Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 12 of 113
Found at i:3810036 original size:101 final size:101
Alignment explanation
Indices: 3809861--3810064 Score: 399
Period size: 101 Copynumber: 2.0 Consensus size: 101
3809851 CTCTTTGATA
*
3809861 AATCTCTTAGGCTAAAACTATACATTATCTGATGCTAAAAATAGCTTATCTTGCTTAACACTTTA
1 AATCTCCTAGGCTAAAACTATACATTATCTGATGCTAAAAATAGCTTATCTTGCTTAACACTTTA
3809926 TGGTGGAAAAGACTATTCACCCTGCTCAGCACTTTC
66 TGGTGGAAAAGACTATTCACCCTGCTCAGCACTTTC
3809962 AATCTCCTAGGCTAAAACTATACATTATCTGATGCTAAAAATAGCTTATCTTGCTTAACACTTTA
1 AATCTCCTAGGCTAAAACTATACATTATCTGATGCTAAAAATAGCTTATCTTGCTTAACACTTTA
3810027 TGGTGGAAAAGACTATTCACCCTGCTCAGCACTTTC
66 TGGTGGAAAAGACTATTCACCCTGCTCAGCACTTTC
3810063 AA
1 AA
3810065 GTAGAGAAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (101 bp):
AATCTCCTAGGCTAAAACTATACATTATCTGATGCTAAAAATAGCTTATCTTGCTTAACACTTTA
TGGTGGAAAAGACTATTCACCCTGCTCAGCACTTTC
Found at i:3811714 original size:18 final size:18
Alignment explanation
Indices: 3811693--3811727 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3811683 AGCACTTCAC
* *
3811693 TTTATCTTTGGACTTATA
1 TTTATATTTAGACTTATA
3811711 TTTATATTTAGACTTAT
1 TTTATATTTAGACTTAT
3811728 TACGACTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTATATTTAGACTTATA
Found at i:3822165 original size:343 final size:340
Alignment explanation
Indices: 3821030--3822167 Score: 1232
Period size: 344 Copynumber: 3.3 Consensus size: 340
3821020 GGAATAAAAA
* * * * *
3821030 GAGTCAT-GTTAGAAAATCTATTAACCACAACCCCTT-ATTCCTTGACTCGATTATTCCAATTGT
1 GAGTCATCTTTAG-AAATCTATCAACCACAA-CCCTTCATCCCTTGACTCAATTATTTCAATTGT
* * * **
3821093 TG-AATTCAATCTATTGTTGTTGATTATAGTTCTTCAATTAAAATTTTCAAGTCCAAGTGTGCTT
64 TGAAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTGTGCTT
* * * *
3821157 AAAAATGAGGTGCAAGTTGCTTTCTCAAAGTTGTTTGTTTCACTATTGAAGTTCATATTTAACAT
129 AAAAAAGAGGTGCAAGTTGCTTTGTCGAAGTTGTTTGTTTCACTAGTGAAGTTCATATTTAACAT
* * * *
3821222 TCATGAATCCTGCCAGAATTTTTTTTTCCACTTCAATTTTTCAAAACTTAAGGTTGAGTTTTCTA
194 CCATGAATCCTGCC---ATTTTTTTTT-TACTTCAATTTTTCAAAACTTAAGATTGAG-TTTATA
* * * * * ** *
3821287 CTAACGATGGGAAAACAATAGAGGATACAAACATATTAGTTG-GGGAATTATATTATCCATGACT
254 CTAACCATGGGAGAATAAT-GAGAATGCAAGTATATTAGTTGAGGG-ATTATATTATCCAGGACT
*
3821351 CTATTTTATATTTTACATATAAAAT
317 TTATTTTATATTTTACATAT-AAAT
* * ** * * **
3821376 GAGTCATCTTAAAAAATCTATCAACCAGGACCCTTCATCCTTTAACTCAATTATTTTGATTGTTG
1 GAGTCATCTTTAGAAATCTATCAACCACAACCCTTCATCCCTTGACTCAATTATTTCAATTGTTG
* * * * *
3821441 AAATTCGACCTATTGTTGTTGATTACAGTTGTTCAATTGACTTTTTCAAGTCCAAGTTTGCTT-A
66 AAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTGTGCTTAA
* * * *
3821505 AAAGGAGGTGCAAGTTGCTTTGTGGAAGTTGTTTGTTTCA-TTGTTGAAGTTCATATTTAAAATC
131 AAAAGAGGTGCAAGTTGCTTTGTCGAAGTTGTTTGTTTCACTAG-TGAAGTTCATATTTAACATC
* * ** * * * * * * *
3821569 CATGTATCCTGCCAGAATCGTTTTCTGCTTCGACTTTTCAAAACTTAAGATGGAGTTTTTAACCA
195 CATGAATCCTGCC--ATTTTTTTTTTACTTCAATTTTTCAAAACTTAAGATTGAGTTTAT-ACTA
* * *
3821634 ACCATGGGAGAATAATGAAAGATGCAAGTATATTAGTGGAGGGATTATATTATCCTGGACTTTAT
257 ACCATGGGAGAATAATGAGA-ATGCAAGTATATTAGTTGAGGGATTATATTATCCAGGACTTTAT
3821699 TTTATATTTTACATATGAAAT
321 TTTATATTTTACATAT-AAAT
* * * *
3821720 GAGTCATCATTAGAAATCTATCAACCACAACCCTTCATCTCTTCACTCAATTATTACAATTGTTG
1 GAGTCATCTTTAGAAATCTATCAACCACAACCCTTCATCCCTTGACTCAATTATTTCAATTGTTG
* * *
3821785 AAATTCAACTTATTGTTGTTGATTATACTTCTTAAATTGACTTTTTCATGTCCAAGTGTGCTTAA
66 AAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTGTGCTTAA
* * * **
3821850 AAAACAAGTCGCAAGTTGCTTTGTTGAAGTCATTTGTTTCACTAGTGAAGTTCATATTTAACATC
131 AAAAGAGGT-GCAAGTTGCTTTGTCGAAGTTGTTTGTTTCACTAGTGAAGTTCATATTTAACATC
** * ** * *
3821915 CAT-AGATCCTGCC-TTTTTTTTTTTTTTCTATTTTTCAAAACTTTCGTTTGAGTTTATACTATC
195 CATGA-ATCCTGCCATTTTTTTTTTACTTCAATTTTTCAAAACTTAAGATTGAGTTTATACTAAC
* * *
3821978 CATGGTAGAATAATGGAGAATGCAAGTATATTAGTTGAATTGGATTATATTATTCAGGACTTTAT
259 CATGGGAGAATAAT-GAGAATGCAAGTATATTAGTTG-A-GGGATTATATTATCCAGGACTTTAT
*
3822043 TTTATATTTTACATATAATAG
321 TTTATATTTTACATATAA-AT
* * ** *
3822064 GAGTCAT-TTTAGAAATCCATCAACTACAACCCTTCATCCCTTGACTTGATTATTTCAGTTGTTG
1 GAGTCATCTTTAGAAATCTATCAACCACAACCCTTCATCCCTTGACTCAATTATTTCAATTGTTG
*
3822128 AAATTCAACCTATTGTTATTGATTATAGTTCTTAAATTGA
66 AAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGA
3822168 TAACATCCAT
Statistics
Matches: 658, Mismatches: 119, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
342 34 0.05
343 128 0.19
344 248 0.38
345 22 0.03
346 168 0.26
347 58 0.09
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (340 bp):
GAGTCATCTTTAGAAATCTATCAACCACAACCCTTCATCCCTTGACTCAATTATTTCAATTGTTG
AAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTGTGCTTAA
AAAAGAGGTGCAAGTTGCTTTGTCGAAGTTGTTTGTTTCACTAGTGAAGTTCATATTTAACATCC
ATGAATCCTGCCATTTTTTTTTTACTTCAATTTTTCAAAACTTAAGATTGAGTTTATACTAACCA
TGGGAGAATAATGAGAATGCAAGTATATTAGTTGAGGGATTATATTATCCAGGACTTTATTTTAT
ATTTTACATATAAAT
Found at i:3832678 original size:28 final size:29
Alignment explanation
Indices: 3832647--3832701 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
3832637 TAAAATTAAA
* **
3832647 TTTTCATATTTTTTAATATA-AAAAAAGG
1 TTTTAATATTTTAAAATATATAAAAAAGG
3832675 TTTTAATATTTTAAAATATATAAAAAA
1 TTTTAATATTTTAAAATATATAAAAAA
3832702 TAATTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (29 bp):
TTTTAATATTTTAAAATATATAAAAAAGG
Found at i:3836785 original size:18 final size:19
Alignment explanation
Indices: 3836747--3836788 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
3836737 TTAAACTTAA
* *
3836747 TTATATTTTTTATTAATTT
1 TTATATATTTTATTAAATT
3836766 TTATATATTTT-TTAAATT
1 TTATATATTTTATTAAATT
3836784 TTATA
1 TTATA
3836789 AAATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATATTTTATTAAATT
Found at i:3837128 original size:16 final size:16
Alignment explanation
Indices: 3837109--3837164 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
3837099 GATATTTTAA
3837109 TAATTTTATATGTAAT
1 TAATTTTATATGTAAT
* **
3837125 TAATTTTATATTTTCT
1 TAATTTTATATGTAAT
3837141 TAAATTTTAATATGTAATT
1 T-AATTTT-ATATGTAA-T
3837160 TAATT
1 TAATT
3837165 GAAGTATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 14 0.45
17 6 0.19
18 9 0.29
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (16 bp):
TAATTTTATATGTAAT
Found at i:3837370 original size:61 final size:61
Alignment explanation
Indices: 3837255--3837370 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
3837245 AAGAAGTCAT
* ***
3837255 TTTTATAATTATGATAGAAGAATATTATAATAATTTTAATTAATTATGTTATGAGGATTAA
1 TTTTATAATTATGATAGAAGAATATTATAAAAATTTTAATTAATTATAAAATGAGGATTAA
* * **
3837316 TTTTGTAATTATGGTAGGAA-AATATTATAAAAATTTTGGTTAATTATAAAATGAG
1 TTTTATAATTATGATA-GAAGAATATTATAAAAATTTTAATTAATTATAAAATGAG
3837371 AGATATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 43 0.93
62 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (61 bp):
TTTTATAATTATGATAGAAGAATATTATAAAAATTTTAATTAATTATAAAATGAGGATTAA
Found at i:3845274 original size:14 final size:14
Alignment explanation
Indices: 3845255--3845284 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3845245 AAATATTATT
3845255 TTTATTAAAGATAC
1 TTTATTAAAGATAC
*
3845269 TTTATTAAAGTTAC
1 TTTATTAAAGATAC
3845283 TT
1 TT
3845285 CAAATCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTATTAAAGATAC
Found at i:3851649 original size:18 final size:18
Alignment explanation
Indices: 3851596--3851650 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
3851586 TGGCACCTCC
*
3851596 TTGGTTCAATTTTATTTT
1 TTGGATCAATTTTATTTT
* *
3851614 TTAGATC--TTATTAGTTT
1 TTGGATCAATT-TTATTTT
*
3851631 TTGGCTCAATTTTATTTT
1 TTGGATCAATTTTATTTT
3851649 TT
1 TT
3851651 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 2 0.07
17 11 0.39
18 13 0.46
19 2 0.07
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (18 bp):
TTGGATCAATTTTATTTT
Found at i:3853154 original size:12 final size:12
Alignment explanation
Indices: 3853108--3853187 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 12
3853098 ACAATGATAA
*
3853108 AATATTTAATAT
1 AATATTTAATTT
3853120 AATATTTAAATTT
1 AATATTT-AATTT
3853133 AA-ATTT--TTT
1 AATATTTAATTT
*
3853142 AATATTTTATTT
1 AATATTTAATTT
*
3853154 AA-ATTATGAATAT
1 AATATT-T-AATTT
* * *
3853167 ATTAATTAATGT
1 AATATTTAATTT
3853179 AATATTTAA
1 AATATTTAA
3853188 AAAATTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
9 5 0.09
10 4 0.08
11 3 0.06
12 28 0.53
13 11 0.21
14 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
AATATTTAATTT
Found at i:3853295 original size:29 final size:30
Alignment explanation
Indices: 3853244--3853300 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
3853234 AATTAACATA
*
3853244 TTAATAATTCAAATAATATATTAAAATTTT
1 TTAATAATTCAAATAATAAATTAAAATTTT
* * *
3853274 TTAA-AATTTAAATATTAAATTATAATT
1 TTAATAATTCAAATAATAAATTAAAATT
3853301 ATAATTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAATAATTCAAATAATAAATTAAAATTTT
Found at i:3864559 original size:2 final size:2
Alignment explanation
Indices: 3864552--3864585 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3864542 GCCAAGTGTT
3864552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3864586 AAATAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3864985 original size:16 final size:17
Alignment explanation
Indices: 3864947--3864986 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3864937 TCATTTAGAT
3864947 ATTAATTATATTAATAA
1 ATTAATTATATTAATAA
*
3864964 AATAATTAT-TTAATAA
1 ATTAATTATATTAATAA
*
3864980 CTTAATT
1 ATTAATT
3864987 TAATAAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAATTATATTAATAA
Found at i:3872242 original size:38 final size:37
Alignment explanation
Indices: 3872200--3872274 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
3872190 TTGAGTTGTG
* *
3872200 TTGGATTATGATGCATAAAATGAAAGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAAATG-AAGGGAGTTTTGCCA
* *
3872238 TTGGATTAGGATGCACAAATTGAGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAAATGAAGGGAGTTTTGCCA
3872275 CGCATTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (37 bp):
TTGGATTAGGATGCACAAAATGAAGGGAGTTTTGCCA
Found at i:3874357 original size:13 final size:12
Alignment explanation
Indices: 3874332--3874360 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3874322 TTCTTTTTCC
3874332 TTTATTGTGTTT
1 TTTATTGTGTTT
3874344 TTTATT-TGTTT
1 TTTATTGTGTTT
3874355 TTTATT
1 TTTATT
3874361 CATTATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (12 bp):
TTTATTGTGTTT
Found at i:3874733 original size:18 final size:18
Alignment explanation
Indices: 3874693--3874733 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3874683 TATTTAAAAG
3874693 TATA-TATTATATTTTTA
1 TATATTATTATATTTTTA
*
3874710 T-T-TTATTTTATTTTTA
1 TATATTATTATATTTTTA
3874726 TATATTAT
1 TATATTAT
3874734 ATTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 14 0.70
17 2 0.10
18 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATATTATTATATTTTTA
Found at i:3874767 original size:29 final size:28
Alignment explanation
Indices: 3874717--3874778 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
3874707 TTATTTTATT
3874717 TTATT-TTTATATATTATATTAATAAAA
1 TTATTATTTATATATTATATTAATAAAA
3874744 TTATTATTTAATATATTA-ATTTAATAAAA
1 TTATTATTT-ATATATTATA-TTAATAAAA
3874773 -TATTAT
1 TTATTAT
3874779 ATTTTATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.16
28 10 0.31
29 17 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATTATTTATATATTATATTAATAAAA
Found at i:3874792 original size:29 final size:28
Alignment explanation
Indices: 3874717--3874793 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
3874707 TTATTTTATT
*
3874717 TTATTTTTATATATTATATTAATAAAATTA
1 TTATTTTTATA-ATAAT-TTAATAAAATTA
* *
3874747 TTATTTAATATATTAATTTAATAAAA-TA
1 TTATTT-TTATAATAATTTAATAAAATTA
3874775 TTATATTTTATACATAATT
1 TTAT-TTTTATA-ATAATT
3874794 AAGGTATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 10 0.26
29 16 0.41
30 9 0.23
31 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATTTTTATAATAATTTAATAAAATTA
Found at i:3879805 original size:1 final size:1
Alignment explanation
Indices: 3879795--3879829 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
3879785 AAGTTCTAAC
*
3879795 AAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3879830 CTTCGAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:3880278 original size:2 final size:2
Alignment explanation
Indices: 3880271--3880310 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3880261 AAGTACAGCA
3880271 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3880311 GCTCAGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3882195 original size:6 final size:6
Alignment explanation
Indices: 3882186--3882245 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
3882176 GCCAAATGCA
* * *
3882186 AAAAAC AAAAAT AAAAAG AAAAAG AAAAGG AAAAAG AAAAAG AAACAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG
3882235 -AAAAG AAAAAG
1 AAAAAG AAAAAG
3882246 CGAGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 3 0.06
6 42 0.88
7 3 0.06
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:3885996 original size:18 final size:17
Alignment explanation
Indices: 3885973--3886006 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3885963 TTTTTATAAA
3885973 TTATTATAATGAAAAAAG
1 TTATTATAA-GAAAAAAG
*
3885991 TTATTATTAGAAAAAA
1 TTATTATAAGAAAAAA
3886007 ATCATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
TTATTATAAGAAAAAAG
Found at i:3886418 original size:33 final size:30
Alignment explanation
Indices: 3886381--3886449 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
3886371 TACATTTATT
3886381 ATTTTATTTTTAATTTAATTAGAATCCCATAAA
1 ATTTTA-TTTT-ATTT-ATTAGAATCCCATAAA
*
3886414 ATTTTA--TTCTTTATTAGAATCCCATAAA
1 ATTTTATTTTATTTATTAGAATCCCATAAA
*
3886442 AATTTATT
1 ATTTTATT
3886450 CTTTCTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
28 21 0.66
29 3 0.09
30 2 0.06
33 6 0.19
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTTATTTTATTTATTAGAATCCCATAAA
Found at i:3886429 original size:28 final size:28
Alignment explanation
Indices: 3886398--3886453 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
3886388 TTTTAATTTA
*
3886398 ATTAGAATCCCATAAAATTTTATTCTTT
1 ATTAGAATCCCATAAAAATTTATTCTTT
3886426 ATTAGAATCCCATAAAAATTTATTCTTT
1 ATTAGAATCCCATAAAAATTTATTCTTT
3886454 CTTTGACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTAGAATCCCATAAAAATTTATTCTTT
Found at i:3908360 original size:3 final size:3
Alignment explanation
Indices: 3908352--3908387 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
3908342 TCCCTGGTTT
*
3908352 TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3908388 ATTTTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:3909299 original size:21 final size:19
Alignment explanation
Indices: 3909284--3909335 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
3909274 TATATATCAT
3909284 AAATTATAAAAAATATATAA
1 AAATTATAAAAAATATAT-A
* *
3909304 AAATTTACAAAAAATTTATTA
1 AAA-TTATAAAAAATATA-TA
3909325 AAATTATAAAA
1 AAATTATAAAA
3909336 TATAAGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.37
21 16 0.59
22 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTATAAAAAATATATA
Found at i:3909304 original size:11 final size:10
Alignment explanation
Indices: 3909284--3909335 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
3909274 TATATATCAT
3909284 AAATTATAAA
1 AAATTATAAA
3909294 AAATATATAAA
1 AAAT-TATAAA
* *
3909305 AATTTACAAA
1 AAATTATAAA
*
3909315 AAATT-TATTA
1 AAATTATA-AA
3909325 AAATTATAAA
1 AAATTATAAA
3909335 A
1 A
3909336 TATAAGAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
9 1 0.03
10 21 0.64
11 11 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTATAAA
Found at i:3909496 original size:21 final size:21
Alignment explanation
Indices: 3909471--3909549 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
3909461 ATATATCATT
3909471 AAAATTATATTAAAAGTTACC
1 AAAATTATATTAAAAGTTACC
**
3909492 AAAATTATATT-AAAGATTGTC
1 AAAATTATATTAAAAG-TTACC
* *
3909513 AAAATTATGTAAAAAGTTACC
1 AAAATTATATTAAAAGTTACC
* * *
3909534 ACAATAATATGAAAAG
1 AAAATTATATTAAAAG
3909550 CTAAACAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
20 4 0.09
21 38 0.83
22 4 0.09
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAATTATATTAAAAGTTACC
Found at i:3909675 original size:21 final size:22
Alignment explanation
Indices: 3909650--3909701 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3909640 AAAAAATTTT
3909650 AAAATTATATC-ATAG-ATACCC
1 AAAATTATATCGATAGCATA-CC
*
3909671 AAAATTATA-CGATAGCTTACC
1 AAAATTATATCGATAGCATACC
3909692 AAAATTATAT
1 AAAATTATAT
3909702 AAAATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAATTATATCGATAGCATACC
Found at i:3909715 original size:21 final size:22
Alignment explanation
Indices: 3909691--3909783 Score: 102
Period size: 21 Copynumber: 4.3 Consensus size: 22
3909681 GATAGCTTAC
3909691 CAAAATTATATAAAATGTTA-A
1 CAAAATTATATAAAATGTTATA
* * *
3909712 CAAAATGATATGAAAGGTTATA
1 CAAAATTATATAAAATGTTATA
* *
3909734 AAAAATTATATCAAATGTTAT-
1 CAAAATTATATAAAATGTTATA
3909755 CAAAATTAT-TATAAATGTTATA
1 CAAAATTATATA-AAATGTTATA
*
3909777 AAAAATT
1 CAAAATT
3909784 TATTAATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 34 0.58
22 24 0.41
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (22 bp):
CAAAATTATATAAAATGTTATA
Found at i:3909743 original size:43 final size:43
Alignment explanation
Indices: 3909692--3909783 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
3909682 ATAGCTTACC
3909692 AAAATTATATAAAATGTTAACAAAATGA-TATGAAAGGTTATAA
1 AAAATTATATAAAATGTTAACAAAATGATTAT-AAAGGTTATAA
* * * *
3909735 AAAATTATATCAAATGTTATCAAAATTATTATAAATGTTATAA
1 AAAATTATATAAAATGTTAACAAAATGATTATAAAGGTTATAA
3909778 AAAATT
1 AAAATT
3909784 TATTAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 41 0.93
44 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (43 bp):
AAAATTATATAAAATGTTAACAAAATGATTATAAAGGTTATAA
Found at i:3909878 original size:20 final size:21
Alignment explanation
Indices: 3909840--3909889 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
3909830 GAAAATTTCA
* * *
3909840 AAAATTATATCGAATGTTATC
1 AAAATTATATCCAAGGTTAAC
*
3909861 -AAATTATATCCTAGGTTAAC
1 AAAATTATATCCAAGGTTAAC
3909881 AAAATTATA
1 AAAATTATA
3909890 AAAGTTATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATTATATCCAAGGTTAAC
Found at i:3910042 original size:21 final size:20
Alignment explanation
Indices: 3910006--3910054 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
3909996 TTAAAGGTTA
*
3910006 TAAAATTTATACAAAATTAC
1 TAAAATTTATAAAAAATTAC
3910026 TAAAATTATATAAAAAATTAC
1 TAAAATT-TATAAAAAATTAC
*
3910047 CAAAATTT
1 TAAAATTT
3910055 TATGAGGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATTTATAAAAAATTAC
Found at i:3928238 original size:19 final size:19
Alignment explanation
Indices: 3928214--3928251 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3928204 TTCAAGAAAG
3928214 ATGATTTCTACTCACTTCT
1 ATGATTTCTACTCACTTCT
*
3928233 ATGATTTCTACTCAGTTCT
1 ATGATTTCTACTCACTTCT
3928252 TTTTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (19 bp):
ATGATTTCTACTCACTTCT
Found at i:3935963 original size:4 final size:4
Alignment explanation
Indices: 3935949--3935986 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
3935939 TCAAAATTCA
* *
3935949 TATG AATG TATG TATG TATG TATA TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
3935987 CAGGTCTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:3942629 original size:291 final size:291
Alignment explanation
Indices: 3942105--3942689 Score: 1152
Period size: 291 Copynumber: 2.0 Consensus size: 291
3942095 AGGAATTGTA
3942105 TAATAGACACAAATGCAAGAATTGGAAAGAATGTTGTCATTGCAAACAAGGATGTAAGTTACCCC
1 TAATAGACACAAATGCAAGAATTGGAAAGAATGTTGTCATTGCAAACAAGGATGTAAGTTACCCC
3942170 CTGTTTGTAAAAGGTAAGGAATGTGGTTTTTGCTATATGATATTTGGTTGATATTACACTCTTTA
66 CTGTTTGTAAAAGGTAAGGAATGTGGTTTTTGCTATATGATATTTGGTTGATATTACACTCTTTA
3942235 TGCTTCTTAGTCTTATGACCAAAGTATTTTTAGCAAAATAAAAAAAGGTCTTCTGACTGAGGCTG
131 TGCTTCTTAGTCTTATGACCAAAGTATTTTTAGCAAAATAAAAAAAGGTCTTCTGACTGAGGCTG
3942300 TGATCAAGAACTTCCACTTTTCTAATCTCCTTTGGTTGAATTGCAGAATGTAGAATGTTGTCATT
196 TGATCAAGAACTTCCACTTTTCTAATCTCCTTTGGTTGAATTGCAGAATGTAGAATGTTGTCATT
*
3942365 GCAAACAAGGATGTAAGTTACCTCCTGTTTG
261 GCAAACAAGGATGTAAGTCACCTCCTGTTTG
3942396 TAATAGACACAAATGCAAGAATTGGAAAGAATGTTGTCATTGCAAACAAGGATGTAAGTTACCCC
1 TAATAGACACAAATGCAAGAATTGGAAAGAATGTTGTCATTGCAAACAAGGATGTAAGTTACCCC
3942461 CTGTTTGTAAAAGGTAAGGAATGTGGTTTTTGCTATATGATATTTGGTTGATATTACACTCTTTA
66 CTGTTTGTAAAAGGTAAGGAATGTGGTTTTTGCTATATGATATTTGGTTGATATTACACTCTTTA
*
3942526 TGCTTCTTAGTCTTATGACCAAAGTATTTTTAGCAAAATAGAAAAAGGTCTTCTGACTGAGGCTG
131 TGCTTCTTAGTCTTATGACCAAAGTATTTTTAGCAAAATAAAAAAAGGTCTTCTGACTGAGGCTG
3942591 TGATCAAGAACTTCCACTTTTCTAATCTCCTTTGGTTGAATTGCAGAATGTAGAATGTTGTCATT
196 TGATCAAGAACTTCCACTTTTCTAATCTCCTTTGGTTGAATTGCAGAATGTAGAATGTTGTCATT
3942656 GCAAACAAGGATGTAAGTCACCTCCTGTTTG
261 GCAAACAAGGATGTAAGTCACCTCCTGTTTG
3942687 TAA
1 TAA
3942690 AAGGTACATC
Statistics
Matches: 292, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 292 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (291 bp):
TAATAGACACAAATGCAAGAATTGGAAAGAATGTTGTCATTGCAAACAAGGATGTAAGTTACCCC
CTGTTTGTAAAAGGTAAGGAATGTGGTTTTTGCTATATGATATTTGGTTGATATTACACTCTTTA
TGCTTCTTAGTCTTATGACCAAAGTATTTTTAGCAAAATAAAAAAAGGTCTTCTGACTGAGGCTG
TGATCAAGAACTTCCACTTTTCTAATCTCCTTTGGTTGAATTGCAGAATGTAGAATGTTGTCATT
GCAAACAAGGATGTAAGTCACCTCCTGTTTG
Found at i:3961913 original size:18 final size:18
Alignment explanation
Indices: 3961890--3961931 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3961880 AAATTCTTCC
3961890 TCTTCTGCATTTCAATTT
1 TCTTCTGCATTTCAATTT
**
3961908 TCTTCTGTTTTTCAATTT
1 TCTTCTGCATTTCAATTT
*
3961926 CCTTCT
1 TCTTCT
3961932 CCAACTTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.24, G:0.05, T:0.60
Consensus pattern (18 bp):
TCTTCTGCATTTCAATTT
Found at i:3962927 original size:19 final size:21
Alignment explanation
Indices: 3962895--3962939 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
3962885 TAATTTTGTA
3962895 TTTATATTAAAAAAT-AATAT
1 TTTATATTAAAAAATAAATAT
*
3962915 TTTATATT-TAAAATAAATAT
1 TTTATATTAAAAAATAAATAT
3962935 TTTAT
1 TTTAT
3962940 TAATTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTAAAAAATAAATAT
Found at i:3964662 original size:2 final size:2
Alignment explanation
Indices: 3964611--3964648 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3964601 ACAAGTGTAC
*
3964611 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3964649 TCCAGATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3972003 original size:5 final size:5
Alignment explanation
Indices: 3971989--3972022 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
3971979 AGGAAAATAC
*
3971989 TTTTA ATTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
3972023 TATAACAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:3973636 original size:13 final size:13
Alignment explanation
Indices: 3973613--3973662 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
3973603 TTTAATGTAT
3973613 TTTTAATATATAAA
1 TTTT-ATATATAAA
*
3973627 TTTTATATAT-TA
1 TTTTATATATAAA
* *
3973639 -TTAATGTATAAA
1 TTTTATATATAAA
3973651 TTTTATATATAA
1 TTTTATATATAA
3973663 TTAGTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
13 15 0.54
14 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
TTTTATATATAAA
Found at i:3973637 original size:24 final size:24
Alignment explanation
Indices: 3973610--3973665 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
3973600 ATATTTAATG
*
3973610 TATTTTTAATATATAAATTTTATA
1 TATTATTAATATATAAATTTTATA
*
3973634 TATTATTAATGTATAAATTTTATA
1 TATTATTAATATATAAATTTTATA
*
3973658 TATAATTA
1 TATTATTA
3973666 GTAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTATTAATATATAAATTTTATA
Found at i:3976945 original size:18 final size:18
Alignment explanation
Indices: 3976922--3976974 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3976912 TATTAATAAT
3976922 TTTTATATTTATATTATA
1 TTTTATATTTATATTATA
** *
3976940 TTTTATATACAAATTATA
1 TTTTATATTTATATTATA
*
3976958 TATTATAATTTATATTA
1 TTTTAT-ATTTATATTA
3976975 ATATAAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATATTTATATTATA
Found at i:3977038 original size:11 final size:11
Alignment explanation
Indices: 3977005--3977042 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3976995 AATTTTTGAG
3977005 TTTTATTAAAA
1 TTTTATTAAAA
*
3977016 TTATA-TATAAA
1 TTTTATTA-AAA
3977027 TTTTATTAAAA
1 TTTTATTAAAA
3977038 TTTTA
1 TTTTA
3977043 ATTCATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 19 0.83
12 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTATTAAAA
Found at i:3983773 original size:23 final size:21
Alignment explanation
Indices: 3983747--3983794 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
3983737 TTATATTCAA
*
3983747 TTTAAAATTAATAAAATATTATT
1 TTTAAAA-T-ATAAAATAATATT
3983770 TTT-AAATATAAAATAATATT
1 TTTAAAATATAAAATAATATT
3983790 TTTAA
1 TTTAA
3983795 TATAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 15 0.65
21 2 0.09
22 3 0.13
23 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAAATATAAAATAATATT
Found at i:3983805 original size:23 final size:20
Alignment explanation
Indices: 3983757--3983799 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3983747 TTTAAAATTA
*
3983757 ATAAAATATTATTTTTAAAT
1 ATAAAATAATATTTTTAAAT
3983777 ATAAAATAATATTTTT-AAT
1 ATAAAATAATATTTTTAAAT
3983796 ATAA
1 ATAA
3983800 GTAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATAATATTTTTAAAT
Found at i:3983821 original size:24 final size:24
Alignment explanation
Indices: 3983794--3983875 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
3983784 AATATTTTTA
*
3983794 ATATAAGTAAAAAATTAAATAAAT
1 ATATAAATAAAAAATTAAATAAAT
*
3983818 ATATAAATAAAAAATTAAATAATT
1 ATATAAATAAAAAATTAAATAAAT
* * *
3983842 A-ATTAAA-AATAAATTATATATAT
1 ATA-TAAATAAAAAATTAAATAAAT
3983865 ATATCAAATAA
1 ATAT-AAATAA
3983876 GATCAAATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 15 0.31
24 31 0.65
25 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (24 bp):
ATATAAATAAAAAATTAAATAAAT
Found at i:3983836 original size:12 final size:12
Alignment explanation
Indices: 3983801--3983857 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
3983791 TTAATATAAG
3983801 TAAAAAATTAAA
1 TAAAAAATTAAA
*
3983813 T-AAATATATAAA
1 TAAAAAAT-TAAA
3983825 TAAAAAATTAAA
1 TAAAAAATTAAA
**
3983837 TAATTAATTAAA
1 TAAAAAATTAAA
*
3983849 -AATAAATTA
1 TAAAAAATTA
3983858 TATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 13 0.34
12 20 0.53
13 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAAATTAAA
Found at i:3983836 original size:20 final size:19
Alignment explanation
Indices: 3983810--3983861 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
3983800 GTAAAAAATT
3983810 AAATAAATATATAAATAAA
1 AAATAAATATATAAATAAA
* *
3983829 AAATTAAATA-ATTAATTAA
1 AAA-TAAATATATAAATAAA
3983848 AAATAAATTATATA
1 AAATAAA-TATATA
3983862 TATATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAATATATAAATAAA
Found at i:3989627 original size:6 final size:6
Alignment explanation
Indices: 3989616--3989641 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3989606 ACTATGACTT
3989616 AAAACC AAAACC AAAACC AAAACC AA
1 AAAACC AAAACC AAAACC AAAACC AA
3989642 CTCTTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:3995628 original size:24 final size:25
Alignment explanation
Indices: 3995579--3995628 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
3995569 ATTTATTTAA
* *
3995579 AAAATAATTTTAAATTATAAATAAT
1 AAAATAATTTTAAATAATAAAAAAT
*
3995604 AAAATTATTTT-AATAATAAAAAAT
1 AAAATAATTTTAAATAATAAAAAAT
3995628 A
1 A
3995629 TCGATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAATTTTAAATAATAAAAAAT
Found at i:3996014 original size:12 final size:13
Alignment explanation
Indices: 3995948--3996022 Score: 54
Period size: 12 Copynumber: 6.1 Consensus size: 13
3995938 ATATAAAAAA
*
3995948 ATAT-TTTAATTA
1 ATATATTTAATTT
*
3995960 AT-TAATTAATTT
1 ATATATTTAATTT
*
3995972 -TATACTT-ATTT
1 ATATATTTAATTT
*
3995983 ATATATTT-TTTAT
1 ATATATTTAATT-T
3995996 ATATATTTAATTT
1 ATATATTTAATTT
3996009 -TATATTTATATTT
1 ATATATTTA-ATTT
3996022 A
1 A
3996023 AAATAATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
11 6 0.12
12 28 0.56
13 14 0.28
14 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATATTTAATTT
Found at i:3996446 original size:22 final size:23
Alignment explanation
Indices: 3996418--3996467 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
3996408 TTAAAAAAAT
*
3996418 AAAATAAATTTT-AAATAT-TAAA
1 AAAAT-AATTTTGAAACATCTAAA
3996440 AAAATAATTTTGAAACATCTAAA
1 AAAATAATTTTGAAACATCTAAA
3996463 AAAAT
1 AAAAT
3996468 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATTTTGAAACATCTAAA
Found at i:3996448 original size:21 final size:22
Alignment explanation
Indices: 3996418--3996474 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
3996408 TTAAAAAAAT
*
3996418 AAAATAAATTTTAAATAT-TAAA
1 AAAAT-AATTTTAAACATCTAAA
3996440 AAAATAATTTTGAAACATCTAAA
1 AAAATAATTTT-AAACATCTAAA
3996463 AAAAT--TTTTAAA
1 AAAATAATTTTAAA
3996475 AAAAAGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 10 0.31
22 10 0.31
23 9 0.28
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATAATTTTAAACATCTAAA
Found at i:3997028 original size:13 final size:13
Alignment explanation
Indices: 3997010--3997034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3997000 GTTTCACGGC
3997010 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
3997023 AAAAAGAAAAAA
1 AAAAAGAAAAAA
3997035 CAAACACAAC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:4007329 original size:22 final size:22
Alignment explanation
Indices: 4007279--4007332 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
4007269 TATGAACAAA
4007279 TTTTT-AAA-AAATTTATATAT
1 TTTTTAAAAGAAATTTATATAT
4007299 TTTTTAAAAGAAATTT-TAT-T
1 TTTTTAAAAGAAATTTATATAT
*
4007319 TTTTTCAAA-AAATT
1 TTTTTAAAAGAAATT
4007333 AAAAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 5 0.16
20 14 0.45
21 6 0.19
22 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTTAAAAGAAATTTATATAT
Found at i:4008677 original size:23 final size:23
Alignment explanation
Indices: 4008630--4008679 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
4008620 AACAAAGTGA
4008630 ATATTTATTAATTTTTAAATATTT
1 ATATTTA-TAATTTTTAAATATTT
*
4008654 ATATTTA-AATTTGTTTAATATTT
1 ATATTTATAATTT-TTAAATATTT
4008677 ATA
1 ATA
4008680 ATATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTATAATTTTTAAATATTT
Found at i:4008713 original size:18 final size:18
Alignment explanation
Indices: 4008662--4008719 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
4008652 TTATATTTAA
4008662 ATTTGTTTAATATTTATAAT
1 ATTTGTTTAA-ATTTA-AAT
4008682 ATTTGAATTT--ATTTAAAT
1 ATTTG--TTTAAATTTAAAT
4008700 ATTTGTTTAAATTT-AAT
1 ATTTGTTTAAATTTAAAT
4008717 ATT
1 ATT
4008720 GTTAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 12 0.35
19 5 0.15
20 5 0.15
22 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTGTTTAAATTTAAAT
Found at i:4008719 original size:17 final size:17
Alignment explanation
Indices: 4008651--4008719 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
4008641 TTTTTAAATA
*
4008651 TTTATATTTAA-ATTTG
1 TTTAAATTTAATATTTG
4008667 TTTAATATTTATAATATTTG
1 TTTAA-A-TT-TAATATTTG
4008687 AATTT--ATTTAAATATTTG
1 --TTTAAATTT-AATATTTG
4008705 TTTAAATTTAATATT
1 TTTAAATTTAATATT
4008720 GTTAATTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 17
0.70 0.02 0.28
Matches are distributed among these distances:
16 7 0.16
17 8 0.19
18 16 0.37
19 4 0.09
20 5 0.12
22 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTAAATTTAATATTTG
Found at i:4019386 original size:2 final size:2
Alignment explanation
Indices: 4019381--4019412 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4019371 ATATATATAT
4019381 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4019413 ATTGACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4021236 original size:2 final size:2
Alignment explanation
Indices: 4021229--4021258 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4021219 GCATCTTCAA
4021229 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4021259 TCGTATTGTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4022364 original size:2 final size:2
Alignment explanation
Indices: 4022357--4022389 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4022347 TCACAGATTA
4022357 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 A
4022390 TGACAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4023554 original size:15 final size:14
Alignment explanation
Indices: 4023536--4023589 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
4023526 GAATGGTTGA
4023536 TTTAATTGATTTTAT
1 TTTAATT-ATTTTAT
4023551 TTT-A-TA-TTTAT
1 TTTAATTATTTTAT
*
4023562 TTTAATTTCTTTTAT
1 TTTAA-TTATTTTAT
*
4023577 TTTAATTTTTTTA
1 TTTAATTATTTTA
4023590 AAAAAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 1 0.03
14 9 0.27
15 13 0.39
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTAATTATTTTAT
Found at i:4023568 original size:26 final size:24
Alignment explanation
Indices: 4023536--4023590 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
4023526 GAATGGTTGA
4023536 TTTAATTGATTTTATTTTATATTTAT
1 TTTAATTGATTTTATTTTA-ATTT-T
**
4023562 TTTAATTTCTTTTATTTTAATTTT
1 TTTAATTGATTTTATTTTAATTTT
4023586 TTTAA
1 TTTAA
4023591 AAAAATATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 6 0.22
25 4 0.15
26 17 0.63
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTAATTGATTTTATTTTAATTTT
Found at i:4027518 original size:9 final size:9
Alignment explanation
Indices: 4027487--4027520 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4027477 TTAAAACACC
4027487 TAAAAAAAA
1 TAAAAAAAA
*
4027496 GAAAAAAAA
1 TAAAAAAAA
4027505 T-AAAAAAA
1 TAAAAAAAA
4027513 TAAAAAAA
1 TAAAAAAA
4027521 TTTGAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:4028300 original size:13 final size:14
Alignment explanation
Indices: 4028278--4028316 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4028268 AAAAAATGAA
*
4028278 AAATGA-AAAAGAG
1 AAATGAGAAAAAAG
4028291 AAA-GAGAAAAAAG
1 AAATGAGAAAAAAG
4028304 AAATGAGAAAAAA
1 AAATGAGAAAAAA
4028317 AATGATTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 12 0.52
14 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (14 bp):
AAATGAGAAAAAAG
Found at i:4028315 original size:15 final size:14
Alignment explanation
Indices: 4028267--4028317 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
4028257 GTAAAAAAAT
*
4028267 AAAAAAATGAAAAATG
1 AAAAAAA-GAAAGA-G
*
4028283 AAAAAGAGAAAGAG
1 AAAAAAAGAAAGAG
4028297 -AAAAAAGAAATGAG
1 AAAAAAAGAAA-GAG
4028311 AAAAAAA
1 AAAAAAA
4028318 ATGATTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 9 0.30
14 4 0.13
15 11 0.37
16 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAAAGAG
Found at i:4029864 original size:32 final size:32
Alignment explanation
Indices: 4029828--4029912 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 32
4029818 TTGGCCATTG
* *
4029828 ATGAAATTTTAAGCCCAGTTTAGCTGGCATCA
1 ATGAAATTTTAAGCCCAGTTTAGCTGACACCA
* * **
4029860 ATGAAA-TTTAAGCCTAGATTATTTGACACCA
1 ATGAAATTTTAAGCCCAGTTTAGCTGACACCA
* *
4029891 ATGAAATTTTAAGTCCAATTTA
1 ATGAAATTTTAAGCCCAGTTTA
4029913 ATTAGCTCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
31 25 0.60
32 17 0.40
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (32 bp):
ATGAAATTTTAAGCCCAGTTTAGCTGACACCA
Found at i:4030609 original size:37 final size:35
Alignment explanation
Indices: 4030568--4030656 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
4030558 ATTCTATTCA
4030568 ACTTGCGATGTTGTCTAAGTCAATTATTTATTTTTCG
1 ACTTGC-ATGTTGTCTAA-TCAATTATTTATTTTTCG
* * ** * *
4030605 ACTTGCAGTGTTATCTCATTTATTTTTTATTTTTTG
1 ACTTGCA-TGTTGTCTAATCAATTATTTATTTTTCG
4030641 ACTTGCAATGTTGTCT
1 ACTTGC-ATGTTGTCT
4030657 CGATTGCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
36 28 0.65
37 15 0.35
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (35 bp):
ACTTGCATGTTGTCTAATCAATTATTTATTTTTCG
Found at i:4030635 original size:36 final size:35
Alignment explanation
Indices: 4030594--4030752 Score: 108
Period size: 36 Copynumber: 4.4 Consensus size: 35
4030584 AAGTCAATTA
*
4030594 TTTATTTTTCGACTTGCAGTGTTATCTCATTTATTT
1 TTTATTTTTCGACTTGCAGTGTTATCTCA-TCATTT
* * * ***
4030630 TTTATTTTTTGACTTGCAATGTTGTCTCGATTGCTT
1 TTTATTTTTCGACTTGCAGTGTTATCTC-ATCATTT
* *
4030666 TTTGTTTTTCGACTT--ATGATGTTATCTTAGTCATTT
1 TTTATTTTTCGACTTGCA-G-TGTTATCTCA-TCATTT
** * *
4030702 TTTA-TTTTCTGACTTATAGTGTTGTCTCAATCATTC
1 TTTATTTTTC-GACTTGCAGTGTTATCTC-ATCATTT
*
4030738 TTTATTTTTCTACTT
1 TTTATTTTTCGACTT
4030753 ATGGTGTCGT
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
34 1 0.01
35 6 0.06
36 80 0.83
37 8 0.08
38 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (35 bp):
TTTATTTTTCGACTTGCAGTGTTATCTCATCATTT
Found at i:4030746 original size:72 final size:73
Alignment explanation
Indices: 4030575--4030755 Score: 176
Period size: 72 Copynumber: 2.5 Consensus size: 73
4030565 TCAACTTGCG
* *
4030575 ATGTTGTCT-AAGTCAATTATTTATTTTTCGAC-T-TGCAGTGTTATCTCATTTATTTTTTATTT
1 ATGTTGTCTCAA-TC-ATT-TTTATTTTTCGACTTATGCAGTGTTATCTCAGTCATTTTTTATTT
* *
4030637 TTTGACTTGCA
63 TCTGACTTACA
* * *
4030648 ATGTTGTCTCGATTGC-TTTTTGTTTTTCGACTTATG-A-TGTTATCTTAGTCATTTTTTATTTT
1 ATGTTGTCTC-AAT-CATTTTTATTTTTCGACTTATGCAGTGTTATCTCAGTCATTTTTTATTTT
*
4030710 CTGACTTATA
64 CTGACTTACA
* *
4030720 GTGTTGTCTCAATCATTCTTTATTTTTCTACTTATG
1 ATGTTGTCTCAATCATT-TTTATTTTTCGACTTATG
4030756 GTGTCGTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
70 1 0.01
71 4 0.04
72 66 0.74
73 13 0.15
74 3 0.03
75 2 0.02
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.56
Consensus pattern (73 bp):
ATGTTGTCTCAATCATTTTTATTTTTCGACTTATGCAGTGTTATCTCAGTCATTTTTTATTTTCT
GACTTACA
Found at i:4030753 original size:36 final size:35
Alignment explanation
Indices: 4030670--4030778 Score: 103
Period size: 36 Copynumber: 3.0 Consensus size: 35
4030660 TTGCTTTTTG
* * * *
4030670 TTTTTCGACTTATGATGTTATCTTAGTCATTTTTTA
1 TTTTTCTACTTATG-TGTTGTCTTAATCATTCTTTA
*
4030706 -TTTTCTGACTTATAGTGTTGTCTCAATCATTCTTTA
1 TTTTTCT-ACTTAT-GTGTTGTCTTAATCATTCTTTA
* * *
4030742 TTTTTCTACTTATGGTGTCGTCTTGATCGTTCTTTA
1 TTTTTCTACTTAT-GTGTTGTCTTAATCATTCTTTA
4030778 T
1 T
4030779 CACTTGACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
35 5 0.08
36 48 0.80
37 7 0.12
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.56
Consensus pattern (35 bp):
TTTTTCTACTTATGTGTTGTCTTAATCATTCTTTA
Found at i:4031141 original size:23 final size:22
Alignment explanation
Indices: 4031111--4031169 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 22
4031101 TCGATTTTTG
4031111 AATT-TAATTTTATTTTTCATA
1 AATTATAATTTTATTTTTCATA
* * *
4031132 AATTGATAATTATCTTTTTGATA
1 AATT-ATAATTTTATTTTTCATA
* *
4031155 TATTTTAATTTTATT
1 AATTATAATTTTATT
4031170 GTAATGATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 4 0.14
22 8 0.28
23 17 0.59
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
AATTATAATTTTATTTTTCATA
Found at i:4032365 original size:22 final size:21
Alignment explanation
Indices: 4032340--4032380 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4032330 GTTGTTGAAA
4032340 TATTTAAATTTTATTTATTTGG
1 TATTTAAATTTTA-TTATTTGG
* *
4032362 TATTTTATTTTTATTATTT
1 TATTTAAATTTTATTATTT
4032381 ATCTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTAAATTTTATTATTTGG
Found at i:4032812 original size:31 final size:32
Alignment explanation
Indices: 4032777--4032844 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
4032767 ATTATTTTAG
*
4032777 TTTAAAATATTTTATTATCA-TCAATTAAGTT
1 TTTAAAATATTTTATTATCATTCAATTAAATT
* * * *
4032808 TTT-AATTTTTTTATTTTGATTCAATTAAATT
1 TTTAAAATATTTTATTATCATTCAATTAAATT
4032839 TTTAAA
1 TTTAAA
4032845 TAAACAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 12 0.40
31 16 0.53
32 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTAAAATATTTTATTATCATTCAATTAAATT
Found at i:4032822 original size:30 final size:31
Alignment explanation
Indices: 4032786--4032843 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4032776 GTTTAAAATA
*
4032786 TTTTATTATCA-TCAATTAAGTTTTTAATTT
1 TTTTATTATCATTCAATTAAATTTTTAATTT
* *
4032816 TTTTATTTTGATTCAATTAAATTTTTAA
1 TTTTATTATCATTCAATTAAATTTTTAA
4032844 ATAAACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTTATTATCATTCAATTAAATTTTTAATTT
Found at i:4032880 original size:19 final size:18
Alignment explanation
Indices: 4032847--4032885 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4032837 TTTTTAAATA
*
4032847 AACAAAATCTAATCACGT
1 AACAAAATCTAATCAAGT
*
4032865 AACAAAATTTTAATCAAGT
1 AACAAAA-TCTAATCAAGT
4032884 AA
1 AA
4032886 TTTTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (18 bp):
AACAAAATCTAATCAAGT
Found at i:4034437 original size:35 final size:34
Alignment explanation
Indices: 4034397--4034465 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
4034387 TGGCCTTTGA
*
4034397 GTTAAATGTGATATTCAAATTTAAATGGAAAAAGG
1 GTTAAATGTGATATTCAAATATAAAT-GAAAAAGG
*
4034432 GTTAAATGTGATATTCAAGTATAAATGAAAAAGG
1 GTTAAATGTGATATTCAAATATAAATGAAAAAGG
4034466 TACATCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.30
Consensus pattern (34 bp):
GTTAAATGTGATATTCAAATATAAATGAAAAAGG
Found at i:4036616 original size:42 final size:41
Alignment explanation
Indices: 4036543--4036622 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
4036533 AAAATAATTA
* *
4036543 TATTTGAACATAAATAATTATTTTATGATAAATTGTTATAAC
1 TATTTGAACATAAATAATTATTATATCATAAA-TGTTATAAC
*
4036585 TATTTGAATATAAATAGATTATTAT-TCATAAATGTTAT
1 TATTTGAACATAAATA-ATTATTATATCATAAATGTTAT
4036623 GATTATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 6 0.18
42 21 0.62
43 7 0.21
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (41 bp):
TATTTGAACATAAATAATTATTATATCATAAATGTTATAAC
Found at i:4045019 original size:3 final size:3
Alignment explanation
Indices: 4045013--4045047 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4045003 TTTTAAAAAT
4045013 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4045048 TTACCTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4045652 original size:13 final size:13
Alignment explanation
Indices: 4045634--4045663 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4045624 TAATGAAAAT
4045634 AAAATTAAAAACA
1 AAAATTAAAAACA
*
4045647 AAAATTAAAAAGA
1 AAAATTAAAAACA
4045660 AAAA
1 AAAA
4045664 AAATAAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATTAAAAACA
Found at i:4046819 original size:197 final size:196
Alignment explanation
Indices: 4046452--4046823 Score: 445
Period size: 197 Copynumber: 1.9 Consensus size: 196
4046442 TTTACAAAAT
* *
4046452 AAAATTTTTGAGAATAAATAATAATTATCTAATGATAAAATTTTGAGAAATTTCAAATGGTAAAT
1 AAAATTTTTGAGAATAAATAATAATTACCCAATGATAAAATTTTGAGAAATTTCAAATGGTAAAT
* * *
4046517 TTTTATAAAATTCTCAGGTGAGAAATTTTTACTAAATTTATCCCAAATGGTGAAAAATTTTCAAT
66 TTATATAAAATTCTCAGGTGAGAAATTTTTACTAAATTTATCCCAAATGATGAAAAATTTTAAAT
*
4046582 AAAGTTTCAATAATAATAATAAATATTTATTTTTAATAAAAAAAGAAAAAAAAAGAAATTTTAAG
131 AAAGTTTCAATAAAAATAATAAATATTTATTTTTAATAAAAAAAGAAAAAAAAAGAAATTTTAAG
4046647 G
196 G
* * * * * *
4046648 AAAATTTTTG-GAAATTACATACTAATTACCCAATGATGAGATTTTTAGAAATTTCAAATTGTAA
1 AAAATTTTTGAG-AA-TAAATAATAATTACCCAATGATAAAATTTTGAGAAATTTCAAATGGTAA
* * *
4046712 ATTTATATAAAA-TCTCCAGGTGA-AAATTTTCT-TTAAATTTGTCCGAAATGATGAAATAA-TT
64 ATTTATATAAAATTCT-CAGGTGAGAAATTTT-TACTAAATTTATCCCAAATGATGAAA-AATTT
* **
4046773 TAAATGAAA-TTTTAATAAAAAGTAAT-TGTATTT-TCTTTTAAATAAAAAAAG
126 TAAAT-AAAGTTTCAATAAAAA-TAATAAATATTTAT-TTTT-AATAAAAAAAG
4046824 TTTGGTTGAA
Statistics
Matches: 149, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
195 2 0.01
196 67 0.45
197 80 0.54
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (196 bp):
AAAATTTTTGAGAATAAATAATAATTACCCAATGATAAAATTTTGAGAAATTTCAAATGGTAAAT
TTATATAAAATTCTCAGGTGAGAAATTTTTACTAAATTTATCCCAAATGATGAAAAATTTTAAAT
AAAGTTTCAATAAAAATAATAAATATTTATTTTTAATAAAAAAAGAAAAAAAAAGAAATTTTAAG
G
Found at i:4047172 original size:52 final size:52
Alignment explanation
Indices: 4047030--4047171 Score: 248
Period size: 52 Copynumber: 2.7 Consensus size: 52
4047020 TTTAGATAGA
* *
4047030 CCCAAATGATGAAAAATTTAGAAATAAAACTTTAAAAATTTTTCTAAATTGG
1 CCCAAATAATAAAAAATTTAGAAATAAAACTTTAAAAATTTTTCTAAATTGG
4047082 CCCAAATAATAAAAAATTTAGAAATAAAACTTTAAAAATTTTTCTAAATTGG
1 CCCAAATAATAAAAAATTTAGAAATAAAACTTTAAAAATTTTTCTAAATTGG
*
4047134 CCCAAATAATAAAAAATTTAAAAATAAAACTTATAAAA
1 CCCAAATAATAAAAAATTTAGAAATAAAACTT-TAAAA
4047172 TAAAAAATAA
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 81 0.94
53 5 0.06
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (52 bp):
CCCAAATAATAAAAAATTTAGAAATAAAACTTTAAAAATTTTTCTAAATTGG
Found at i:4048363 original size:6 final size:6
Alignment explanation
Indices: 4048357--4048409 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
4048347 TTTTGTTATA
* *
4048357 ATAATA ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATTATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
4048405 A-AATT
1 ATAATT
4048410 TTCTATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
5 3 0.07
6 41 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:4048425 original size:16 final size:18
Alignment explanation
Indices: 4048400--4048436 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
4048390 ATTATAATTA
4048400 TTATTAAATT-TT-CTAT
1 TTATTAAATTCTTGCTAT
*
4048416 TTATTTAATTCTTGCTAT
1 TTATTAAATTCTTGCTAT
4048434 TTA
1 TTA
4048437 CTTGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATTAAATTCTTGCTAT
Found at i:4048578 original size:21 final size:22
Alignment explanation
Indices: 4048552--4048592 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4048542 TATGATTTCA
4048552 TTTTTATTAATAAT-TTTTTAT
1 TTTTTATTAATAATATTTTTAT
*
4048573 TTTTTATTATTAATATTTTT
1 TTTTTATTAATAATATTTTT
4048593 TTTGCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTATTAATAATATTTTTAT
Found at i:4048786 original size:23 final size:23
Alignment explanation
Indices: 4048760--4048806 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4048750 AAATTATATA
* * *
4048760 TTTATTATTAGTGTTTTTATTTT
1 TTTATCATTAGTATATTTATTTT
*
4048783 TTTATCATTATTATATTTATTTT
1 TTTATCATTAGTATATTTATTTT
4048806 T
1 T
4048807 AAATATCCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTATCATTAGTATATTTATTTT
Found at i:4050512 original size:17 final size:17
Alignment explanation
Indices: 4050480--4050513 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4050470 TTGAAAATTT
**
4050480 TTAAATATTATTTAATA
1 TTAAATATTAAATAATA
4050497 TTAAATATTAAATAATA
1 TTAAATATTAAATAATA
4050514 AAATGACATT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATATTAAATAATA
Found at i:4051214 original size:19 final size:19
Alignment explanation
Indices: 4051174--4051218 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4051164 ATCAACATAC
*
4051174 AAAATAAATAGACAATGAA
1 AAAATAAATACACAATGAA
*
4051193 AAAATAAATACA-AATTATA
1 AAAATAAATACACAATGA-A
4051212 AAAATAA
1 AAAATAA
4051219 TGTATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAATAAATACACAATGAA
Found at i:4051358 original size:2 final size:2
Alignment explanation
Indices: 4051346--4051380 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4051336 TTTACGCTAC
*
4051346 TA TA T- TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4051381 GACACTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4063975 original size:25 final size:25
Alignment explanation
Indices: 4063946--4063995 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4063936 AGGATATGAG
4063946 AATATACACTTGATTCTATGACTAT
1 AATATACACTTGATTCTATGACTAT
*
4063971 AATATACATTTGATTCTATGACTAT
1 AATATACACTTGATTCTATGACTAT
4063996 TTATCTCATG
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:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (25 bp):
AATATACACTTGATTCTATGACTAT
Found at i:4066580 original size:84 final size:84
Alignment explanation
Indices: 4066420--4066581 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 84
4066410 AATTGAATAG
* * * * *
4066420 GAGCTAATTGCTACATCGTGAGAACTACCTCTAAAATCCTGCAAGGACTAAGTGCTATAGTGTGT
1 GAGCTAAATGCTACATCGTGAGAACTACATCTAAAATCCTGCAAGGACTAAGTGCTATAATATGA
**
4066485 GGTTCTATGATTCCATGTT
66 CCTTCTATGATTCCATGTT
* * *
4066504 GAGCTAAATGCTATATCGTGAGAACTACATCTAGAATCCTG-TAGGAGCTAAGTGCTATAATATG
1 GAGCTAAATGCTACATCGTGAGAACTACATCTAAAATCCTGCAAGGA-CTAAGTGCTATAATATG
*
4066568 ACCTTCTGTGATTC
65 ACCTTCTATGATTC
4066582 TGTGTGCTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
83 4 0.06
84 62 0.94
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (84 bp):
GAGCTAAATGCTACATCGTGAGAACTACATCTAAAATCCTGCAAGGACTAAGTGCTATAATATGA
CCTTCTATGATTCCATGTT
Found at i:4074878 original size:13 final size:13
Alignment explanation
Indices: 4074860--4074884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4074850 TAGAAAAAAA
4074860 AAAATTTTTTTAT
1 AAAATTTTTTTAT
4074873 AAAATTTTTTTA
1 AAAATTTTTTTA
4074885 ATTATAACTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAAATTTTTTTAT
Found at i:4075096 original size:168 final size:165
Alignment explanation
Indices: 4074812--4075143 Score: 474
Period size: 168 Copynumber: 2.0 Consensus size: 165
4074802 TAATAAAAAA
*
4074812 AAAAAAAAAGAAATTTTAATAATCATTACTTGGATAAATAGAAAAAAAAAAATTTTTTTATAAAA
1 AAAAAAAAAGAAATTTTAATAATCATTACTTGGATAAATAAAAAAAAAAAAATTTTTTTATAAAA
* * * **
4074877 TTTTTTTAATTATAACTTTTTTTTATAAATTAACTTATAACATATAAAATATAT-TTT-TATTAA
66 TTTTTTTAATTATAACTTTTTTTTATAAAGTAACATATAACATACAAAATATATCTTTATACAAA
*
4074940 CTAATTTATATAAACAATTTTTTTTAAACAAAATG
131 CTAACTTATATAAACAATTTTTTTTAAACAAAATG
*
4074975 AAAATAAAA-AAATTTTAATAATCATTACTTGGATAAATAAAAAAAAAATAAGAAATAATTTTTT
1 AAAAAAAAAGAAATTTTAATAATCATTACTTGGATAAAT--AAAAAAAA-AA-AAAT--TTTTTT
* *
4075039 ATAATATTTTTTTTAATTATAA-TTTTTTTTATAAAGTAACATATAATATACAAAATATATCTTT
60 ATAA-AATTTTTTTAATTATAACTTTTTTTTATAAAGTAACATATAACATACAAAATATATCTTT
*
4075103 ATACAAACTAGCTTATATAAACAATTTTTTTTAAACAAAAT
124 ATACAAACTAACTTATATAAACAATTTTTTTTAAACAAAAT
4075144 TAAGCATGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
162 29 0.19
163 8 0.05
164 7 0.05
165 2 0.01
166 4 0.03
168 44 0.30
169 19 0.13
170 36 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (165 bp):
AAAAAAAAAGAAATTTTAATAATCATTACTTGGATAAATAAAAAAAAAAAAATTTTTTTATAAAA
TTTTTTTAATTATAACTTTTTTTTATAAAGTAACATATAACATACAAAATATATCTTTATACAAA
CTAACTTATATAAACAATTTTTTTTAAACAAAATG
Found at i:4086658 original size:22 final size:23
Alignment explanation
Indices: 4086618--4086660 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4086608 TTAAAAAAAC
4086618 AAATTATTTATATTATTATATAA
1 AAATTATTTATATTATTATATAA
*
4086641 AAATTATTT-TATTTTTATAT
1 AAATTATTTATATTATTATAT
4086661 TATATACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AAATTATTTATATTATTATATAA
Found at i:4088325 original size:21 final size:21
Alignment explanation
Indices: 4088301--4088352 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
4088291 CATACCTTCT
*
4088301 TCCATCTTTAGAGAATACAGA
1 TCCATCTTCAGAGAATACAGA
4088322 TCCATCTTCAGAGAATACAGA
1 TCCATCTTCAGAGAATACAGA
4088343 TCCATCTTCA
1 TCCATCTTCA
4088353 AACATAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (21 bp):
TCCATCTTCAGAGAATACAGA
Found at i:4091378 original size:36 final size:37
Alignment explanation
Indices: 4091309--4091382 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
4091299 CTGTGGGACC
* *
4091309 AGGGAAGGAAAAACATGGCTTAGTACTGCTGAAATAT
1 AGGGAAGGAAAAACATGGCTCAGCACTGCTGAAATAT
*
4091346 AGGGAAGG-AAAACGTGGCTCAGCACTAG-TGAAATAT
1 AGGGAAGGAAAAACATGGCTCAGCACT-GCTGAAATAT
4091382 A
1 A
4091383 TTTGCCATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 24 0.73
37 9 0.27
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (37 bp):
AGGGAAGGAAAAACATGGCTCAGCACTGCTGAAATAT
Found at i:4094908 original size:28 final size:29
Alignment explanation
Indices: 4094871--4094927 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
4094861 TCAAATCTAG
4094871 ATTTTTATATAAA-ATTTTA-TACTTTTTA
1 ATTTTTATATAAATATTTTATTA-TTTTTA
4094899 ATTTTTATATAAATATTTTATTATTTTTA
1 ATTTTTATATAAATATTTTATTATTTTTA
4094928 TACTTCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 13 0.48
29 12 0.44
30 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTATATAAATATTTTATTATTTTTA
Found at i:4097005 original size:14 final size:15
Alignment explanation
Indices: 4096977--4097006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4096967 TTTTTTTTCT
4096977 TCTTTTATCTATTTA
1 TCTTTTATCTATTTA
4096992 TCTTTTAT-TATTTA
1 TCTTTTATCTATTTA
4097006 T
1 T
4097007 TGATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTTTATCTATTTA
Found at i:4097160 original size:59 final size:58
Alignment explanation
Indices: 4097066--4097384 Score: 277
Period size: 59 Copynumber: 5.3 Consensus size: 58
4097056 TTTTCAATGA
* * * *
4097066 TTCTTTTAAAATAAATTTTTTTAAAAAAACATTTTTAAAAGAAAGTTGAAAGTATCAATT
1 TTCTTTGAAAATAAA-ATTTTTAAAAAAATATTTTT-GAAGAAAGTTGAAAGTATCAATT
* * *
4097126 TTCTTTAAAAATAAAATTTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATT
1 TTCTTTGAAAATAAAATTTTTAAAAAAATATTTTTGAAG-AAAGTTGAAAGTATCAATT
*
4097185 TTCTTTGAAAATAAAATTTTTTAAAAAATAATAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTCTTTGAAAATAAAA-TTTTT----AA-AA-AAATATTTTTGA-AGAAAGTTGAAAGTATCAAT
4097250 T
58 T
* * ** *
4097251 TT-TCATGAAAATAAAATTTTCAAAAAAGATA-TTTTGGGGAAAAGTTGATAGTATCAATT
1 TTCT-TTGAAAATAAAATTTTTAAAAAA-ATATTTTTGAAG-AAAGTTGAAAGTATCAATT
* * ****
4097310 TT-TCTTGAAATTAAAATTTTCAAAAAGGCGTTTTT-AAGGAAAAGTTGAAAGTATCAATT
1 TTCT-TTGAAAATAAAATTTTTAAAAAAATATTTTTGAA-G-AAAGTTGAAAGTATCAATT
*
4097369 TTCGTTGAAAATAAAA
1 TTCTTTGAAAATAAAA
4097385 AGCTTAAAAT
Statistics
Matches: 217, Mismatches: 27, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
58 2 0.01
59 137 0.63
60 24 0.11
61 2 0.01
64 2 0.01
65 7 0.03
66 43 0.20
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (58 bp):
TTCTTTGAAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAGTTGAAAGTATCAATT
Found at i:4097233 original size:21 final size:20
Alignment explanation
Indices: 4097194--4097234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4097184 TTTCTTTGAA
*
4097194 AATAAAATTTTTTAAAAAAT
1 AATAAAATTTTTGAAAAAAT
4097214 AATAAATATTTTTGAGAAAAA
1 AATAAA-ATTTTTGA-AAAAA
4097235 GTTGAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
AATAAAATTTTTGAAAAAAT
Found at i:4098463 original size:4 final size:4
Alignment explanation
Indices: 4098454--4098483 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
4098444 GTGTGATGTG
*
4098454 TTAA TTAA TTAA TTAA TTAA TTTA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
4098484 TCTTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (4 bp):
TTAA
Found at i:4107918 original size:10 final size:10
Alignment explanation
Indices: 4107903--4107939 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
4107893 TACTATGCTT
*
4107903 AAAAAAATAA
1 AAAAAAAGAA
4107913 AAAAAAAGAA
1 AAAAAAAGAA
*
4107923 AAAAAGAGAA
1 AAAAAAAGAA
4107933 AAAAAAA
1 AAAAAAA
4107940 TGAGGACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:4108976 original size:41 final size:41
Alignment explanation
Indices: 4108911--4109337 Score: 514
Period size: 41 Copynumber: 10.4 Consensus size: 41
4108901 TTTAAAGAGT
* *
4108911 AATTTATTTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGT
1 AATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
** *
4108953 AATTTATTTTTCAAAGTCATGGTGCCTTTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* * * *
4108994 AATTCACTTTTCAAAGTTGTAGTACCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
*
4109035 AATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGC
1 AATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* * * *
4109077 AATTCACTTTTCAAAGTTATAGTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* *
4109118 AATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* * * *
4109159 AATTCACTTTCCAAAGTTGTAGTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* * * * * *
4109200 AATTTATTTTTTCAAAGTCGTCGTACCTATATTTAGAGGAGT
1 AATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* *
4109242 AATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
* * * * * *
4109283 AATTTACTTTTCAAAGTTGTAGTACCTCTATTTAAATGAGC
1 AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
4109324 AATTTA-TTTTCAAA
1 AATTTATTTTTCAAA
4109338 AGTCGTTAAA
Statistics
Matches: 330, Mismatches: 53, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
40 8 0.02
41 247 0.75
42 75 0.23
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (41 bp):
AATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
Found at i:4109131 original size:124 final size:123
Alignment explanation
Indices: 4108919--4109337 Score: 545
Period size: 124 Copynumber: 3.4 Consensus size: 123
4108909 GTAATTTATT
* * * * * *
4108919 TTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTCATGGTGCCTTTGT
1 TTTTCAAAGTTGTAGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTCATAGTGCCTATGT
* * * * *
4108984 TTAGAGGAGCAATTCACTTTTCAAAGTTGTAGTACCTCTGTTTAGAGGAGCAATTTATT
66 TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTA-C
* * * * *
4109043 TTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCAATTCACTTTTCAAAGTTATAGTGCCTCTGT
1 TTTTCAAAGTTGTAGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTCATAGTGCCTATGT
* * *
4109108 TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTCAC
66 TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
* * * * * *
4109166 TTTCCAAAGTTGTAGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTCGTACCTATA
1 TTTTCAAAGTTGTAGTGCCTCTGTTTAGAAGAGCAATTTA-TTTTTCAAAGTCATAGTGCCTATG
*
4109231 TTTAGAGGAGTAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
65 TTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
* *
4109290 TTTTCAAAGTTGTAGTACCTCTATTTA-AATGAGCAATTTA-TTTTCAAA
1 TTTTCAAAGTTGTAGTGCCTCTGTTTAGAA-GAGCAATTTATTTTTCAAA
4109338 AGTCGTTAAA
Statistics
Matches: 258, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
122 8 0.03
123 37 0.14
124 213 0.83
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (123 bp):
TTTTCAAAGTTGTAGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTCATAGTGCCTATGT
TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
Found at i:4109191 original size:165 final size:165
Alignment explanation
Indices: 4108919--4109365 Score: 590
Period size: 165 Copynumber: 2.7 Consensus size: 165
4108909 GTAATTTATT
* * * *
4108919 TTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTCATGGTGCCTTTGT
1 TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGT
* *
4108984 TTAGAGGAGCAATTCACTTTTCAAAGTTGTAGTACCTCTGTTTAGAGGAGCAATTTATTTTTTCA
66 TTAAAGGAGCAATTCACTTTCCAAAGTTGTAGTACCTCTGTTTAGAGGAGCAATTTATTTTTTCA
* * * * *
4109049 AAGTTGTGGTGCCTCTGTTTAGAAGAGCAATTCAC
131 AAGTCGTCGTACCTATATTTAGAAGAGCAATTCAC
* *
4109084 TTTTCAAAGTTATAGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGT
1 TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGT
*
4109149 TTAAAGGAGCAATTCACTTTCCAAAGTTGTAGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCA
66 TTAAAGGAGCAATTCACTTTCCAAAGTTGTAGTACCTCTGTTTAGAGGAGCAATTTATTTTTTCA
* * * *
4109214 AAGTCGTCGTACCTATATTTAGAGGAGTAATTTAT
131 AAGTCGTCGTACCTATATTTAGAAGAGCAATTCAC
* * * * * * *
4109249 TTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTAGTACCTCTAT
1 TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGT
* * * * * *
4109314 TTAAATGAGCAATTTATTTTCAAAAGTCGTTA-AACCTCTGTTTAAGAGGAGC
66 TTAAAGGAGCAATTCACTTTCCAAAGTTG-TAGTACCTCTGTTT-AGAGGAGC
4109366 TTGTTTACTG
Statistics
Matches: 246, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
165 236 0.96
166 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (165 bp):
TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGT
TTAAAGGAGCAATTCACTTTCCAAAGTTGTAGTACCTCTGTTTAGAGGAGCAATTTATTTTTTCA
AAGTCGTCGTACCTATATTTAGAAGAGCAATTCAC
Found at i:4110415 original size:61 final size:59
Alignment explanation
Indices: 4110336--4110638 Score: 307
Period size: 59 Copynumber: 5.1 Consensus size: 59
4110326 TGATTCTTTT
*
4110336 AAAAT-AATTTTTTT-AAAAATATTTTTGAAGGAAAGTTGAAAGTATTAATTTCTT-TTG
1 AAAATAAATTTTTTTAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTT-TTCTTG
* * *
4110393 AAATTAATTTTTTTTTTAAAAAATATTTTTGAAGGAAAGTTGAAAATATCAA-TTTTCTTTG
1 AAAATAA--ATTTTTTTAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTTC-TTG
* ***
4110454 AAAATAAAATTTACAAAAAAATATTTTTG-AGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAATTTTTTTAAAAAATATTTTTGAAGG-AAAGTTGAAAGTATCAATTTTTCTTG
*** * *
4110513 AAAATAAAATTTTCAAAAAAAATATTTTGGGAA--AAAGTTGATAGTATCAATTTTTCTTG
1 AAAAT-AAATTTTTTTAAAAAATATTTT-TGAAGGAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
4110572 AAATTAAAATTTTTTAAAAAATATATTTTTAAGGAAAAGTTAAAAGTATCAA-TTTTCGTTG
1 AAAATAAATTTTTTTAAAAAATAT-TTTTGAAGG-AAAGTTGAAAGTATCAATTTTTC-TTG
4110633 AAAATA
1 AAAATA
4110639 CAAACCTTAA
Statistics
Matches: 204, Mismatches: 26, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
57 4 0.02
58 21 0.10
59 75 0.37
60 38 0.19
61 65 0.32
62 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (59 bp):
AAAATAAATTTTTTTAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:4110477 original size:120 final size:120
Alignment explanation
Indices: 4110350--4110638 Score: 333
Period size: 120 Copynumber: 2.4 Consensus size: 120
4110340 TAATTTTTTT
* * ** ***
4110350 AAAAATATTTTTGAAGG-AAAGTTGAAAGTATTAATTTCTT-TTGAAATTAATTTTTTTTTTAAA
1 AAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTT-TTCTTGAAAATAA-AATTTTCAAAAA
*
4110413 AAATATTTT-TGAAGGAAAGTTGAAAATATCAA-TTTTCTTTGAAAATAAAA-TTTACAA
64 AAATATTTTGGGAA--AAAGTTGAAAATATCAATTTTTC-TTGAAAATAAAATTTTACAA
4110470 AAAAATATTTTTG-AGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAA
1 AAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAA
* * * **
4110534 ATATTTTGGGAAAAAGTTGATAGTATCAATTTTTCTTGAAATTAAAATTTTTTAA
66 ATATTTTGGGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTACAA
*
4110589 AAAATATATTTTT-AAGGAAAAGTTAAAAGTATCAA-TTTTCGTTGAAAATA
1 AAAA-ATATTTTTGAAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATA
4110639 CAAACCTTAA
Statistics
Matches: 147, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
118 26 0.18
119 40 0.27
120 81 0.55
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (120 bp):
AAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAA
ATATTTTGGGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTACAA
Found at i:4116846 original size:25 final size:26
Alignment explanation
Indices: 4116818--4116875 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
4116808 TTATATTTTT
4116818 AATAAAAATTT-ATAAATATAAGAA-A
1 AATAAAAATTTGATAAA-ATAAGAATA
** *
4116843 AATAAATTTTTGATAAAATAGGAATA
1 AATAAAAATTTGATAAAATAAGAATA
4116869 AATAAAA
1 AATAAAA
4116876 GAAATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (26 bp):
AATAAAAATTTGATAAAATAAGAATA
Found at i:4123120 original size:2 final size:2
Alignment explanation
Indices: 4123113--4123147 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4123103 TGTCTGTGTC
*
4123113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4123148 TGTTGCCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4127180 original size:51 final size:51
Alignment explanation
Indices: 4127121--4127222 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
4127111 AGCCATTACC
*
4127121 ACTGGAGACAAAACGTGGCCCACTAATGAACCTAGAAAGAAATATGGCCAA
1 ACTGGAGACAAAACGTGGCCCACTAATGAACCCAGAAAGAAATATGGCCAA
4127172 ACTGGAGACAAAACGTGGCCCACTAATGAACCCAGAAAGAAATATGGCCAA
1 ACTGGAGACAAAACGTGGCCCACTAATGAACCCAGAAAGAAATATGGCCAA
4127223 TACAGGAACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.13
Consensus pattern (51 bp):
ACTGGAGACAAAACGTGGCCCACTAATGAACCCAGAAAGAAATATGGCCAA
Found at i:4127249 original size:51 final size:51
Alignment explanation
Indices: 4127124--4127249 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 51
4127114 CATTACCACT
*** * *
4127124 GGAGACAAAACGTGGCCCACTAATGAACCTAGAAAGAAATATGGCCAAACT
1 GGAGACAAAACACCGCCCACTAATGAACCCAGAAAGAAATATGGCCAAACA
***
4127175 GGAGACAAAACGTGGCCCACTAATGAACCCAGAAAGAAATATGGCCAATACA
1 GGAGACAAAACACCGCCCACTAATGAACCCAGAAAGAAATATGGCCAA-ACA
*
4127227 GGA-ACAGCAACACCGCCC-CTAAT
1 GGAGACA-AAACACCGCCCACTAAT
4127250 TTCTAAGGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 55 0.82
52 12 0.18
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (51 bp):
GGAGACAAAACACCGCCCACTAATGAACCCAGAAAGAAATATGGCCAAACA
Found at i:4130755 original size:61 final size:61
Alignment explanation
Indices: 4130659--4130781 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
4130649 CTCAAACAAA
*
4130659 AGAAAATGAAAGCCAGATTAACAACAATGCCAATCAAAAGAAGCTGAAAATAGGTAATGAG
1 AGAAAATGAAAGCCAGATTAACAACAATGCCAATCAAAAGAAGCCGAAAATAGGTAATGAG
*
4130720 AGAAAATGAAAGCCAGATTAACAACAATGCGAATCAAAAGAAGCCGAAAATAGGTAATGAG
1 AGAAAATGAAAGCCAGATTAACAACAATGCCAATCAAAAGAAGCCGAAAATAGGTAATGAG
4130781 A
1 A
4130782 AACATGCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.14
Consensus pattern (61 bp):
AGAAAATGAAAGCCAGATTAACAACAATGCCAATCAAAAGAAGCCGAAAATAGGTAATGAG
Found at i:4132161 original size:42 final size:42
Alignment explanation
Indices: 4132102--4132186 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
4132092 TTTTCTGTTT
* *
4132102 TTGTTTTTTTACAACTAGGTTAATTTGTGCTATACATATAAC
1 TTGTTTTTTTACAACTAGGTTAATTTGTCCTAAACATATAAC
* **
4132144 TTGTTTTTTTACAACTAGTTTGGTTTGTCCTAAACATATAAC
1 TTGTTTTTTTACAACTAGGTTAATTTGTCCTAAACATATAAC
4132186 T
1 T
4132187 AAGGAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (42 bp):
TTGTTTTTTTACAACTAGGTTAATTTGTCCTAAACATATAAC
Found at i:4132719 original size:3 final size:3
Alignment explanation
Indices: 4132711--4132736 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4132701 TGGTTCATAG
4132711 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
4132737 CCCTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:4133487 original size:1 final size:1
Alignment explanation
Indices: 4133481--4133507 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4133471 CGGTTTTGGG
4133481 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
4133508 CCAGGTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4143909 original size:6 final size:7
Alignment explanation
Indices: 4143891--4143926 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
4143881 CCAAATTGTA
4143891 AAAAAACC
1 AAAAAA-C
4143899 AAAAAAC
1 AAAAAAC
4143906 AAAAAAC
1 AAAAAAC
4143913 AAAAAAC
1 AAAAAAC
4143920 AAAAAAC
1 AAAAAAC
4143927 TAGTAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:4150576 original size:2 final size:2
Alignment explanation
Indices: 4150569--4150595 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4150559 TTTAATCGTT
4150569 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
4150596 GATGGGTTGG
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4155231 original size:33 final size:33
Alignment explanation
Indices: 4155189--4155278 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 33
4155179 AATGAGGAAG
* *
4155189 AACTTACTCCAATTTTGAGCTCTAGATAATAAA
1 AACTAACTCCAATTTTGAGCCCTAGATAATAAA
* * *
4155222 AACTAACTCCAA-TTTAAACCCT--AT-ATAAG
1 AACTAACTCCAATTTTGAGCCCTAGATAATAAA
*
4155251 ACCTAACTCCAATTTTGAGCCCTAGATA
1 AACTAACTCCAATTTTGAGCCCTAGATA
4155279 GAAACTAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
29 15 0.33
30 10 0.22
32 9 0.20
33 11 0.24
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (33 bp):
AACTAACTCCAATTTTGAGCCCTAGATAATAAA
Found at i:4157790 original size:3 final size:3
Alignment explanation
Indices: 4157782--4157821 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4157772 TTACACAGGG
4157782 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4157822 AGGTTCCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Done.