Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 107 of 226
Found at i:36776859 original size:29 final size:28
Alignment explanation
Indices: 36776800--36776877 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
36776790 CTCTTTCCAA
36776800 TATTTTAACATTTTAATTTATCTCAACT
1 TATTTTAACATTTTAATTTATCTCAACT
* *
36776828 TATTTCAACATTGTTAATTTAT-TCAAATT
1 TATTTTAACATT-TTAATTTATCTC-AACT
*
36776857 TATTTTAACCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
36776878 ACATATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (28 bp):
TATTTTAACATTTTAATTTATCTCAACT
Found at i:36779589 original size:8 final size:8
Alignment explanation
Indices: 36779576--36779602 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
36779566 TCCATACTAC
36779576 GACTTGGA
1 GACTTGGA
36779584 GACTTGGA
1 GACTTGGA
36779592 GACTTGGA
1 GACTTGGA
36779600 GAC
1 GAC
36779603 GTACAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (8 bp):
GACTTGGA
Found at i:36781228 original size:12 final size:12
Alignment explanation
Indices: 36781207--36781256 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
36781197 AAAAACGAAA
*
36781207 TGATTAAAAACT
1 TGATGAAAAACT
* *
36781219 TGATGGAAAATT
1 TGATGAAAAACT
*
36781231 TTATGAAAAGACT
1 TGATGAAAA-ACT
36781244 TGATGAAAAACT
1 TGATGAAAAACT
36781256 T
1 T
36781257 AAAAAGTACT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:36781346 original size:18 final size:18
Alignment explanation
Indices: 36781323--36781360 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36781313 AGAACTAAAT
*
36781323 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
36781341 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
36781359 GA
1 GA
36781361 CTTAATTGAA
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:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:36782742 original size:22 final size:20
Alignment explanation
Indices: 36782689--36782749 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 20
36782679 GTTTTCCTGC
*
36782689 AAAAATAAAA-ATG-AAAAT
1 AAAAATAAAATAGGAAAAAT
36782707 -AAAATAAAATAGGAAAAAT
1 AAAAATAAAATAGGAAAAAT
36782726 AAATAATAATAATAGGAAAAAT
1 AAA-AATAA-AATAGGAAAAAT
36782748 AA
1 AA
36782750 TTTTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 9 0.24
18 2 0.05
19 5 0.14
20 2 0.05
21 5 0.14
22 14 0.38
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAAATAAAATAGGAAAAAT
Found at i:36787415 original size:18 final size:18
Alignment explanation
Indices: 36787392--36787429 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36787382 TGAACTAAAT
*
36787392 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
36787410 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
36787428 GA
1 GA
36787430 CTTAATTGAA
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:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:36790051 original size:30 final size:30
Alignment explanation
Indices: 36789998--36790125 Score: 143
Period size: 30 Copynumber: 4.3 Consensus size: 30
36789988 TGCAAATTCA
* * *
36789998 ACCCTATAATCATTCAT-AGTTACACATCAT
1 ACCCTGTAATCATTC-TCAATTACATATCAT
*
36790028 ACCTTGTAATCATTCTCAATTACATATCAT
1 ACCCTGTAATCATTCTCAATTACATATCAT
* * *
36790058 GCCCTATAATCATTTTCAATTACATATCAT
1 ACCCTGTAATCATTCTCAATTACATATCAT
* *
36790088 ACCCTGTAACCATT-TGAAATTACATATCAT
1 ACCCTGTAATCATTCT-CAATTACATATCAT
36790118 ACCCTGTA
1 ACCCTGTA
36790126 CAATGTGTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 2 0.02
30 82 0.98
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
ACCCTGTAATCATTCTCAATTACATATCAT
Found at i:36795566 original size:2 final size:2
Alignment explanation
Indices: 36795559--36795593 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
36795549 GAGGTTTGAT
36795559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36795594 GTTTATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36795836 original size:41 final size:42
Alignment explanation
Indices: 36795748--36795840 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
36795738 GGCTTAGCGC
* *
36795748 CTAGCAGGCTTATTGCCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATACGT
* * * *
36795790 CTAGCAGGCTTAATGCCGGTGAAAC-ATTTTAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATACGT
36795831 CTAGCAGGCT
1 CTAGCAGGCT
36795841 AAGTACCAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 22 0.49
42 23 0.51
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATACGT
Found at i:36802413 original size:76 final size:75
Alignment explanation
Indices: 36802238--36802605 Score: 220
Period size: 76 Copynumber: 5.0 Consensus size: 75
36802228 ACCGTAGCAA
* * * * *
36802238 TGTTTTGCTCCCAGCGCTAGTCGGATAAATTGAC-A-A-T--AGGTGTGCCCAGCACTGGTCGGG
1 TGTTTTGCACCCAGCGCTAGTCGGATAAACTGACGATATTAAATGTGTGCCCAGCACTAGT-GGA
* * *
36802298 TAAACCGACAA
65 TAAACCAATAT
**** * ** *
36802309 TGTTTTATGGCCAGTGCTAGTCAAATAAACTGACGATATTAAATCTGTGCCCAGCACTAGTAGGA
1 TGTTTTGCACCCAGCGCTAGTCGGATAAACTGACGATATTAAATGTGTGCCCAGCACTAGT-GGA
36802374 TAAACCAATAT
65 TAAACCAATAT
*** * * * *
36802385 TGTTTTGCGTTCAGCGCTAGTTGGATAAA-TCGAC-A-A-TAGA--TGTGCCCAGCACTGGTCGA
1 TGTTTTGCACCCAGCGCTAGTCGGATAAACT-GACGATATTAAATGTGTGCCCAGCACTAGTGGA
* * * *
36802444 GTAAATCGACAA
65 -TAAACCAATAT
* * * ** *
36802456 TGTTTTGCACCCAACGCAAGTCGGAT-AATTGATTATATTAAATGTGTGCCCAACACTAGTCGGA
1 TGTTTTGCACCCAGCGCTAGTCGGATAAACTGACGATATTAAATGTGTGCCCAGCACTAGT-GGA
***
36802520 TAAATTGATAT
65 TAAACCAATAT
* * * * *
36802531 TGCTTTGCACCCAGTGCTAGTCGGATAAACTGATGATATTAAATGTGTGCCCAGCACAAGTTGGT
1 TGTTTTGCACCCAGCGCTAGTCGGATAAACTGACGATATTAAATGTGTGCCCAGCACTAG-TGGA
*
36802596 TAGACCAATA
65 TAAACCAATA
36802606 ATTATCTGTA
Statistics
Matches: 223, Mismatches: 58, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
70 6 0.03
71 70 0.31
72 2 0.01
73 7 0.03
74 2 0.01
75 46 0.21
76 89 0.40
77 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (75 bp):
TGTTTTGCACCCAGCGCTAGTCGGATAAACTGACGATATTAAATGTGTGCCCAGCACTAGTGGAT
AAACCAATAT
Found at i:36802460 original size:71 final size:70
Alignment explanation
Indices: 36802225--36802483 Score: 207
Period size: 71 Copynumber: 3.6 Consensus size: 70
36802215 GCCTAACGAA
* *
36802225 TAAACCGTAGCAATGTTTTGC-TCCCAGCGCTAGTCGGATAAATTGACAATAGGTGTGCCCAGCA
1 TAAACCG-A-CAATGTTTTGCGT-CCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCA
36802289 CTGGTCGGG
63 CTGGTC-GG
** * * ** *
36802298 TAAACCGACAATGTTTTATGGCCAGTGCTAGTCAAATAAA-CTGACGATATTAAATCTGTGCCCA
1 TAAACCGACAATGTTTTGCGTCCAGCGCTAGTCGGATAAATC-GAC-A-A-TAGA--TGTGCCCA
* *
36802362 GCACTAGTAGG
60 GCACTGGTCGG
* * * * *
36802373 ATAAACCAATATTGTTTTGCGTTCAGCGCTAGTTGGATAAATCGACAATAGATGTGCCCAGCACT
1 -TAAACCGACAATGTTTTGCGTCCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCACT
36802438 GGTCGAG
65 GGTCG-G
* ** * *
36802445 TAAATCGACAATGTTTTGCACCCAACGCAAGTCGGATAA
1 TAAACCGACAATGTTTTGCGTCCAGCGCTAGTCGGATAA
36802484 TTGATTATAT
Statistics
Matches: 141, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
71 73 0.52
72 3 0.02
73 11 0.08
74 3 0.02
75 3 0.02
76 47 0.33
77 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (70 bp):
TAAACCGACAATGTTTTGCGTCCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCACTG
GTCGG
Found at i:36802557 original size:146 final size:147
Alignment explanation
Indices: 36802241--36802559 Score: 370
Period size: 147 Copynumber: 2.2 Consensus size: 147
36802231 GTAGCAATGT
* * * *
36802241 TTTGCTCCCAGCGCTAGTCGGATAAATTGACAATAGGTGTGCCCAGCACTGGTCGGGTAAACCGA
1 TTTGCACCCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGA
*** ** * *
36802306 CAATGTTTTATGGCCAGTGCTAGTCAAATAAACTGACGATATTAAATCTGTGCCCAGCACTAGTA
66 CAATGTTTTACACCCAACGCAAGTCAAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTA
*
36802371 GGATAAACCAATATTGT
131 GGATAAACCAATATTGC
*** * *
36802388 TTTGCGTTCAGCGCTAGTTGGATAAATCGACAATAGATGTGCCCAGCACTGGTCGAGTAAATCGA
1 TTTGCACCCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGA
* ** * ** * *
36802453 CAATGTTTTGCACCCAACGCAAGTCGGAT-AATTGATTATATTAAATGTGTGCCCAACACTAGTC
66 CAATGTTTTACACCCAACGCAAGTCAAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTA
***
36802517 GGATAAATTGATATTGC
131 GGATAAACCAATATTGC
*
36802534 TTTGCACCCAGTGCTAGTCGGATAAA
1 TTTGCACCCAGCGCTAGTCGGATAAA
36802560 CTGATGATAT
Statistics
Matches: 140, Mismatches: 32, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
146 63 0.45
147 77 0.55
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (147 bp):
TTTGCACCCAGCGCTAGTCGGATAAATCGACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGA
CAATGTTTTACACCCAACGCAAGTCAAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTA
GGATAAACCAATATTGC
Found at i:36804577 original size:3 final size:3
Alignment explanation
Indices: 36804569--36804747 Score: 322
Period size: 3 Copynumber: 59.7 Consensus size: 3
36804559 GATCTTAACA
*
36804569 AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
36804617 AAG AAG AAG AAA AAG AAG AGG AAG AAG AGG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
36804665 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
36804713 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
36804748 TAGAATGTTC
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 168 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36819890 original size:26 final size:26
Alignment explanation
Indices: 36819855--36819916 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
36819845 CTTACAAGCC
36819855 ATAC-TAATCATGCCAAAATAGTTTA
1 ATACATAATCATGCCAAAATAGTTTA
*
36819880 ATACATAATCATGCCAAAATATTTTA
1 ATACATAATCATGCCAAAATAGTTTA
36819906 ATACATAATCA
1 ATACATAATCA
36819917 CACTTACAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (26 bp):
ATACATAATCATGCCAAAATAGTTTA
Found at i:36823686 original size:17 final size:17
Alignment explanation
Indices: 36823635--36823686 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 17
36823625 ATCTTTTCCA
*
36823635 TCTATCTTATTTATTAT
1 TCTATTTTATTTATTAT
*
36823652 TCTAACTCTTTGATTTATTGT
1 TCT-A-T-TTT-ATTTATTAT
36823673 TCTATTTTATTTAT
1 TCTATTTTATTTAT
36823687 CTTAGTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.31
18 4 0.14
19 2 0.07
20 3 0.10
21 11 0.38
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (17 bp):
TCTATTTTATTTATTAT
Found at i:36823723 original size:12 final size:13
Alignment explanation
Indices: 36823700--36823724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36823690 AGTTATTTAA
36823700 TTTAATTTTTTTC
1 TTTAATTTTTTTC
36823713 TTTAATTTTTTT
1 TTTAATTTTTTT
36823725 ATTTGACTTA
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTAATTTTTTTC
Found at i:36825910 original size:20 final size:20
Alignment explanation
Indices: 36825887--36825924 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36825877 AAAAGCATAC
*
36825887 AAAATTTTAAAATTATATTA
1 AAAATTATAAAATTATATTA
36825907 AAAATTATAAAATTATAT
1 AAAATTATAAAATTATAT
36825925 AGAATTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATAAAATTATATTA
Found at i:36825936 original size:18 final size:20
Alignment explanation
Indices: 36825895--36825936 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
36825885 ACAAAATTTT
*
36825895 AAAATTATATTAAAAATTAT
1 AAAATTATATTAAAAATTAC
*
36825915 AAAATTATA-T-AGAATTAC
1 AAAATTATATTAAAAATTAC
36825933 AAAA
1 AAAA
36825937 ATCTAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATTATATTAAAAATTAC
Found at i:36826437 original size:18 final size:18
Alignment explanation
Indices: 36826412--36826452 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
36826402 ATATTTCTAT
*
36826412 ATTTTTTAATTTTTATAA
1 ATTTTTAAATTTTTATAA
36826430 CATTTTTAAATTTTTATAA
1 -ATTTTTAAATTTTTATAA
36826449 ATTT
1 ATTT
36826453 AAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTAAATTTTTATAA
Found at i:36826461 original size:19 final size:19
Alignment explanation
Indices: 36826419--36826463 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36826409 TATATTTTTT
**
36826419 AATTTTTATAACATTTTTA
1 AATTTTTATAACATTTAAA
36826438 AATTTTTATAA-ATTTAAA
1 AATTTTTATAACATTTAAA
36826456 ATATTTTT
1 A-ATTTTT
36826464 TTTCTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTTATAACATTTAAA
Found at i:36826533 original size:18 final size:17
Alignment explanation
Indices: 36826498--36826546 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
36826488 TAAATTTTCT
36826498 TTTATAA-A-TTTTATA
1 TTTATAATATTTTTATA
36826513 TTTCAT-ATATTTTTATAA
1 TTT-ATAATATTTTTAT-A
*
36826531 TTTTTAATATTTTTAT
1 TTTATAATATTTTTAT
36826547 TGATTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 7 0.25
18 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATAATATTTTTATA
Found at i:36827797 original size:19 final size:19
Alignment explanation
Indices: 36827756--36827821 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
36827746 AAAAATATAA
*
36827756 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAA-TTTTAGAAATT
*
36827776 ATTTTGAGTTTTAGAAATT
1 ATTTTGAATTTTAGAAATT
*
36827795 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTAG-AAATT
36827815 ATTTTGA
1 ATTTTGA
36827822 TTCTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 17 0.43
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTAGAAATT
Found at i:36827813 original size:20 final size:20
Alignment explanation
Indices: 36827756--36827821 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
36827746 AAAAATATAA
36827756 ATTTTAGAATTTTT-ATAAA-T
1 ATTTT-GAATTTTTGA-AAATT
* *
36827776 ATTTTGAGTTTTAG-AAATT
1 ATTTTGAATTTTTGAAAATT
36827795 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
36827815 ATTTTGA
1 ATTTTGA
36827822 TTCTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.08
19 19 0.49
20 17 0.44
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:36828958 original size:11 final size:11
Alignment explanation
Indices: 36828936--36828986 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
36828926 AACTAATCCT
36828936 CTCTCAAATTTC
1 CTCTC-AATTTC
36828948 CTCTCAATTTC
1 CTCTCAATTTC
*
36828959 CTCTTAATTTC
1 CTCTCAATTTC
*
36828970 CTCTCAAGTTC
1 CTCTCAATTTC
36828981 CT-TCAA
1 CTCTCAA
36828987 AAATTCTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 4 0.11
11 27 0.75
12 5 0.14
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:36829009 original size:11 final size:11
Alignment explanation
Indices: 36828990--36829031 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
36828980 CCTTCAAAAA
36828990 TTCTCTTAAGT
1 TTCTCTTAAGT
*
36829001 TTTTCTTAAGT
1 TTCTCTTAAGT
*
36829012 TCCTCTTAAGT
1 TTCTCTTAAGT
36829023 TTCTCTTAA
1 TTCTCTTAA
36829032 CTCTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:36830195 original size:7 final size:7
Alignment explanation
Indices: 36830183--36830207 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36830173 AGTCGATTGA
36830183 TATTTAG
1 TATTTAG
36830190 TATTTAG
1 TATTTAG
36830197 TATTTAG
1 TATTTAG
36830204 TATT
1 TATT
36830208 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:36831324 original size:44 final size:45
Alignment explanation
Indices: 36831275--36831361 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
36831265 TTATTTTGAA
*
36831275 TATTTTGATATTATTTTATGTAA-AAGAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAA-AATAGAAATTTATTTGAGT
*
36831319 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
36831362 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 32 0.82
45 7 0.18
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:36831389 original size:30 final size:25
Alignment explanation
Indices: 36831329--36831396 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
36831319 TATTTTGATA
36831329 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
36831354 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* * *
36831379 CTATTTTATTTAATAAAA
1 TTATTTGATGTAATAAAA
36831397 ACCCTAACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:36831444 original size:23 final size:23
Alignment explanation
Indices: 36831386--36831878 Score: 249
Period size: 23 Copynumber: 19.8 Consensus size: 23
36831376 AGTCTATTTT
*
36831386 ATTTAA-TAAAAACCCTAACTTA
1 ATTTAATTAAAAACCCTAACCTA
****
36831408 ATTTAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
36831431 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATT--AAA----AACCCTAACCTA
36831460 ATTTAATTAAAAACCCTAACCTTA
1 ATTTAATTAAAAACCCTAACC-TA
**
36831484 ACCTAATTTAATACAGAACCCTAACCTA
1 ATTTAA-TT-A-A-A-AACCCTAACCTA
*
36831512 ATTTAA-TACAAAACCCTACCCTA
1 ATTTAATTA-AAAACCCTAACCTA
**
36831535 ATTGGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATT--AAA----AACCCTAACCTA
36831564 ATTTAATTAAAAATCCTAACCCTAACCTA
1 ATTTAATT--AAA----AACCCTAACCTA
36831593 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATT--AAA----AACCCTAACCTA
**
36831622 ATTTAATTAAAAATTCTAAACC--
1 ATTTAATTAAAAACCCT-AACCTA
36831644 --TTAACTTAAAAACCCTAAACCTTA
1 ATTTAA-TTAAAAACCCT-AACC-TA
*
36831668 A-CT--TTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
36831688 ATTTAA-TACAAAACCCTAACCTA
1 ATTTAATTA-AAAACCCTAACCTA
*
36831711 ATTTAA-TACAAAACCCTACCCTA
1 ATTTAATTA-AAAACCCTAACCTA
36831734 ATTTAATTAAAAACCCTAACCCTACCCTA
1 ATTTAATTAAAAACCCT-A----A-CCTA
36831763 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATT--AAA----AACCCTAACCTA
36831792 ATTTAATTAAAAACCCTAAACCTTA
1 ATTTAATTAAAAACCCT-AACC-TA
* *
36831817 A-CT--TTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTA
****
36831837 ATTTAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
36831860 ATTTAATTAAAAACCCTAA
1 ATTTAATTAAAAACCCTAA
36831879 ACAAAGTTAA
Statistics
Matches: 382, Mismatches: 41, Indels: 95
0.74 0.08 0.18
Matches are distributed among these distances:
20 10 0.03
21 23 0.06
22 30 0.08
23 130 0.34
24 20 0.05
25 11 0.03
26 3 0.01
27 10 0.03
28 7 0.02
29 127 0.33
30 1 0.00
31 3 0.01
34 1 0.00
35 6 0.02
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (23 bp):
ATTTAATTAAAAACCCTAACCTA
Found at i:36831674 original size:22 final size:21
Alignment explanation
Indices: 36831624--36831683 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
36831614 CTAACCTAAT
**
36831624 TTAA-TTAAAAATTCTAAACC
1 TTAACTTAAAAACCCTAAACC
36831644 TTAACTTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
36831665 TTAACTTTAAAAACCCTAA
1 TTAAC-TTAAAAACCCTAA
36831684 CCTAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.11
21 19 0.53
22 13 0.36
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:36831798 original size:29 final size:29
Alignment explanation
Indices: 36831412--36831810 Score: 311
Period size: 29 Copynumber: 15.3 Consensus size: 29
36831402 AACTTAATTT
36831412 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
36831442 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
36831471 AACCCTAACCTTAACCTAATTTAA-T---
1 AACCCTAACCCTAACCTAATTTAATTAAA
**
36831496 -A-CAGAACCCTAACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
**
36831523 AACCCT-A--C---CCTAATTGGATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
36831546 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
36831575 AATCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
36831604 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
**
36831633 AATTCT-A----AACC----TTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
* *
36831654 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
36831676 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
36831699 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
36831722 AACCCT-A--C---CCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
36831745 AACCCTAACCCTACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
36831774 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
36831803 AACCCTAA
1 AACCCTAA
36831811 ACCTTAACTT
Statistics
Matches: 313, Mismatches: 19, Indels: 75
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.02
21 11 0.04
22 14 0.04
23 85 0.27
24 11 0.04
25 1 0.00
26 3 0.01
28 4 0.01
29 171 0.55
30 6 0.02
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:36835262 original size:126 final size:126
Alignment explanation
Indices: 36835036--36835389 Score: 591
Period size: 126 Copynumber: 2.8 Consensus size: 126
36835026 ACCAAACATG
*
36835036 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
36835101 TAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * * * *
36835162 TTACTGTAGCAAAAGTGCGTCCTCGAGGGCGCGATTTCACAATTTCTTCTCACATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
36835227 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * *
36835288 CTACAGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCCCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
36835353 TAGAAGCGATTTTATACTATTTGATTAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
36835390 CTCGAAATTA
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 210 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:36836430 original size:22 final size:21
Alignment explanation
Indices: 36836392--36836434 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
36836382 TTTTATAAGA
*
36836392 AATTTATCTTTTAAATAGAAAT
1 AATTTATCTATTAAATA-AAAT
36836414 AATTTATACTATT-AATAAAAT
1 AATTTAT-CTATTAAATAAAAT
36836435 CTCTAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTATCTATTAAATAAAAT
Found at i:36837050 original size:18 final size:18
Alignment explanation
Indices: 36837027--36837062 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36837017 AGCAAAACTT
*
36837027 TATTTTGATTTTCTTATG
1 TATTTTAATTTTCTTATG
*
36837045 TATTTTAATTTTTTTATG
1 TATTTTAATTTTCTTATG
36837063 CACACTATAA
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:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
TATTTTAATTTTCTTATG
Found at i:36837704 original size:18 final size:18
Alignment explanation
Indices: 36837684--36837727 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
36837674 TAGTATAAAT
36837684 TTTTTTATTTTTT-ATAA
1 TTTTTTATTTTTTAATAA
**
36837701 TTTTGAATTTTTTAATAAA
1 TTTTTTATTTTTTAAT-AA
36837720 TTTTTTAT
1 TTTTTTAT
36837728 AGTTTTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 11 0.52
18 2 0.10
19 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTATTTTTTAATAA
Found at i:36839634 original size:3 final size:3
Alignment explanation
Indices: 36839626--36839673 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
36839616 AAAGAGTCTA
*
36839626 ATT ATT ATT ATT ATT CTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36839674 TTGTAATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36861066 original size:29 final size:29
Alignment explanation
Indices: 36861024--36861350 Score: 352
Period size: 29 Copynumber: 11.2 Consensus size: 29
36861014 GTGCTAAACA
* * *
36861024 ATGGTCATAACCATCCCTTTTCATATTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
36861053 ATGGTTGTCACCATCCCTTTTCATA-TTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTT-G
* ** * *
36861082 ATGGTTGGAACCATCCCTTTTCATTAATCG
1 ATGGTCGTCACCATCCCTTTTCA-TAGTTG
36861112 ATGGTCGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
* *
36861141 ATGGTCATCACCATCCCTTTTCATAGTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
* *** * *
36861170 ATAGTCAAAACTATCCCTTTTCATA-TTCA
1 ATGGTCGTCACCATCCCTTTTCATAGTT-G
* * *
36861199 ATTGTCGTCACTATCCATTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
36861228 ATGGTTGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
* ** * *
36861257 ATAGTCGAAACTATCCCTTTTCATATTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
36861286 ATGGTCGTCACCATTCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
36861315 ATGGTCGTCCCCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
36861344 ATAGTCG
1 ATGGTCG
36861351 AATTTATCCC
Statistics
Matches: 249, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
28 3 0.01
29 220 0.88
30 25 0.10
31 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTG
Found at i:36861244 original size:87 final size:87
Alignment explanation
Indices: 36861022--36861375 Score: 474
Period size: 87 Copynumber: 4.1 Consensus size: 87
36861012 GTGTGCTAAA
* * * * * *
36861022 CAATGGTCATAACCATCCCTTTTCATATTTGATGGTTGTCACCATCCCTTTTCATATTCGATGGT
1 CAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGT
* * * *
36861087 TGGAACCATCCCTTTTCATTAAT
66 CGAAACTATCCCTTTTCA-TATT
* *
36861110 CGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAGTCGATAGT
1 CAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGT
*
36861175 CAAAACTATCCCTTTTCATATT
66 CGAAACTATCCCTTTTCATATT
* * * * *
36861197 CAATTGTCGTCACTATCCATTTTCATAGTTGATGGTTGTCACCATCCCTTTTCATAGTTGATAGT
1 CAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGT
36861262 CGAAACTATCCCTTTTCATATT
66 CGAAACTATCCCTTTTCATATT
** * * *
36861284 TGATGGTCGTCACCATTCCTTTTCATAGTTGATGGTCGTCCCCATCCCTTTTCATAGTTGATAGT
1 CAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGT
**
36861349 CGAATTTATCCCTTTTCATATT
66 CGAAACTATCCCTTTTCATATT
36861371 CAATG
1 CAATG
36861376 CTCATCGATA
Statistics
Matches: 233, Mismatches: 33, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
87 162 0.70
88 71 0.30
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (87 bp):
CAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGT
CGAAACTATCCCTTTTCATATT
Found at i:36863175 original size:19 final size:19
Alignment explanation
Indices: 36863124--36863179 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
36863114 AAAGTAAATT
36863124 AAAAAAA-ATGAAA--AAA
1 AAAAAAACATGAAATGAAA
36863140 AAAAGAAACAATGGAAATGAAA
1 AAAA-AAAC-AT-GAAATGAAA
36863162 AAAAAAACATGAAATGAA
1 AAAAAAACATGAAATGAA
36863180 TTTTAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
19 10 0.29
20 6 0.18
21 4 0.12
22 7 0.21
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.09
Consensus pattern (19 bp):
AAAAAAACATGAAATGAAA
Found at i:36864845 original size:15 final size:17
Alignment explanation
Indices: 36864825--36864861 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
36864815 ATTATTTTTG
36864825 AATAAAT-AATCAG-TT
1 AATAAATAAATCAGTTT
36864840 AATAAATAAATCAGTTT
1 AATAAATAAATCAGTTT
36864857 AATAA
1 AATAA
36864862 TCGAATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 6 0.30
17 7 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (17 bp):
AATAAATAAATCAGTTT
Found at i:36871278 original size:38 final size:39
Alignment explanation
Indices: 36871236--36871313 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
36871226 CTTATCACAT
*
36871236 ATTAAAGATGTTCAAATTATGACATAGTTAAA-ACTCAA
1 ATTAAAGATGTTCAAATTATGACATAATTAAAGACTCAA
* *
36871274 ATTAATGATGTTCAAATTATGGCATAATTAAAGACTCAA
1 ATTAAAGATGTTCAAATTATGACATAATTAAAGACTCAA
36871313 A
1 A
36871314 CTTTAATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (39 bp):
ATTAAAGATGTTCAAATTATGACATAATTAAAGACTCAA
Found at i:36875857 original size:19 final size:21
Alignment explanation
Indices: 36875833--36875877 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
36875823 ATTTTAATAT
36875833 TTTTTTGGATATAAA-AAAG-
1 TTTTTTGGATATAAATAAAGA
**
36875852 TTTTTTTTATATAAATAAAGA
1 TTTTTTGGATATAAATAAAGA
36875873 TTTTT
1 TTTTT
36875878 CTATTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 4 0.18
21 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTTTTGGATATAAATAAAGA
Found at i:36880901 original size:41 final size:41
Alignment explanation
Indices: 36880856--36880961 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
36880846 AATTCGGCCA
* * *
36880856 AACATGTAGTAGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
*
36880897 AACATGTAGTGGCAGCATTAAATTCGTCTAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
36880938 AACATGTAGTGGCAGCATTAAATT
1 AACATGTAGTGGCAGCATTAAATT
36880962 TGACATATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
Found at i:36884560 original size:18 final size:18
Alignment explanation
Indices: 36884539--36884578 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
36884529 ATATTTAATT
36884539 TTTTAATAATTTTTTAGA
1 TTTTAATAATTTTTTAGA
* *
36884557 TTTTCATGATTTTTTAGA
1 TTTTAATAATTTTTTAGA
36884575 TTTT
1 TTTT
36884579 TAGGGCACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTAATAATTTTTTAGA
Found at i:36884622 original size:16 final size:16
Alignment explanation
Indices: 36884598--36884635 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
36884588 TTTGGTTCGC
* *
36884598 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
36884614 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
36884630 TGTAAT
1 TGTAAT
36884636 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:36884886 original size:16 final size:16
Alignment explanation
Indices: 36884849--36884889 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
36884839 TTAATCATAT
*
36884849 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
36884865 TT-AAATATATTATAA
1 TTAAAATATATTATAA
36884880 TTAAAATATA
1 TTAAAATATA
36884890 CAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:36884971 original size:107 final size:108
Alignment explanation
Indices: 36884847--36885057 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
36884837 ATTTAATCAT
36884847 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
* * *
36884912 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATACTTATATGAATTTACTAAAATCATAATATAGATA
*
36884955 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
36885019 ATCAATATACTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATACTTATATGAATTTACTAAAATCATAATATA
36885058 TAATACTATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 95 0.96
108 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
ATCAATATACTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:36884995 original size:16 final size:16
Alignment explanation
Indices: 36884952--36884997 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
36884942 CATAATATAG
*
36884952 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
36884968 ATTATT-AAATATATT
1 ATAATTAAAATATATT
36884983 ATAATTAAAATATAT
1 ATAATTAAAATATAT
36884998 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:36885004 original size:14 final size:15
Alignment explanation
Indices: 36884952--36885006 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
36884942 CATAATATAG
36884952 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
36884968 ATTATTAAATATATT
1 ATAATTAAATATATT
36884983 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
36884996 ATAATTTAATA
1 ATAATTAAATA
36885007 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:36885108 original size:107 final size:107
Alignment explanation
Indices: 36884850--36885113 Score: 335
Period size: 107 Copynumber: 2.5 Consensus size: 107
36884840 TAATCATATT
* * * *
36884850 TAAACATAATTATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * * *
36884915 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATACTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
36884958 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
36885023 ATATACTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATACTTATATGAATTTACTAAAATCATAATATA-AATAATA
36885066 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
36885114 ATATGATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
102 5 0.04
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 97 0.68
108 12 0.08
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATACTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:36885128 original size:59 final size:60
Alignment explanation
Indices: 36884952--36885130 Score: 152
Period size: 61 Copynumber: 3.0 Consensus size: 60
36884942 CATAATATAG
*
36884952 ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC
1 ATAATTTAACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAA-TC
* * * * * * * * * * *
36885013 TTAATAATCAATATACTT-ATA-TGAATTTACTAAAATCATAATATATAATACT-ATAAAAT-
1 ATAAT--TTAACATAATTAATATTAAATATATTATAATTAAAATATATAAT-TTAATAAAATC
* *
36885072 ATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 ATAATTT-AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
36885131 TTAAAATAAT
Statistics
Matches: 87, Mismatches: 24, Indels: 16
0.69 0.19 0.13
Matches are distributed among these distances:
57 6 0.07
58 6 0.07
59 31 0.36
60 1 0.01
61 32 0.37
62 3 0.03
63 8 0.09
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (60 bp):
ATAATTTAACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATC
Found at i:36888128 original size:21 final size:20
Alignment explanation
Indices: 36888104--36888165 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
36888094 TTGGAAATAA
36888104 AAGATGAAGAACGGAAGAAG
1 AAGATGAAGAACGGAAGAAG
*
36888124 TAAGAGGAAAAAGAA-GG-AGAAG
1 -AAGATG---AAGAACGGAAGAAG
*
36888146 AAGATGAAAAACGGAAGAAG
1 AAGATGAAGAACGGAAGAAG
36888166 GAGTAGGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 5 0.15
21 10 0.30
22 5 0.15
23 2 0.06
24 5 0.15
ACGTcount: A:0.58, C:0.03, G:0.34, T:0.05
Consensus pattern (20 bp):
AAGATGAAGAACGGAAGAAG
Found at i:36888465 original size:20 final size:22
Alignment explanation
Indices: 36888410--36888464 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
36888400 AACATGATGT
*
36888410 TATATTT--TAAAAATTTTATA
1 TATATTTAATAAAAATTATATA
36888430 TATATTTAATAAAAATTATATA
1 TATATTTAATAAAAATTATATA
*
36888452 T-TTTTTAATAAAA
1 TATATTTAATAAAA
36888465 TAAAGACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 7 0.23
21 11 0.35
22 13 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTTAATAAAAATTATATA
Found at i:36900108 original size:17 final size:17
Alignment explanation
Indices: 36900057--36900101 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
36900047 GCAATAATTG
36900057 ACGTTTTGAAAATGAATA
1 ACGTTTTGAAAA-GAATA
*
36900075 ACGTTTTGCAAGAGAATA
1 ACGTTTTG-AAAAGAATA
36900093 AC-TTTTGAA
1 ACGTTTTGAA
36900102 TACGAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 5 0.20
18 15 0.60
19 3 0.12
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (17 bp):
ACGTTTTGAAAAGAATA
Found at i:36908257 original size:25 final size:25
Alignment explanation
Indices: 36908197--36908257 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
36908187 CTCCTAAATT
*
36908197 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
36908222 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
36908247 TTAATTAAATT
1 TTAATTAAATT
36908258 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:36920935 original size:2 final size:2
Alignment explanation
Indices: 36920928--36920957 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36920918 TGACGTGTAA
36920928 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
36920958 GTTGATTCAA
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:36929692 original size:8 final size:8
Alignment explanation
Indices: 36929679--36929730 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
36929669 TTTAAGATTT
36929679 ATTATAAA
1 ATTATAAA
36929687 ATTATAAA
1 ATTATAAA
36929695 ATTATTAAAA
1 ATTA-T-AAA
*
36929705 ATTTATCAA
1 A-TTATAAA
36929714 ATTAT-AA
1 ATTATAAA
36929721 ATCTATAAA
1 AT-TATAAA
36929730 A
1 A
36929731 AGTATTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.11
8 19 0.50
9 7 0.18
10 5 0.13
11 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTATAAA
Found at i:36929701 original size:19 final size:19
Alignment explanation
Indices: 36929677--36929718 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
36929667 TTTTTAAGAT
36929677 TTATTATAAAA-TTATAAAA
1 TTATTA-AAAATTTATAAAA
*
36929696 TTATTAAAAATTTATCAAA
1 TTATTAAAAATTTATAAAA
36929715 TTAT
1 TTAT
36929719 AAATCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATTAAAAATTTATAAAA
Found at i:36929731 original size:27 final size:27
Alignment explanation
Indices: 36929680--36929749 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
36929670 TTAAGATTTA
*
36929680 TTATAAAATTATAAAATTATTAAAAAT
1 TTATAAAATTATAAAATTATAAAAAAT
* *
36929707 TTATCAAATTAT-AAATCTATAAAAAGT
1 TTATAAAATTATAAAAT-TATAAAAAAT
*
36929734 ATTA-AAAACTATAAAA
1 -TTATAAAATTATAAAA
36929750 AAAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.11
27 25 0.71
28 6 0.17
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
TTATAAAATTATAAAATTATAAAAAAT
Found at i:36929858 original size:6 final size:6
Alignment explanation
Indices: 36929847--36929875 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36929837 AAACCATAAA
36929847 AATTTG AATTTG AATTTG AATTTG AATTT
1 AATTTG AATTTG AATTTG AATTTG AATTT
36929876 AAAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
AATTTG
Found at i:36930039 original size:20 final size:20
Alignment explanation
Indices: 36929989--36930045 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
36929979 AAAATTATGA
* *
36929989 TTTATTTTTATAATTTGT-G
1 TTTATTTTTATAATTTTTAC
36930008 TTT-TTTTTATAATTTTTAC
1 TTTATTTTTATAATTTTTAC
*
36930027 TTTATTTTGATAATTTTTA
1 TTTATTTTTATAATTTTTA
36930046 TAAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.39
19 6 0.18
20 14 0.42
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTATTTTTATAATTTTTAC
Found at i:36932671 original size:25 final size:24
Alignment explanation
Indices: 36932634--36932681 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
36932624 GTCATTGATA
*
36932634 ATTTATATTGTGTTATTAT-TATGC
1 ATTTATAATGTGTT-TTATGTATGC
36932658 ATTTAATAATGTGTTTTATGTATG
1 ATTT-ATAATGTGTTTTATGTATG
36932682 GTAAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (24 bp):
ATTTATAATGTGTTTTATGTATGC
Found at i:36933765 original size:24 final size:24
Alignment explanation
Indices: 36933750--36933801 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36933740 AATCAAAGTC
36933750 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36933774 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36933798 AAAT
1 AAAT
36933802 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36938189 original size:24 final size:24
Alignment explanation
Indices: 36938174--36938225 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36938164 AATCAAAGTC
36938174 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36938198 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36938222 AAAT
1 AAAT
36938226 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36941041 original size:12 final size:12
Alignment explanation
Indices: 36941024--36941048 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36941014 TCGAATAAGC
36941024 ATGTATATATAT
1 ATGTATATATAT
36941036 ATGTATATATAT
1 ATGTATATATAT
36941048 A
1 A
36941049 ATGCTAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:36942050 original size:41 final size:41
Alignment explanation
Indices: 36941917--36942029 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
36941907 GACTTTAAGT
**
36941917 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
36941958 CTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
36941999 CTAGCAGGCTACGTGCCAGTGATCTAAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
36942030 AGCTATAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:36946910 original size:43 final size:43
Alignment explanation
Indices: 36946848--36946983 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
36946838 TTTTAAAAAT
* *
36946848 AAACGCCGCTAAA-AGTCATGATCTTTAACGGCGCTT-TTCTCAC
1 AAACGCCGCTAAAGA-TCATGAACTTTAACGGCGCTTCTAC-CAC
*
36946891 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAACGGCGCTTCTACCAC
* * * * * *
36946934 AAACGCCGCTAAAGAACATGACCTTTAGCGACACTTATACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAACGGCGCTTCTACCAC
36946977 AAACGCC
1 AAACGCC
36946984 ACTGTAAATA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
43 80 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGAACTTTAACGGCGCTTCTACCAC
Found at i:36947042 original size:41 final size:41
Alignment explanation
Indices: 36946848--36947042 Score: 153
Period size: 43 Copynumber: 4.6 Consensus size: 41
36946838 TTTTAAAAAT
* * *
36946848 AAACGCCGCTAAAAGTCATGA-TCTTTAACGGCGCTTTTCTCAC
1 AAACGCCGCTAAAA-ACATGACT-TTTAGCGGCGCTTTT-ACAC
* *
36946891 AAACGCCGCTAAAGATCATGAAC-TTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAA-AACATG-ACTTTTAGCGGCGCTTTTA-CAC
* * * *
36946934 AAACGCCGCTAAAGAACATGACCTTTAGCGACACTTATACCAC
1 AAACGCCGCTAAA-AACATGACTTTTAGCGGCGCTTTTA-CAC
* ** * * *
36946977 AAACGCCACTGTAAATATGGCTTTTAGCAGCGCTTTTTA-AC
1 AAACGCCGCTAAAAACATGACTTTTAGCGGCGC-TTTTACAC
36947018 AAACGCCGCTAAAAACATGACTTTT
1 AAACGCCGCTAAAAACATGACTTTT
36947043 TAAAAAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 22 0.18
42 16 0.13
43 84 0.68
44 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAAAAACATGACTTTTAGCGGCGCTTTTACAC
Found at i:36950191 original size:22 final size:22
Alignment explanation
Indices: 36950137--36950202 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
36950127 GTATGTTTGT
* *
36950137 AAAGTTGGGGGTTTCAAGGGGGG
1 AAAGTTGGGGATTT-TAGGGGGG
*
36950160 AAA-TTAGGGATTTTAGGGGGG
1 AAAGTTGGGGATTTTAGGGGGG
*
36950181 AAAGTTGGGGA-TTTCGGGGGG
1 AAAGTTGGGGATTTTAGGGGGG
36950202 A
1 A
36950203 GGGGATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 20 0.54
22 14 0.38
23 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.48, T:0.24
Consensus pattern (22 bp):
AAAGTTGGGGATTTTAGGGGGG
Found at i:36950339 original size:107 final size:108
Alignment explanation
Indices: 36950211--36950502 Score: 309
Period size: 123 Copynumber: 2.6 Consensus size: 108
36950201 GAGGGGATTT
* * *
36950211 TATAAAATGGTGCTATTTTTTAAAAGTAAAATTATTTTTTGCGGCGTTTTTCATAAAAACGCGGC
1 TATAAAATGGCGCTATTTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTCATAAAAACGCGCC
36950276 -AAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTA
66 AAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTA
* * *
36950318 TATAAAATGGCGCTATTTTTTAAAAGTAAAATTATTTTTTGTATTGCTTACCTTTTGCGGCGTTT
1 TATAAAATGGCGCTATTTTTTAAAAGTAAAATTATTTTTTG--TGGCGT---TTTT----C---A
* ** *
36950383 TCCATAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAATGACACTGTTTTGCTA
54 T--AAAAACGCGCCA-AAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTA
* * *
36950441 TATAAAATGGCACTATTTTTTTTAAAGTAAAATTA-TTTTTGTGGCGTTTTTTATAAAAACGC
1 TATAAAATGGCGCTA-TTTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTCATAAAAACGC
36950503 CGCTATTGCT
Statistics
Matches: 149, Mismatches: 19, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
107 40 0.27
109 8 0.05
111 1 0.01
112 4 0.03
116 1 0.01
118 4 0.03
119 1 0.01
121 11 0.07
123 61 0.41
124 18 0.12
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (108 bp):
TATAAAATGGCGCTATTTTTTAAAAGTAAAATTATTTTTTGTGGCGTTTTTCATAAAAACGCGCC
AAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTA
Found at i:36950389 original size:123 final size:124
Alignment explanation
Indices: 36950247--36950480 Score: 407
Period size: 123 Copynumber: 1.9 Consensus size: 124
36950237 TAAAATTATT
* **
36950247 TTTTGCGGCGTTTTTCATAAAAACGCGGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
1 TTTTGCGGCGTTTTCCATAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
*
36950312 TTGCTATATAAAATGGCGCTA-TTTTTTAAAAGTAAAATTATTTTTTGTATTGCTTACC
66 TTGCTATATAAAATGGCACTATTTTTTTAAAAGTAAAATTATTTTTTGTATTGCTTACC
*
36950370 TTTTGCGGCGTTTTCCATAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAATGACACTGTT
1 TTTTGCGGCGTTTTCCATAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
*
36950435 TTGCTATATAAAATGGCACTATTTTTTTTAAAGTAAAATTATTTTT
66 TTGCTATATAAAATGGCACTATTTTTTTAAAAGTAAAATTATTTTT
36950481 GTGGCGTTTT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 81 0.78
124 23 0.22
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (124 bp):
TTTTGCGGCGTTTTCCATAAAAACGCCACAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
TTGCTATATAAAATGGCACTATTTTTTTAAAAGTAAAATTATTTTTTGTATTGCTTACC
Found at i:36951454 original size:14 final size:14
Alignment explanation
Indices: 36951435--36951477 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
36951425 ATTACTAACT
36951435 CTTAACCCCAAACC
1 CTTAACCCCAAACC
**
36951449 CTTAACCCTTAACC
1 CTTAACCCCAAACC
*
36951463 CCTAACCCCTAAACC
1 CTTAACCCC-AAACC
36951478 TTATTTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
CTTAACCCCAAACC
Found at i:36951454 original size:21 final size:21
Alignment explanation
Indices: 36951430--36951480 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
36951420 CCAAGATTAC
*
36951430 TAACTCTTAACCCCAAACCCT
1 TAACCCTTAACCCCAAACCCT
* *
36951451 TAACCCTTAACCCCTAACCCC
1 TAACCCTTAACCCCAAACCCT
*
36951472 TAAACCTTA
1 TAACCCTTA
36951481 TTTAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (21 bp):
TAACCCTTAACCCCAAACCCT
Found at i:36951564 original size:96 final size:96
Alignment explanation
Indices: 36951451--36951632 Score: 292
Period size: 96 Copynumber: 1.9 Consensus size: 96
36951441 CCCAAACCCT
* * * *
36951451 TAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAATCTA
1 TAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTA
*
36951516 AACCCTAAACCCTAACCTGACCTCGAATCCC
66 AACCATAAACCCTAACCTGACCTCGAATCCC
* *
36951547 TAACCCCTAACCTCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAACTAATCTA
1 TAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTA
*
36951612 AACCATAAACCCTAACTTGAC
66 AACCATAAACCCTAACCTGAC
36951633 ACCAAATCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (96 bp):
TAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTA
AACCATAAACCCTAACCTGACCTCGAATCCC
Found at i:36951641 original size:96 final size:95
Alignment explanation
Indices: 36951441--36951652 Score: 291
Period size: 96 Copynumber: 2.2 Consensus size: 95
36951431 AACTCTTAAC
* * *
36951441 CCCAAA-CCCTTAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAATAC
1 CCCAAATCCC-TAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACAC
* *
36951505 TAATTAATCTAAACCCTAAACCCTAACCTGA
65 TAACTAATCTAAACCATAAACCCTAACCTGA
* * *
36951536 CCTCGAATCCCTAACCCCTAACCTCTAACCCCTAAACATTATTTAATATATAAATTAAAATACAC
1 CC-CAAATCCCTAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACAC
*
36951601 TAACTAATCTAAACCATAAACCCTAACTTGA
65 TAACTAATCTAAACCATAAACCCTAACCTGA
* *
36951632 CACCAAATCCATAAACCCTAA
1 C-CCAAATCCCTAACCCCTAA
36951653 ATTCCTAACT
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 96 0.94
97 4 0.04
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.25
Consensus pattern (95 bp):
CCCAAATCCCTAACCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACT
AACTAATCTAAACCATAAACCCTAACCTGA
Found at i:36951746 original size:14 final size:15
Alignment explanation
Indices: 36951729--36951762 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36951719 CTTAAATCAG
36951729 AATCTCTAA-TCCAT
1 AATCTCTAATTCCAT
*
36951743 AATCCCTAATTCCAT
1 AATCTCTAATTCCAT
36951758 AATCT
1 AATCT
36951763 ATAAACCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:36952274 original size:41 final size:42
Alignment explanation
Indices: 36952182--36952324 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 42
36952172 ACGCTTCTTG
** * *
36952182 AAAAACGTTGCTAAAGCCTC-GAGCATTAGCGGCGC-TTATTG
1 AAAAACGCCGCTAAAGCCCCTGAGCATTAGCGGCGCTTTA-TC
* * *
36952223 ATAAATGCCGCTATAGCCCCT-AGCATTAGCGGCGCTTTATC
1 AAAAACGCCGCTAAAGCCCCTGAGCATTAGCGGCGCTTTATC
** * * *
36952264 AAAAACGCCGCTAAAG-ATCTGAGCACTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGCCCCTGAGCATTAGCGGCGCTTTATC
36952305 AAAAACGCCGCTAAAGCCCC
1 AAAAACGCCGCTAAAGCCCC
36952325 GAAAGGTAGC
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 75 0.93
42 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGCCCCTGAGCATTAGCGGCGCTTTATC
Found at i:36971594 original size:40 final size:40
Alignment explanation
Indices: 36971563--36971640 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
36971553 GATTTGTGTC
* *
36971563 CACGTAAGC-AAATCGCGCTGACGTGGACGCGATGTTCTGA
1 CACGTAACCGAAATCGCCCTGACGTGGACGCGAT-TTCTGA
* *
36971603 CACGTACCCTGACATCGCCCTGACGTGGACGCGATTTC
1 CACGTAACC-GAAATCGCCCTGACGTGGACGCGATTTC
36971641 GCGGAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.22
41 3 0.09
42 22 0.69
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.21
Consensus pattern (40 bp):
CACGTAACCGAAATCGCCCTGACGTGGACGCGATTTCTGA
Found at i:36973350 original size:24 final size:25
Alignment explanation
Indices: 36973297--36973347 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
36973287 ATTGTAAATC
*
36973297 AATAAATATATGTACAAAAATTTAA
1 AATAAATATATATACAAAAATTTAA
36973322 AATAAATA-ATATACAAGAAATTTAA
1 AATAAATATATATACAA-AAATTTAA
36973347 A
1 A
36973348 TAAGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
AATAAATATATATACAAAAATTTAA
Found at i:36977564 original size:20 final size:19
Alignment explanation
Indices: 36977541--36977602 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
36977531 TTTCTAGAAG
36977541 TTTTAACTATTTTTTTATAA
1 TTTTAACTA-TTTTTTATAA
*
36977561 TTTTAA--ATTTTTTAGAA
1 TTTTAACTATTTTTTATAA
* *
36977578 -TTTAACTAATCTTTTATAT
1 TTTTAACT-ATTTTTTATAA
36977597 TTTTAA
1 TTTTAA
36977603 TTTTTCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 5 0.15
17 9 0.26
18 1 0.03
19 8 0.24
20 11 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTAACTATTTTTTATAA
Found at i:36977573 original size:17 final size:17
Alignment explanation
Indices: 36977551--36977617 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
36977541 TTTTAACTAT
36977551 TTTTTTATAATTTTAAA
1 TTTTTTATAATTTTAAA
* *
36977568 TTTTTTAGAATTTAACTAA
1 TTTTTTATAATTTTA--AA
* *
36977587 TCTTTTAT-ATTTTTAA
1 TTTTTTATAATTTTAAA
*
36977603 TTTTTCTATACTTTT
1 TTTTT-TATAATTTT
36977618 TTGGATATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 6 0.16
17 16 0.42
18 8 0.21
19 8 0.21
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:36981541 original size:20 final size:19
Alignment explanation
Indices: 36981515--36981586 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
36981505 AATTACAAAA
36981515 CAAAATTCAAAATAATTTT
1 CAAAATTCAAAATAATTTT
*
36981534 CAAGAATTTAAAATAATTTT
1 CAA-AATTCAAAATAATTTT
*
36981554 TAAAATTCAAAAT-ATTTAT
1 CAAAATTCAAAATAATTT-T
*
36981573 AAAAATTTCAAAAT
1 CAAAA-TTCAAAAT
36981587 TTATATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.09
19 17 0.37
20 25 0.54
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (19 bp):
CAAAATTCAAAATAATTTT
Found at i:36981594 original size:24 final size:25
Alignment explanation
Indices: 36981565--36981617 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
36981555 AAAATTCAAA
* *
36981565 ATATTTATAAAAATTTC-AAAATTT
1 ATATTTATAAAAAATTCTAAAAATT
*
36981589 ATATTTTTAAAAAATTCTAAAAATT
1 ATATTTATAAAAAATTCTAAAAATT
36981614 ATAT
1 ATAT
36981618 AAAAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTATAAAAAATTCTAAAAATT
Found at i:36981611 original size:26 final size:27
Alignment explanation
Indices: 36981568--36981618 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
36981558 ATTCAAAATA
*
36981568 TTTATAAAAATTTCAAAATT-TATATT
1 TTTATAAAAATTTAAAAATTATATATT
36981594 TTTA-AAAAATTCTAAAAATTATATA
1 TTTATAAAAATT-TAAAAATTATATA
36981619 AAAAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTATAAAAATTTAAAAATTATATATT
Found at i:36981641 original size:45 final size:44
Alignment explanation
Indices: 36981548--36981640 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
36981538 AATTTAAAAT
*
36981548 AATTTTT--AAAATTCAAAATATTTATAAAAATTTCAAAATTTA
1 AATTTTTAAAAAATTCAAAATATTTATAAAAAGTTCAAAATTTA
*
36981590 TATTTTTAAAAAATTCTAAAA-ATTATATAAAAAGTT-AAAATTTA
1 AATTTTTAAAAAATTC-AAAATATT-TATAAAAAGTTCAAAATTTA
36981634 AATTTTT
1 AATTTTT
36981641 TTTCTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 6 0.14
44 24 0.55
45 14 0.32
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (44 bp):
AATTTTTAAAAAATTCAAAATATTTATAAAAAGTTCAAAATTTA
Found at i:36982840 original size:43 final size:43
Alignment explanation
Indices: 36982792--36982887 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
36982782 ACCACCACTA
* * *
36982792 ATTTGCAGATATAAACTGTCACTGGGTTGTGA-ATGTACAACAT
1 ATTTGCAGATAAAAACTGCCACTGGGTTG-GAGATGCACAACAT
* *
36982835 ATTTGCAGATAAAAATTGCCACTGGGTTGGAGATGCGCAACAT
1 ATTTGCAGATAAAAACTGCCACTGGGTTGGAGATGCACAACAT
*
36982878 ATTTGTAGAT
1 ATTTGCAGAT
36982888 GAACTGACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (43 bp):
ATTTGCAGATAAAAACTGCCACTGGGTTGGAGATGCACAACAT
Found at i:36984927 original size:42 final size:42
Alignment explanation
Indices: 36984870--36984969 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
36984860 GCTCTTGGTA
*
36984870 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* * *
36984912 TCGCACACTTCGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* *
36984954 TCACACATTTAGTGCC
1 TCGCACACTTAGTGCC
36984970 GTTCATATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:36988637 original size:30 final size:30
Alignment explanation
Indices: 36988603--36988701 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
36988593 ATGTGTGTAT
** *
36988603 GGAGCTGAATTAAAGCATGCATGTGTTTAG
1 GGAGCTGAATTGGAGCATGCATGTATTTAG
* * *
36988633 GGAGCTAAATGGGGGCATGCATGTATTTAG
1 GGAGCTGAATTGGAGCATGCATGTATTTAG
*
36988663 GGAGCTGAA-TGGAGCATGCATGAATTTAG
1 GGAGCTGAATTGGAGCATGCATGTATTTAG
36988692 GGAGCTGAAT
1 GGAGCTGAAT
36988702 GAGGATGCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.45
30 32 0.55
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.26
Consensus pattern (30 bp):
GGAGCTGAATTGGAGCATGCATGTATTTAG
Found at i:36988689 original size:29 final size:29
Alignment explanation
Indices: 36988616--36988702 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
36988606 GCTGAATTAA
* *
36988616 AGCATGCATGTGTTTAGGGAGCTAAATGGG
1 AGCATGCATGTATTTAGGGAGCTGAAT-GG
*
36988646 GGCATGCATGTATTTAGGGAGCTGAATGG
1 AGCATGCATGTATTTAGGGAGCTGAATGG
*
36988675 AGCATGCATGAATTTAGGGAGCTGAATG
1 AGCATGCATGTATTTAGGGAGCTGAATG
36988703 AGGATGCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
29 28 0.54
30 24 0.46
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (29 bp):
AGCATGCATGTATTTAGGGAGCTGAATGG
Found at i:36990779 original size:2 final size:2
Alignment explanation
Indices: 36990772--36990812 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
36990762 ATATGGTAAA
36990772 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36990813 TAAAAATTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36993255 original size:17 final size:17
Alignment explanation
Indices: 36993220--36993252 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36993210 TCAAGATAAG
*
36993220 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
36993237 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
36993253 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:36999618 original size:29 final size:29
Alignment explanation
Indices: 36999584--36999656 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
36999574 ATGTATTAGT
* *
36999584 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
36999613 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
36999642 TTAGGACATATTTAA
1 TTAGGACATATTTAA
36999657 TAATATCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:37005065 original size:10 final size:10
Alignment explanation
Indices: 37005049--37005108 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
37005039 ACCGTATACA
37005049 ATTTTTTTCTT
1 ATTTTTTT-TT
*
37005060 -TTTTTTTTCA
1 ATTTTTTTT-T
*
37005070 ATTTTTTTTG
1 ATTTTTTTTT
*
37005080 ATTTTTTTTG
1 ATTTTTTTTT
37005090 ATTTTTTTTT
1 ATTTTTTTTT
37005100 ATTTTTTTT
1 ATTTTTTTT
37005109 CAAATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
9 1 0.02
10 35 0.80
11 8 0.18
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.83
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:37005119 original size:20 final size:21
Alignment explanation
Indices: 37005047--37005120 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 21
37005037 AGACCGTATA
*
37005047 CAATTTTTTTCT-TTTTTTTTT
1 CAATTTTTTT-TGATTTTTTTT
37005068 CAATTTTTTTTGATTTTTTTT
1 CAATTTTTTTTGATTTTTTTT
* *
37005089 -GATTTTTTTTTATTTTTTTT
1 CAATTTTTTTTGATTTTTTTT
37005109 CAAATTTTTTTT
1 C-AATTTTTTTT
37005121 TCACGAGTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 19 0.41
21 18 0.39
22 9 0.20
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (21 bp):
CAATTTTTTTTGATTTTTTTT
Found at i:37006336 original size:29 final size:29
Alignment explanation
Indices: 37006302--37006374 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
37006292 ATGTATTAGT
* *
37006302 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
37006331 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
37006360 TTAGGACATATTTAA
1 TTAGGACATATTTAA
37006375 TAATATCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:37006779 original size:13 final size:13
Alignment explanation
Indices: 37006761--37006786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37006751 CCTCCCTCTT
37006761 CGACCAAATGATA
1 CGACCAAATGATA
37006774 CGACCAAATGATA
1 CGACCAAATGATA
37006787 GCTTGTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CGACCAAATGATA
Found at i:37009338 original size:16 final size:15
Alignment explanation
Indices: 37009313--37009342 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37009303 GTAAGCACTA
37009313 ATTTGATAGGTGAAC
1 ATTTGATAGGTGAAC
37009328 ATTTAGATAGGTGAA
1 ATTT-GATAGGTGAA
37009343 ACTGAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (15 bp):
ATTTGATAGGTGAAC
Found at i:37010159 original size:6 final size:6
Alignment explanation
Indices: 37010148--37010181 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
37010138 AAAATTTTAA
37010148 AAAATC AAAATC AAAATC AAAATC AAAAT- AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
37010182 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATC
Found at i:37010236 original size:22 final size:24
Alignment explanation
Indices: 37010194--37010238 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
37010184 AAAATTTAAA
*
37010194 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTCAAAAATTT
37010218 ATATTT-TAAAAATT-AAAAATT
1 ATATTTATAAAAATTCAAAAATT
37010239 CTAAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTTATAAAAATTCAAAAATTT
Found at i:37015364 original size:17 final size:18
Alignment explanation
Indices: 37015344--37015378 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
37015334 CGAATTATCT
37015344 GAATTAAAGTATT-AATC
1 GAATTAAAGTATTGAATC
37015361 GAATTAAAGTATTGAATC
1 GAATTAAAGTATTGAATC
37015379 ACTACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
GAATTAAAGTATTGAATC
Found at i:37017018 original size:237 final size:239
Alignment explanation
Indices: 37016601--37017071 Score: 820
Period size: 237 Copynumber: 2.0 Consensus size: 239
37016591 AAATACAAAC
37016601 ATTAAGACACAACATCTTATTGCACTCTCTCTTTTCCACCACAACACACTCCTTAAACTTTTTTA
1 ATTAAGACACAACATCTTATTGCACTCTCTCTTTTCCACCACAACACACTCCTTAAACTTTTTTA
* * *
37016666 ATCTAACTGGAGATTGTCTCACATATCTAATAGTCCCCTAACACATTCAACAGATTTATTCATTT
66 ATCTAACTAGAGATTGTCTCACATATCTAATAGCCCCCGAACACATTCAACAGATTTATTCATTT
* *
37016731 CCTTTAAGTCTTCAACAACAATTAAATTCACAATTTGTGTCATGCATCTCATATGAAGATATTTA
131 CCTTTAAGTCTTCAACAACAATCAAATTCACAATGTGTGTCATGCATCTCATATGAAGATATTTA
37016796 CCATTTTGAACAAAACCCCCTCGAGGGTTAAATTTTTTTCTCAT
196 CCATTTTGAACAAAACCCCCTCGAGGGTTAAATTTTTTTCTCAT
* *
37016840 ATTAAGACACAACATCTTCTTGCACTCTCTCTTTT-C-CCACAACACACTCTTTAAACTTTTTTA
1 ATTAAGACACAACATCTTATTGCACTCTCTCTTTTCCACCACAACACACTCCTTAAACTTTTTTA
* * *
37016903 ATCTAACTAGAGATTGTCTCACATGTGTAATAGCCCCCGAACACTTTCAACAGATTTATTCATTT
66 ATCTAACTAGAGATTGTCTCACATATCTAATAGCCCCCGAACACATTCAACAGATTTATTCATTT
37016968 CCTTTAAGTCTTCAACAACAATCAAATTCACAATGTGTGTCATGCATCTCATATGAAGATATTTA
131 CCTTTAAGTCTTCAACAACAATCAAATTCACAATGTGTGTCATGCATCTCATATGAAGATATTTA
* *
37017033 CCATTTTGAACTAAACCCCCTCGAGGGTTAATTTTTTTT
196 CCATTTTGAACAAAACCCCCTCGAGGGTTAAATTTTTTT
37017072 TCTTAAATAA
Statistics
Matches: 220, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 185 0.84
238 1 0.00
239 34 0.15
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (239 bp):
ATTAAGACACAACATCTTATTGCACTCTCTCTTTTCCACCACAACACACTCCTTAAACTTTTTTA
ATCTAACTAGAGATTGTCTCACATATCTAATAGCCCCCGAACACATTCAACAGATTTATTCATTT
CCTTTAAGTCTTCAACAACAATCAAATTCACAATGTGTGTCATGCATCTCATATGAAGATATTTA
CCATTTTGAACAAAACCCCCTCGAGGGTTAAATTTTTTTCTCAT
Found at i:37019036 original size:25 final size:25
Alignment explanation
Indices: 37019008--37019057 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37018998 TACCCTATAC
37019008 ATGCCATGATAACCAAAATTAGTTT
1 ATGCCATGATAACCAAAATTAGTTT
*
37019033 ATGCCATTATAACCAAAATTAGTTT
1 ATGCCATGATAACCAAAATTAGTTT
37019058 TCTATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (25 bp):
ATGCCATGATAACCAAAATTAGTTT
Found at i:37019714 original size:24 final size:24
Alignment explanation
Indices: 37019609--37019747 Score: 93
Period size: 25 Copynumber: 5.7 Consensus size: 24
37019599 TGTAAACGAT
* * *
37019609 AAGCTCTTTCGAGCCATATAACGAG
1 AAGCTCATGCGAGCCATA-AACGGG
* *** *
37019634 AAGCTCATGTGAGTTGTATAACGAG
1 AAGCTCATGCGAGCCATA-AACGGG
* *
37019659 AAGCTCATGCAAGCCA-AATATCAGG
1 AAGCTCATGCGAGCCATAA-A-CGGG
37019684 AAGCTCATGCGAGCCATAAACGGG
1 AAGCTCATGCGAGCCATAAACGGG
*** *
37019708 AAGCTCAAAAGAGCCA-AATTCGGG
1 AAGCTCATGCGAGCCATAA-ACGGG
37019732 AAGCTCATGCGAGCCA
1 AAGCTCATGCGAGCCA
37019748 ATATCAGGAA
Statistics
Matches: 88, Mismatches: 22, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
23 3 0.03
24 35 0.40
25 48 0.55
26 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGCTCATGCGAGCCATAAACGGG
Found at i:37019748 original size:24 final size:24
Alignment explanation
Indices: 37019658--37019748 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
37019648 TGTATAACGA
* *
37019658 GAAGCTCATGCAAGCCAAATATCAG
1 GAAGCTCATGCGAGCCAAAT-TCGG
*
37019683 GAAGCTCATGCGAGCCATAA-ACGG
1 GAAGCTCATGCGAGCCA-AATTCGG
***
37019707 GAAGCTCAAAAGAGCCAAATTCGG
1 GAAGCTCATGCGAGCCAAATTCGG
37019731 GAAGCTCATGCGAGCCAA
1 GAAGCTCATGCGAGCCAA
37019749 TATCAGGAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
23 2 0.04
24 34 0.63
25 16 0.30
26 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.13
Consensus pattern (24 bp):
GAAGCTCATGCGAGCCAAATTCGG
Found at i:37019757 original size:24 final size:24
Alignment explanation
Indices: 37019658--37019760 Score: 102
Period size: 24 Copynumber: 4.2 Consensus size: 24
37019648 TGTATAACGA
*
37019658 GAAGCTCATGCAAGCCAAATATCAG
1 GAAGCTCATGCGAGCC-AATATCAG
* *
37019683 GAAGCTCATGCGAGCC-ATAAACGG
1 GAAGCTCATGCGAGCCAAT-ATCAG
*** *
37019707 GAAGCTCAAAAGAGCCAA-ATTCGG
1 GAAGCTCATGCGAGCCAATA-TCAG
37019731 GAAGCTCATGCGAGCCAATATCAG
1 GAAGCTCATGCGAGCCAATATCAG
37019755 GAAGCT
1 GAAGCT
37019761 TCGAAGAGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.05
24 43 0.68
25 17 0.27
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (24 bp):
GAAGCTCATGCGAGCCAATATCAG
Found at i:37019768 original size:48 final size:49
Alignment explanation
Indices: 37019670--37019788 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 49
37019660 AGCTCATGCA
*
37019670 AGCCAAATATCAGGAAGCTCATGCGAGCCATAAACGGGAAGCTCAAAAG
1 AGCCAAATATCAGGAAGCTCATGCGAGCCATAAACAGGAAGCTCAAAAG
* * *
37019719 AGCCAAAT-TCGGGAAGCTCATGCGAGCCA-ATATCAGGAAGCTTC-GAAG
1 AGCCAAATATCAGGAAGCTCATGCGAGCCATA-AACAGGAAGC-TCAAAAG
* * *
37019767 AGCCATATATTAGGATGCTCAT
1 AGCCAAATATCAGGAAGCTCAT
37019789 AAGAGTTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.02
48 38 0.64
49 20 0.34
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (49 bp):
AGCCAAATATCAGGAAGCTCATGCGAGCCATAAACAGGAAGCTCAAAAG
Found at i:37027413 original size:25 final size:24
Alignment explanation
Indices: 37027386--37027475 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 24
37027376 AAGCTCTTCT
* *
37027386 GAGCCATATAACAGGAAGCTTATGT
1 GAGCCATATAAC-GGAAGCTCATGC
**
37027411 GAGCTGTATAACGAGAAGCTCATGC
1 GAGCCATATAACG-GAAGCTCATGC
* * * *
37027436 AAGCCAAATATCAGGAAGATCATGC
1 GAGCCATATAAC-GGAAGCTCATGC
37027461 GAGCCATA-AACGGAA
1 GAGCCATATAACGGAA
37027476 AGCTGAAGAG
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
23 4 0.08
24 3 0.06
25 42 0.84
26 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (24 bp):
GAGCCATATAACGGAAGCTCATGC
Found at i:37027513 original size:24 final size:24
Alignment explanation
Indices: 37027426--37027515 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
37027416 GTATAACGAG
*
37027426 AAGCTCATGCAAGCCAAATATCAGG
1 AAGCTCATGCAAGCCAAAT-TCAGA
* * * *
37027451 AAGATCATGCGAGCCATAA-ACGGA
1 AAGCTCATGCAAGCCA-AATTCAGA
* *
37027475 AAGCTGAAG-AGAGCCAAATTCAGA
1 AAGCTCATGCA-AGCCAAATTCAGA
37027499 AAGCTCATGCAAGCCAA
1 AAGCTCATGCAAGCCAA
37027516 TAGTTGGAAG
Statistics
Matches: 48, Mismatches: 13, Indels: 9
0.69 0.19 0.13
Matches are distributed among these distances:
23 2 0.04
24 29 0.60
25 15 0.31
26 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (24 bp):
AAGCTCATGCAAGCCAAATTCAGA
Found at i:37028901 original size:25 final size:25
Alignment explanation
Indices: 37028848--37028910 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
37028838 TCGAAAGAAC
*
37028848 ATCCCATTA-TTAGCTCTCATGAGT
1 ATCCCATTATTTGGCTCTCATGAGT
37028872 ATCCCGA-TATTTGGCTCTCATGAGCT
1 ATCCC-ATTATTTGGCTCTCATGAG-T
37028898 -TCCCATTATTTGG
1 ATCCCATTATTTGG
37028911 TTCTTGCGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 25 0.74
26 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (25 bp):
ATCCCATTATTTGGCTCTCATGAGT
Found at i:37031839 original size:93 final size:93
Alignment explanation
Indices: 37031680--37031865 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
37031670 GATGGATTAT
37031680 CTTCAAAACATAGAACATGGGATGCTACTCTATTTTACTCCATTTTCAGTTCCAAATTAAGAAAC
1 CTTCAAAACATAGAACATGGGATGCTACTCTATTTTACTCCATTTTCAGTTCCAAATTAAGAAAC
37031745 GAGCAAATAGTTAATTAATACAACAATG
66 GAGCAAATAGTTAATTAATACAACAATG
*
37031773 CTTCAAAACATAGAACATGGGATGCTACTCTATTTTACTCCCTTTTCAGTTCCAAATTAAGAAAC
1 CTTCAAAACATAGAACATGGGATGCTACTCTATTTTACTCCATTTTCAGTTCCAAATTAAGAAAC
37031838 GAGCAAATAGTTAATTAATACAACAATG
66 GAGCAAATAGTTAATTAATACAACAATG
37031866 TCATCGCTGC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (93 bp):
CTTCAAAACATAGAACATGGGATGCTACTCTATTTTACTCCATTTTCAGTTCCAAATTAAGAAAC
GAGCAAATAGTTAATTAATACAACAATG
Found at i:37034366 original size:25 final size:25
Alignment explanation
Indices: 37034312--37034358 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
37034302 AAATCTACTC
37034312 TAAAAAGAAAAGAGAAAGCCTAAAT
1 TAAAAAGAAAAGAGAAAGCCTAAAT
37034337 TAAAAATGAAAAGA-AAA-CCTAA
1 TAAAAA-GAAAAGAGAAAGCCTAA
37034359 CCTTAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.66, C:0.09, G:0.13, T:0.13
Consensus pattern (25 bp):
TAAAAAGAAAAGAGAAAGCCTAAAT
Found at i:37035306 original size:19 final size:19
Alignment explanation
Indices: 37035282--37035322 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
37035272 TATAAAATAT
*
37035282 AAAATTAAAAACCCAATTA
1 AAAATTAAAAACCAAATTA
*
37035301 AAAATTTAAAACCAAATTA
1 AAAATTAAAAACCAAATTA
37035320 AAA
1 AAA
37035323 GGCCTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATTAAAAACCAAATTA
Found at i:37035575 original size:30 final size:28
Alignment explanation
Indices: 37035541--37035619 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 28
37035531 AGAATCAGTC
* *
37035541 TGGGCCTGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCT-AGCCCAATACAGTA-CAGAGTG
* *
37035571 TGGGCCATAGCACAATACAATTACAGAGTG
1 TGGGCC-TAGCCCAATAC-AGTACAGAGTG
37035601 TGGGCCTTAGCCCAATACA
1 TGGGCC-TAGCCCAATACA
37035620 TTAACCAGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 1 0.02
30 36 0.88
31 4 0.10
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (28 bp):
TGGGCCTAGCCCAATACAGTACAGAGTG
Found at i:37035759 original size:26 final size:26
Alignment explanation
Indices: 37035729--37035831 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 26
37035719 GCCAACACAC
*
37035729 CAATATCGCAATAAAGCTGCCAGTAT
1 CAATATCGCAACAAAGCTGCCAGTAT
* *
37035755 CAATAAT-GCAGCAAAGCTGCCAGTAA
1 CAAT-ATCGCAACAAAGCTGCCAGTAT
* * *
37035781 CAGTATCGCAGCAGAGCTGCCAGTAT
1 CAATATCGCAACAAAGCTGCCAGTAT
* * *
37035807 CAGTATCACAACAGAGCTGCCAGTA
1 CAATATCGCAACAAAGCTGCCAGTA
37035832 ACAGTATTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.03
26 63 0.94
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTGCCAGTAT
Found at i:37035836 original size:26 final size:26
Alignment explanation
Indices: 37035769--37035838 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
37035759 AATGCAGCAA
* *
37035769 AGCTGCCAGTAACAGTATCGCAGCAG
1 AGCTGCCAGTAACAGTATCACAACAG
*
37035795 AGCTGCCAGTATCAGTATCACAACAG
1 AGCTGCCAGTAACAGTATCACAACAG
37035821 AGCTGCCAGTAACAGTAT
1 AGCTGCCAGTAACAGTAT
37035839 TTGTGGCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (26 bp):
AGCTGCCAGTAACAGTATCACAACAG
Found at i:37036061 original size:27 final size:27
Alignment explanation
Indices: 37036031--37036417 Score: 417
Period size: 27 Copynumber: 14.4 Consensus size: 27
37036021 GATATAGTGG
* * *
37036031 TAATTTTACCCTTCGGGGGCATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTCGA
* *
37036058 TAATTTTA-CCTATTGAGGGTATTTCGG
1 TAATTTTACCCT-TCGAGGGTATTTCGA
* * *
37036085 TAATTTTATCCTTCGGGGGCATTTCGA
1 TAATTTTACCCTTCGAGGGTATTTCGA
* * *
37036112 TAATTTTACCCTTTGGGGGTATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTCGA
*
37036139 TAATTTTACCCTTCGAGGGTATTTCAA
1 TAATTTTACCCTTCGAGGGTATTTCGA
** * **
37036166 TAATTTTTTCCATCGAGGGTATTTTAA
1 TAATTTTACCCTTCGAGGGTATTTCGA
* *
37036193 TAATTTTACTCTT-TAGGGGTATTTC-A
1 TAATTTTACCCTTCGA-GGGTATTTCGA
*
37036219 GTAATTTTACCCTTTGAGGGTATTTCGA
1 -TAATTTTACCCTTCGAGGGTATTTCGA
37036247 TAATTTTA-CCTTCGAGGGTATTTCGA
1 TAATTTTACCCTTCGAGGGTATTTCGA
*
37036273 TAATTTTACCCTTTGAGGGTATTTC-A
1 TAATTTTACCCTTCGAGGGTATTTCGA
* *
37036299 GTAATTTTACCCTTCGAGAGTATTTCGG
1 -TAATTTTACCCTTCGAGGGTATTTCGA
* * * *
37036327 TAATTTTACTCATCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTCGA
* * *
37036354 TAATTTTACCCATCGAAGGTATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTCGA
*
37036381 TAATTTTACCCTTCGAGGGTATTTCAA
1 TAATTTTACCCTTCGAGGGTATTTCGA
37036408 TAA-TTTACCC
1 TAATTTTACCC
37036418 ACGAATCGAA
Statistics
Matches: 306, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
26 38 0.12
27 263 0.86
28 5 0.02
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (27 bp):
TAATTTTACCCTTCGAGGGTATTTCGA
Found at i:37039083 original size:90 final size:90
Alignment explanation
Indices: 37038921--37039185 Score: 267
Period size: 90 Copynumber: 3.0 Consensus size: 90
37038911 CTCAGTTTAA
* * * * * *
37038921 AAATTCGGTGAATAT-ATCAAGTCTACCTCACTAGGACCACCCAAAGC-CTGAGATATGAATTCA
1 AAATTTGGTGAAT-TCATCAAGTCTATCTCAATAGGACCACCCAAA-CTCTGGGCTATGAACTCA
* * **
37038984 TTAAGAACATTTAGTGGCTCATCCTAT
64 TTAAAAACATCTAGAAGCTCATCCTAT
* * *
37039011 AAATTTGGT-AAGTTCATCAAGTTTGTCTCAATAGGAACC-CCCGAAA-TCTGGGTTATGAACTC
1 AAATTTGGTGAA-TTCATCAAGTCTATCTCAATAGG-ACCACCC-AAACTCTGGGCTATGAACTC
*
37039073 ATTAAAAACATCTAGAAGTTCATCCTAT
63 ATTAAAAACATCTAGAAGCTCATCCTAT
* * *
37039101 AAATTTGGTGAATTTATCAAGTCTATCTTAATAGGACCATCCAAACTCTGGGCTATGAACTCATT
1 AAATTTGGTGAATTCATCAAGTCTATCTCAATAGGACCACCCAAACTCTGGGCTATGAACTCATT
*
37039166 AAAAGCA-C-AG-AGCTCATCCT
66 AAAAACATCTAGAAGCTCATCCT
37039186 TATACATCAT
Statistics
Matches: 146, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
87 9 0.06
88 2 0.01
89 10 0.07
90 117 0.80
91 8 0.05
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (90 bp):
AAATTTGGTGAATTCATCAAGTCTATCTCAATAGGACCACCCAAACTCTGGGCTATGAACTCATT
AAAAACATCTAGAAGCTCATCCTAT
Found at i:37040935 original size:63 final size:63
Alignment explanation
Indices: 37040857--37040983 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
37040847 CTAAATTAAC
37040857 AATTTCGGTTATAAAAGAAGTAAGGAAGCCAGGACCAAAACTAGTTACAGCTTTTTGTCTTTT
1 AATTTCGGTTATAAAAGAAGTAAGGAAGCCAGGACCAAAACTAGTTACAGCTTTTTGTCTTTT
* *
37040920 AATTTCGGTTATAAAAGAAGTAAGGAAGGCAGGACCAAAACTAGTTGCAGCTTTTTGTCTTTT
1 AATTTCGGTTATAAAAGAAGTAAGGAAGCCAGGACCAAAACTAGTTACAGCTTTTTGTCTTTT
37040983 A
1 A
37040984 CTCCTCCTAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (63 bp):
AATTTCGGTTATAAAAGAAGTAAGGAAGCCAGGACCAAAACTAGTTACAGCTTTTTGTCTTTT
Found at i:37042928 original size:18 final size:18
Alignment explanation
Indices: 37042886--37042929 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
37042876 TATGAGTTAT
37042886 AAATTAC-ATAATATATA
1 AAATTACAATAATATATA
*
37042903 AAAATACAATAATATA-A
1 AAATTACAATAATATATA
37042920 AACATTACAA
1 AA-ATTACAA
37042930 ACTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATTACAATAATATATA
Found at i:37047885 original size:50 final size:50
Alignment explanation
Indices: 37047786--37047885 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
37047776 TTTTTTGAAT
* * * ** * *
37047786 TTTTTTAGAATTAAGATTAAATTGATATTATTTGTAAACTTTTAGGGTTA
1 TTTTTTAAAATTAAGATTAAATTGATATAATATGTAAAAATTAAAGGTTA
*
37047836 TTTTTTAAAATTATGATTAAATTGATATAATATGTAAAAATTAAAGGTTA
1 TTTTTTAAAATTAAGATTAAATTGATATAATATGTAAAAATTAAAGGTTA
37047886 AATTTATTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (50 bp):
TTTTTTAAAATTAAGATTAAATTGATATAATATGTAAAAATTAAAGGTTA
Done.