTAAATTTTCAAAAGTTATTGAGCCTCTACTTAAAG
*
6116976 GAGCCTCTTTAAATTTCAAAAA
65 AAGCCTCTTTAAATTTCAAAAA
* * * ** *
6116998 TTGTTGAGCCTCTACTTATAGGAGTTTTTTTAAAATTTTTTAAAGTTATTGAGCCTTTACTTAAA
1 TTGTTGAGCCTCT-GTTAAAGGAGTCTTTTT-AAATTTTCAAAAGTTATTGAGCCTCTACTTAAA
*
6117063 GAAGCCTCTTTAAAATTTCAAAAC
64 GAAGCCTCTTT-AAATTTCAAAAA
* * *
6117087 TTGTTAAGCCTCTGTTCAGAGGAG-CTTTTTAAATTTTAAAAA
1 TTGTTGAGCCTCTGTT-AAAGGAGTCTTTTTAAATTTTCAAAA
6117129 AATTGTTGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
87 36 0.33
88 45 0.41
89 29 0.26
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (86 bp):
TTGTTGAGCCTCTGTTAAAGGAGTCTTTTTAAATTTTCAAAAGTTATTGAGCCTCTACTTAAAGA
AGCCTCTTTAAATTTCAAAAA
Found at i:6117299 original size:18 final size:16
Alignment explanation
Indices: 6117274--6117329 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 16
6117264 GTAAACATCA
6117274 TTTTATATTTTTTTTT
1 TTTTATATTTTTTTTT
6117290 ATTATTATATCTTTTATTTT
1 -TT-TTATAT-TTTT-TTTT
6117310 TTTTA-ATTTTTTATTT
1 TTTTATATTTTTT-TTT
6117326 TTTT
1 TTTT
6117330 TTTCTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.31
17 4 0.11
18 9 0.26
19 6 0.17
20 4 0.11
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATATTTTTTTTT
Found at i:6118812 original size:14 final size:14
Alignment explanation
Indices: 6118791--6118824 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6118781 TCAAGACTAG
6118791 TCTTTTCTTCTTCTT
1 TCTTTTCTTC-TCTT
6118806 T-TTTTCTTCTCTT
1 TCTTTTCTTCTCTT
6118819 TCTTTT
1 TCTTTT
6118825 TCATCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTCTCTT
Found at i:6119011 original size:17 final size:17
Alignment explanation
Indices: 6118972--6119004 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6118962 TAATTTTTTT
6118972 ACAAAATTAACAAAAAC
1 ACAAAATTAACAAAAAC
*
6118989 AAAAAATTAACAAAAA
1 ACAAAATTAACAAAAA
6119005 ACCAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
ACAAAATTAACAAAAAC
Found at i:6122471 original size:303 final size:302
Alignment explanation
Indices: 6121999--6122898 Score: 1144
Period size: 303 Copynumber: 3.0 Consensus size: 302
6121989 TTTTTGGCTC
* * * * * * * ***
6121999 AAAACGCCTTTAATATTCCAAACGATAACTTTTAAT-GATTAAATTATTGAAGGTAATTATATCC
1 AAAATGCCATTAATATTCCAGACGATAAATTTTGATAG-TCAGATTATTGAAGGCGGTTATATCC
* * * * * * *
6122063 ATAAGCACCTTAAATAAAATTTTGTTAGGGATTATTCAAGGCGTTACCCTTAGGAAAATGCCCTT
65 AAAAACACCTTTAATAACATTTTGTTATGGATTATTCAAGGCGTTACTCGTAGGAAAATGCCCTT
* * ** * *
6122128 CATAATCCATTCCATTAAATTTTAGTTGCTATTATTGAAGGCATTTTTTTAAAATGCTTTTAATA
130 CATAATCCATTCGATT-AATTTTAGTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTCAATA
** * * * *
6122193 ATTTATACAAAAAAGACTCGACGGATTCTTGAATGTAGTTTTTGCCCAAAACGCCTTTAATATTC
194 ATCCATACAAAAAAG-CTCGACAGATTCTTGAAGGTATTTTTTTCCCAAAACGCCTTTAATATTC
6122258 CACACAATAAATTTTTAGTGGGATTATTAAAGGCAATTTTGGT-A
258 CACACAATAAATTTTTAGTGGGATTATTAAAGGCAATTTTGGTAA
* * **
6122302 AAAATGCCATTAATATTTCAGATGATAAATTTTGATAGTTGGATTATTGAAGGCGGTTATATCCA
1 AAAATGCCATTAATATTCCAGACGATAAATTTTGATAGTCAGATTATTGAAGGCGGTTATATCCA
* * * * * ** *
6122367 GAAACACCTTTAATAACATTTTGTTATGGATTATTTAAAGCATTACTAGTAGGAAAACACCCTTT
66 AAAACACCTTTAATAACATTTTGTTATGGATTATTCAAGGCGTTACTCGTAGGAAAATGCCCTTC
*
6122432 ATAATCCATTCGATTAATCTTTACTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTCAATAA
131 ATAATCCATTCGATTAAT-TTTAGTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTCAATAA
* *
6122497 TCCATACAAAAAAGGCACGACAGATTCTTGAAGGTATTTTTTTTCCAAAACGCCTTTAATATTCC
195 TCCATACAAAAAA-GCTCGACAGATTCTTGAAGGTATTTTTTTCCCAAAACGCCTTTAATATTCC
*
6122562 ACACAATAAATTTTTAGTGGGATTATTAAAGGTAATTTTGGTAAAA
259 ACACAATAAATTTTTAGTGGGATTATTAAAGGCAATTTTGGT--AA
* *
6122608 AAAATGCCATTAATATTCCTGACGATAAATTTTGATGGTCAGATTATTGAAGGCGGTTATATCCA
1 AAAATGCCATTAATATTCCAGACGATAAATTTTGATAGTCAGATTATTGAAGGCGGTTATATCCA
* *
6122673 AAAACA-TTTTCAATAACATTTTGTTATGGATTATTCAAGGCGTTACTCGTAGAAAAATGCCCTT
66 AAAACACCTTT-AATAACATTTTGTTATGGATTATTCAAGGCGTTACTCGTAGGAAAATGCCCTT
* *
6122737 CATAATCCATTCGATT-TTTTTAGTTGGTATTATTGAAGGCATTTTTGTAAAACACCTTCAATAA
130 CATAATCCATTCGATTAATTTTAGTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTCAATAA
* * * *
6122801 TCCATAAAAAAAAGGTGCGACAGATTCTTGAAGGCATTTTTTTTCTCAAAACGCCTTTAATATTC
195 TCCATACAAAAAAGCT-CGACAGATTCTTGAAGGTA-TTTTTTTCCCAAAACGCCTTTAATATTC
* * *
6122866 CACACAATTAATTTTT-GGGGTGATTATTGAAGG
258 CACACAATAAATTTTTAGTGG-GATTATTAAAGG
6122899 TGGTTTTGGT
Statistics
Matches: 517, Mismatches: 70, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
302 3 0.01
303 253 0.49
304 79 0.15
305 56 0.11
306 126 0.24
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (302 bp):
AAAATGCCATTAATATTCCAGACGATAAATTTTGATAGTCAGATTATTGAAGGCGGTTATATCCA
AAAACACCTTTAATAACATTTTGTTATGGATTATTCAAGGCGTTACTCGTAGGAAAATGCCCTTC
ATAATCCATTCGATTAATTTTAGTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTCAATAAT
CCATACAAAAAAGCTCGACAGATTCTTGAAGGTATTTTTTTCCCAAAACGCCTTTAATATTCCAC
ACAATAAATTTTTAGTGGGATTATTAAAGGCAATTTTGGTAA
Found at i:6123055 original size:35 final size:35
Alignment explanation
Indices: 6123016--6123085 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
6123006 TATTTGTCAA
* ** *
6123016 GTCAGTTATAGGTTTATGCCCAAAAAACATTTGCT
1 GTCAGTTATAGATCAATACCCAAAAAACATTTGCT
* *
6123051 GTCAGTTGTATATCAATACCCAAAAAACATTTGCT
1 GTCAGTTATAGATCAATACCCAAAAAACATTTGCT
6123086 TTTTATATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (35 bp):
GTCAGTTATAGATCAATACCCAAAAAACATTTGCT
Found at i:6123867 original size:20 final size:21
Alignment explanation
Indices: 6123820--6123869 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
6123810 TAAATTCAAA
6123820 AGAAA-AAAATTACTTAATAC
1 AGAAATAAAATTACTTAATAC
* **
6123840 ATAAATAAAATTACTT-ATGT
1 AGAAATAAAATTACTTAATAC
6123860 AGAAATAAAA
1 AGAAATAAAA
6123870 GATATATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (21 bp):
AGAAATAAAATTACTTAATAC
Found at i:6124427 original size:8 final size:8
Alignment explanation
Indices: 6124414--6124447 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
6124404 GCCCATTTTA
6124414 TTTGTATT
1 TTTGTATT
6124422 TTTGTATT
1 TTTGTATT
6124430 TTT-TATT
1 TTTGTATT
6124437 TTTGTATT
1 TTTGTATT
6124445 TTT
1 TTT
6124448 TTTCGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (8 bp):
TTTGTATT
Done.