Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 154 of 205
Found at i:46249644 original size:21 final size:22
Alignment explanation
Indices: 46249618--46249666 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
46249608 CACACATTAC
46249618 TTATTTTAAA-CGTTTTACATA
1 TTATTTTAAATCGTTTTACATA
* * *
46249639 TTATTTTAAATTGTTTTATATG
1 TTATTTTAAATCGTTTTACATA
46249661 TTATTT
1 TTATTT
46249667 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTTTAAATCGTTTTACATA
Found at i:46249672 original size:26 final size:25
Alignment explanation
Indices: 46249639--46249718 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
46249629 GTTTTACATA
46249639 TTATTTTAAATTGTTTTATATG-TTAT
1 TTATTTTAAATTGTTTTA-A-GATTAT
* *
46249665 TTATTTTAAAATGCTTTGAAGATTAT
1 TTATTTTAAATTG-TTTTAAGATTAT
* * *
46249691 TCATTTTAACTTGTTTTACACATTAT
1 TTATTTTAAATTGTTTTA-AGATTAT
46249717 TT
1 TT
46249719 TAATATGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 5 0.12
26 34 0.79
27 4 0.09
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (25 bp):
TTATTTTAAATTGTTTTAAGATTAT
Found at i:46251272 original size:25 final size:25
Alignment explanation
Indices: 46251244--46251291 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46251234 ATAGTCTATC
* *
46251244 TATAGTAGTCTCAGTATATACTACT
1 TATAGCAGTCTCAGGATATACTACT
*
46251269 TATAGCAGTGTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
46251292 TCAAAGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACT
Found at i:46256302 original size:25 final size:26
Alignment explanation
Indices: 46256274--46256328 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
46256264 TTTATTAGAG
46256274 TTTATTACA-TTTTTAT-TT-TATAATA
1 TTTATTA-ATTTTTTATCTTATATAA-A
46256299 TTTA-TAATTTTTTATCTTATATAAA
1 TTTATTAATTTTTTATCTTATATAAA
46256324 TTTAT
1 TTTAT
46256329 ATGTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 1 0.04
24 9 0.35
25 11 0.42
26 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTATTAATTTTTTATCTTATATAAA
Found at i:46256318 original size:24 final size:23
Alignment explanation
Indices: 46256283--46256359 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 23
46256273 GTTTATTACA
46256283 TTTTTATTTTATAATATTTATAAT
1 TTTTTA-TTTATAATATTTATAAT
*
46256307 TTTTTATCTTATATAAATTTAT-AT
1 TTTTTAT-TTATA-ATATTTATAAT
*
46256331 GTATTTATATTTAGTAATTTTTATAAT
1 -T-TTT-TATTTA-TAATATTTATAAT
46256358 TT
1 TT
46256360 GTATAGTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 9 0.21
26 13 0.30
27 7 0.16
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (23 bp):
TTTTTATTTATAATATTTATAAT
Found at i:46256329 original size:25 final size:24
Alignment explanation
Indices: 46256283--46256359 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 24
46256273 GTTTATTACA
46256283 TTTTTATTTTATAATATTTATAAT
1 TTTTTATTTTATAATATTTATAAT
46256307 TTTTTATCTTATATAA-ATTTAT-AT
1 TTTTTAT-TT-TATAATATTTATAAT
* *
46256331 GTATTTATATTTAGTAATTTTTATAAT
1 -TTTTTAT-TTTA-TAATATTTATAAT
46256358 TT
1 TT
46256360 GTATAGTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 11 0.26
25 19 0.44
26 11 0.26
27 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (24 bp):
TTTTTATTTTATAATATTTATAAT
Found at i:46262410 original size:19 final size:19
Alignment explanation
Indices: 46262386--46262485 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
46262376 TATAAAAAAC
46262386 TAAAAATCATAAAAATTTA
1 TAAAAATCATAAAAATTTA
*
46262405 TAAAAATAATAAAAGATATT-
1 TAAAAATCATAAAA-AT-TTA
* * * *
46262425 TAAAATTTGATGAACA-TTA
1 TAAAA-ATCATAAAAATTTA
* *
46262444 TAAAAGTCAT-AAAATAT-
1 TAAAAATCATAAAAATTTA
* *
46262461 TAAAAATGATATAAATTTA
1 TAAAAATCATAAAAATTTA
46262480 TAAAAA
1 TAAAAA
46262486 AATAAAAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
17 11 0.18
18 11 0.18
19 24 0.39
20 8 0.13
21 7 0.11
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAATCATAAAAATTTA
Found at i:46262411 original size:10 final size:9
Alignment explanation
Indices: 46262327--46262621 Score: 97
Period size: 9 Copynumber: 31.4 Consensus size: 9
46262317 ATAAAATATT
46262327 AAAATTGATA
1 AAAATT-ATA
*
46262337 CAAATT-TA
1 AAAATTATA
* *
46262345 ATATTTATAA
1 AAAATTAT-A
46262355 AAAATTATA
1 AAAATTATA
*
46262364 AATATTAT-
1 AAAATTATA
46262372 AAAA-TATA
1 AAAATTATA
46262380 AAAA--ACTA
1 AAAATTA-TA
*
46262388 AAAATCATA
1 AAAATTATA
46262397 AAAATTTATA
1 AAAA-TTATA
*
46262407 AAAATAATA
1 AAAATTATA
*
46262416 AAAGATATTTA
1 AAA-AT-TATA
* *
46262427 AAATTTGATG
1 AAAATT-ATA
*
46262437 AACATTATA
1 AAAATTATA
* *
46262446 AAAGTCAT-
1 AAAATTATA
46262454 AAAA-TATTA
1 AAAATTA-TA
*
46262463 AAAATGATA
1 AAAATTATA
*
46262472 TAAATTTATAA
1 -AAAATTAT-A
* *
46262483 AAAAATAAA
1 AAAATTATA
46262492 AAAACTTATA
1 AAAA-TTATA
*
46262502 AATATTATA
1 AAAATTATA
*
46262511 AAAATAACTA
1 AAAATTA-TA
46262521 ATAAATCTA-A
1 A-AAAT-TATA
*
46262531 TAAATTATA
1 AAAATTATA
*
46262540 ATAGAATTAATTT
1 A-A-AATT-A-TA
*
46262553 AAAATAATTA
1 AAAATTA-TA
*
46262563 AAATCTTATTA
1 AAA-ATTA-TA
**
46262574 AATCTTATA
1 AAAATTATA
46262583 AACAA-TATA
1 AA-AATTATA
46262592 AAAATTATA
1 AAAATTATA
*
46262601 AAAA-AATA
1 AAAATTATA
46262609 AAAATTATA
1 AAAATTATA
46262618 AAAA
1 AAAA
46262622 GTCATTTAAA
Statistics
Matches: 210, Mismatches: 47, Indels: 57
0.67 0.15 0.18
Matches are distributed among these distances:
7 5 0.02
8 33 0.16
9 81 0.39
10 62 0.30
11 24 0.11
12 3 0.01
13 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:46262425 original size:75 final size:74
Alignment explanation
Indices: 46262354--46262492 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
46262344 AATATTTATA
*
46262354 AAAAATT-ATAAATATTATAAAA-T-ATAAAAAACTAAAAATCATAAAAATTTATAAAAATAATA
1 AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAA-AATA
46262416 AAAGATATTT
65 AAAGATATTT
* * * * * *
46262426 AAAATTTGATGAACATTATAAAAGTCATAAAATATTAAAAATGATATAAATTTATAAAAAAATAA
1 AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAAAATAA
46262491 AA
66 AA
46262493 AAACTTATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 6 0.11
73 13 0.23
74 8 0.14
75 30 0.53
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (74 bp):
AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAAAATAA
AAGATATTT
Found at i:46262533 original size:22 final size:21
Alignment explanation
Indices: 46262486--46262534 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
46262476 TTTATAAAAA
*
46262486 AATAAAAAAACTTATAAATAT
1 AATAAAAAAACTAATAAATAT
* *
46262507 TATAAAAATAACTAATAAATCT
1 AATAAAAA-AACTAATAAATAT
46262529 AATAAA
1 AATAAA
46262535 TTATAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAAAAACTAATAAATAT
Found at i:46262537 original size:29 final size:27
Alignment explanation
Indices: 46262471--46262540 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
46262461 TAAAAATGAT
*
46262471 ATAAATTTATAAAAAAATAAAAAAACTT
1 ATAAA-TTATAAAAAAATAAAAAAACTA
* *
46262499 ATAAATATTATAAAAATAACTAATAAATCTA
1 AT-AA-ATTATAAAAA-AA-TAAAAAAACTA
46262530 ATAAATTATAA
1 ATAAATTATAA
46262541 TAGAATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 2 0.06
29 18 0.51
30 5 0.14
31 10 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
ATAAATTATAAAAAAATAAAAAAACTA
Found at i:46262611 original size:17 final size:17
Alignment explanation
Indices: 46262578--46262621 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
46262568 TTATTAAATC
*
46262578 TTATAAACAATATAAAAA
1 TTATAAA-AAAATAAAAA
46262596 TTATAAAAAAATAAAAA
1 TTATAAAAAAATAAAAA
46262613 TTATAAAAA
1 TTATAAAAA
46262622 GTCATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TTATAAAAAAATAAAAA
Found at i:46263966 original size:17 final size:16
Alignment explanation
Indices: 46263929--46263978 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
46263919 TAAACAATGA
46263929 TTAAAAATCA-TAAAAT
1 TTAAAAAT-ATTAAAAT
*
46263945 ATAAAAATATTAAATAT
1 TTAAAAATATTAAA-AT
46263962 TTAAAAATATTAAAAT
1 TTAAAAATATTAAAAT
46263978 T
1 T
46263979 GACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 14 0.47
17 15 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAATATTAAAAT
Found at i:46263971 original size:10 final size:9
Alignment explanation
Indices: 46263928--46263976 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
46263918 ATAAACAATG
46263928 ATTAAAAAT
1 ATTAAAAAT
46263937 CA-T-AAAAT
1 -ATTAAAAAT
46263945 A-TAAAAAT
1 ATTAAAAAT
*
46263953 ATTAAATAT
1 ATTAAAAAT
46263962 -TTAAAAAT
1 ATTAAAAAT
46263970 ATTAAAA
1 ATTAAAA
46263977 TTGACACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.06
8 18 0.53
9 13 0.38
10 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:46264024 original size:29 final size:26
Alignment explanation
Indices: 46263989--46264059 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 26
46263979 GACACAAATT
* **
46263989 TAAAAATTATAAAATCTTATAAATAGTA
1 TAAAAATTATAAAA-ATTATAAA-ACAA
*
46264017 TAAAAAATTCTAATAAATTATAAAACAA
1 T-AAAAATTATAA-AAATTATAAAACAA
46264045 TAAAAATTATAAAAA
1 TAAAAATTATAAAAA
46264060 GTGATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 3 0.08
27 10 0.28
28 4 0.11
29 17 0.47
30 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (26 bp):
TAAAAATTATAAAAATTATAAAACAA
Found at i:46264048 original size:37 final size:37
Alignment explanation
Indices: 46263984--46264059 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
46263974 AAATTGACAC
* *
46263984 AAATTTAAAAATTATAAAATCTTATAAATAGTATAAA
1 AAATTTAAAAATTATAAAATCTAATAAAAAGTATAAA
*
46264021 AAATTCTAATAAATTATAAAA-C-AATAAAAATTATAAA
1 AAATT-TAA-AAATTATAAAATCTAATAAAAAGTATAAA
46264058 AA
1 AA
46264060 GTGATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 19 0.56
38 4 0.12
39 11 0.32
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (37 bp):
AAATTTAAAAATTATAAAATCTAATAAAAAGTATAAA
Found at i:46272051 original size:9 final size:9
Alignment explanation
Indices: 46271958--46272054 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 9
46271948 TTAAATATTT
*
46271958 AAAATTATT
1 AAAATTATA
*
46271967 AAAATTGACA
1 AAAATT-ATA
*
46271977 CAAATT-TA
1 AAAATTATA
46271985 AAAATTATA
1 AAAATTATA
*
46271994 AAATTTTATA
1 AAA-ATTATA
* *
46272004 AATAGTGTAAA
1 AA-AAT-TATA
*
46272015 AAAATTCTA
1 AAAATTATA
46272024 ATAAATTATA
1 A-AAATTATA
46272034 AAACA--ATA
1 AAA-ATTATA
46272042 AAAATTATA
1 AAAATTATA
46272051 AAAA
1 AAAA
46272055 GTGATTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.18
9 23 0.34
10 25 0.37
11 6 0.09
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:46272818 original size:9 final size:9
Alignment explanation
Indices: 46272788--46272924 Score: 57
Period size: 9 Copynumber: 14.2 Consensus size: 9
46272778 ACAAATATTA
*
46272788 TTTTAAAAT
1 TTTTATAAT
* *
46272797 ATTTATAAG
1 TTTTATAAT
46272806 TTTTATAAT
1 TTTTATAAT
46272815 TTTT-T-AT
1 TTTTATAAT
*
46272822 CTTATATAAGT
1 -TTTTATAA-T
46272833 TTATGTA-AAT
1 TT-T-TATAAT
46272843 TTTAATATATAT
1 TTT--TATA-AT
46272855 TTTTATAAT
1 TTTTATAAT
*
46272864 TTGTATAGCAT
1 TTTTATA--AT
*
46272875 TTTCTGATTA-
1 TTT-T-ATAAT
46272885 TTTTATAAT
1 TTTTATAAT
46272894 TTTTAATAAT
1 TTTT-ATAAT
*
46272904 TTTTATGAGT
1 TTTTAT-AAT
*
46272914 TTTTATTAT
1 TTTTATAAT
46272923 TT
1 TT
46272925 ATATTTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
7 2 0.02
8 7 0.07
9 37 0.38
10 32 0.33
11 9 0.09
12 8 0.08
13 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46272924 original size:19 final size:19
Alignment explanation
Indices: 46272881--46272941 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
46272871 GCATTTTCTG
46272881 ATTA-TTTTATAATTTTTA
1 ATTATTTTTATAATTTTTA
* *
46272899 ATAATTTTTATGAGTTTTT-
1 ATTATTTTTAT-AATTTTTA
46272918 ATTA--TTTAT-ATTTTTA
1 ATTATTTTTATAATTTTTA
*
46272934 AATATTTT
1 ATTATTTT
46272942 GTATGAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
15 5 0.15
16 3 0.09
17 5 0.15
18 5 0.15
19 9 0.27
20 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTATTTTTATAATTTTTA
Found at i:46273865 original size:39 final size:39
Alignment explanation
Indices: 46273822--46273955 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 39
46273812 GTTTGGGAAG
* * *
46273822 AAAACGCCGCTAAAAATCAAGCATTAGAGGCGCTTTTAA
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTTTTAA
* * * **
46273861 AAAACGCCGCTAAAGATCATGTATTAGCGGTGATTTTTGG
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCG-TTTTTAA
* *
46273901 AAAACACCGCTAAAAAT-GAGTATTAGCGGCGTTTGTTAA
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTT-TTAA
*
46273940 AAAGCGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
46273956 CCTAAGACAA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
38 3 0.04
39 54 0.71
40 19 0.25
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTTTTAA
Found at i:46275068 original size:40 final size:41
Alignment explanation
Indices: 46274999--46275112 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 41
46274989 TTTTGGGGGC
* * * * *
46274999 TTTAGCGGCGTTTTTTAAAAAACGTCGCTAATG-GTAAGGA
1 TTTAGCGGCATTTTTGACAAAGCGCCGCTAATGAGTAAGGA
* **
46275039 TTTAGCGGCATTTTT-ACGAAAGCGCCGCTAATGATTGGGGA
1 TTTAGCGGCATTTTTGAC-AAAGCGCCGCTAATGAGTAAGGA
* **
46275080 TTTAGCGGCGTTTTTGACAAAGCGTTGCTAATG
1 TTTAGCGGCATTTTTGACAAAGCGCCGCTAATG
46275113 CTCGCAGATT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.02
40 27 0.44
41 31 0.51
42 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCATTTTTGACAAAGCGCCGCTAATGAGTAAGGA
Found at i:46275123 original size:41 final size:41
Alignment explanation
Indices: 46275037--46275133 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 41
46275027 TAATGGTAAG
* * **
46275037 GATTTAGCGGCATTTTTACGAAAGCGCCGCTAATGATTGGG
1 GATTTAGCGGCGTTTTTACGAAAGCGCCGCTAATGATCGCA
** *
46275078 GATTTAGCGGCGTTTTTGAC-AAAGCGTTGCTAATGCTCGCA
1 GATTTAGCGGCGTTTTT-ACGAAAGCGCCGCTAATGATCGCA
*
46275119 GATTTAGAGGCGTTT
1 GATTTAGCGGCGTTT
46275134 CTAAAAAAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (41 bp):
GATTTAGCGGCGTTTTTACGAAAGCGCCGCTAATGATCGCA
Found at i:46275975 original size:14 final size:14
Alignment explanation
Indices: 46275946--46275998 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
46275936 CTTTTACGGA
*
46275946 TTGGGGTTTAGGGT
1 TTGGGGTTTAGTGT
*
46275960 TTGGGGTTTAATGTT
1 TTGGGGTTTAGTG-T
* *
46275975 TTGGGGTTTGGTTT
1 TTGGGGTTTAGTGT
46275989 TTGGGGTTTA
1 TTGGGGTTTA
46275999 TGATTTAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.51
Consensus pattern (14 bp):
TTGGGGTTTAGTGT
Found at i:46279216 original size:21 final size:21
Alignment explanation
Indices: 46279190--46279240 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46279180 CTACAACTTA
* *
46279190 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
46279211 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
46279232 AAGCAGAGG
1 AAGCAGAGG
46279241 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:46279290 original size:87 final size:87
Alignment explanation
Indices: 46279151--46279326 Score: 253
Period size: 87 Copynumber: 2.0 Consensus size: 87
46279141 ACCACAGTTA
* * * * * *
46279151 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
46279216 GAGGCTACAGCGAGAGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
* * *
46279238 AGGTTCAAAAGAAATATGAAAAACTCCAGCAACAACTTAAAACAAATACGGCATCGAGAGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
* *
46279303 GAGGCTGCAGCGAGGGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
46279325 AG
1 AG
46279327 CAGAGCAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.43, C:0.18, G:0.28, T:0.11
Consensus pattern (87 bp):
AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
GAGGCTACAGCGAGAGAAGCAG
Found at i:46279734 original size:43 final size:43
Alignment explanation
Indices: 46279685--46279828 Score: 207
Period size: 43 Copynumber: 3.3 Consensus size: 43
46279675 CGTTTATAGA
*
46279685 AAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGTGAT
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAT
* *
46279728 AAAAGCGCTGCTAAAAGTCATGATCTATAGCGGCGTTTGTAAT
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAT
* * * **
46279771 AAAAGCGCCGCTAAAAGTCATGACCTTTAGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAT
*
46279814 ATAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
46279829 GAACATGACC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAT
Found at i:46279836 original size:86 final size:86
Alignment explanation
Indices: 46279685--46279847 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 86
46279675 CGTTTATAGA
* * * * *
46279685 AAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGTGATAAAAGCGCTGCTAAAAGTCATG
1 AAAAGCGCCACTAAAAGTCATGACCTATAGCGACGTTTGTGAGAAAAGCGCCGCTAAAAGACATG
*
46279750 ATCTATAGCGGCGTTTGTAAT
66 ACCTATAGCGGCGTTTGTAAT
* * * *
46279771 AAAAGCGCCGCTAAAAGTCATGACCTTTAGCGACGTTTGTGGGATAAGCGCCGCT-AAAGAACAT
1 AAAAGCGCCACTAAAAGTCATGACCTATAGCGACGTTTGTGAGAAAAGCGCCGCTAAAAG-ACAT
*
46279835 GACCTTTAGCGGC
65 GACCTATAGCGGC
46279848 ATTTATAGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 4 0.06
86 61 0.94
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (86 bp):
AAAAGCGCCACTAAAAGTCATGACCTATAGCGACGTTTGTGAGAAAAGCGCCGCTAAAAGACATG
ACCTATAGCGGCGTTTGTAAT
Found at i:46279908 original size:30 final size:30
Alignment explanation
Indices: 46279840--46279910 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
46279830 AACATGACCT
* * *
46279840 TTAGCGGCATTTATAGAAATGCCGCAAACC
1 TTAGCGACGTTTATAGAAACGCCGCAAACC
46279870 TTAGCGACGTTTATAGAAACGCCGCAAACC
1 TTAGCGACGTTTATAGAAACGCCGCAAACC
46279900 TTAGCGACGTT
1 TTAGCGACGTT
46279911 GTCAATAGCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (30 bp):
TTAGCGACGTTTATAGAAACGCCGCAAACC
Found at i:46279994 original size:21 final size:21
Alignment explanation
Indices: 46279968--46280007 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
46279958 TTTAGTGGCG
46279968 CTAAAAAGA-GCCGCTAAAAGA
1 CTAAAAA-ACGCCGCTAAAAGA
46279989 CTAAAAAACGCCGCTAAAA
1 CTAAAAAACGCCGCTAAAA
46280008 ACCTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.23, G:0.15, T:0.10
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGA
Found at i:46280524 original size:21 final size:21
Alignment explanation
Indices: 46280498--46280608 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 21
46280488 AAGGCTGAAT
* *
46280498 AGAAACGCATAAGTGCTAAAC
1 AGAAACTCATAAGAGCTAAAC
* *
46280519 AGAAACTCATAAGGGTTAAAC
1 AGAAACTCATAAGAGCTAAAC
* * *
46280540 GGAAGCTCATAAGAGCTGAAC
1 AGAAACTCATAAGAGCTAAAC
* * *
46280561 GGAAAC-CTATAAGGGTTAAAC
1 AGAAACTC-ATAAGAGCTAAAC
* * *
46280582 AGAAGCTTAAAAGAGCTAAAC
1 AGAAACTCATAAGAGCTAAAC
46280603 AGAAAC
1 AGAAAC
46280609 CCATTAGGGT
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 1 0.01
21 68 0.99
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (21 bp):
AGAAACTCATAAGAGCTAAAC
Found at i:46280566 original size:42 final size:41
Alignment explanation
Indices: 46280505--46280634 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 41
46280495 AATAGAAACG
*
46280505 CATAAGTGCTAAACAGAAACTCATAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACAGAAAC-CATAAGGGTTAAACGGAAGCT
* * *
46280547 CATAAGAGCTGAACGGAAACCTATAAGGGTTAAACAGAAGCT
1 CATAAGAGCTAAACAGAAACC-ATAAGGGTTAAACGGAAGCT
* * * * *
46280589 TAAAAGAGCTAAACAGAAACCCATTAGGGTTGAACGGAAACT
1 CATAAGAGCTAAACAGAAA-CCATAAGGGTTAAACGGAAGCT
46280631 CATA
1 CATA
46280635 TGAGTTAGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 69 0.96
43 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.18
Consensus pattern (41 bp):
CATAAGAGCTAAACAGAAACCATAAGGGTTAAACGGAAGCT
Found at i:46283975 original size:21 final size:21
Alignment explanation
Indices: 46283949--46283999 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46283939 CTACAACTTA
* *
46283949 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
46283970 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
46283991 AAGCAGAGG
1 AAGCAGAGG
46284000 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:46284049 original size:87 final size:87
Alignment explanation
Indices: 46283910--46284085 Score: 253
Period size: 87 Copynumber: 2.0 Consensus size: 87
46283900 ACCACAGTTA
* * * * * *
46283910 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
46283975 GAGGCTACAGCGAGAGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
* * *
46283997 AGGTTCAAAAGAAATATGAAAAACTCCAGCAACAACTTAAAACAAATACGGCATCGAGAGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
* *
46284062 GAGGCTGCAGCGAGGGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
46284084 AG
1 AG
46284086 CAGAGCAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.43, C:0.18, G:0.28, T:0.11
Consensus pattern (87 bp):
AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
GAGGCTACAGCGAGAGAAGCAG
Found at i:46284679 original size:43 final size:43
Alignment explanation
Indices: 46284433--46284671 Score: 282
Period size: 43 Copynumber: 5.5 Consensus size: 43
46284423 CATCAAACAA
* * * * **
46284433 TAGCGGCGTTTGTGGAAAAAACACCGCT-AAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-TCATGTTCTT
* *
46284476 TAGCGGCATTTGTGGGAAAAAGCGCCGCTAAAAGTCATGTTCTA
1 TAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAAGTCATGTTCTT
* * *
46284520 TAGTGACGTTTGTGGGAAAAGCGCTGCTAAAAGTCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
* * *
46284563 TAGCGGAGTTTGTGGGAGAAGCGCCGTTAAAAGTCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
** **
46284606 TAGCGGCGTTTGTGGGAAAAGCATCGCTAAAAGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
*
46284649 TAGCGGCGTTTGTAGGAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCG
46284672 TCACTAAAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 133 0.80
44 29 0.17
45 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
Found at i:46284693 original size:26 final size:25
Alignment explanation
Indices: 46284657--46284707 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
46284647 TTTAGCGGCG
46284657 TTTGTAGGAAAAGCGTCACTAAAGAA
1 TTTGTAGGAAAAGCG-CACTAAAGAA
*
46284683 TTTGTAGGAAAAGCGCCCTAAAGAA
1 TTTGTAGGAAAAGCGCACTAAAGAA
46284708 CATGACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (25 bp):
TTTGTAGGAAAAGCGCACTAAAGAA
Found at i:46287814 original size:56 final size:55
Alignment explanation
Indices: 46287729--46287835 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 55
46287719 TAAGTTTATC
46287729 TCTTGATTTTTTTAAACCTATGCATTTTGAGAAAGGTATCTGATCATTTGGATTT
1 TCTTGATTTTTTTAAACCTATGCATTTTGAGAAAGGTATCTGATCATTTGGATTT
*
46287784 TCTTGATTTTTTTAAAACCTATGCATTTTGAGAAGGGTATCTGATCATTTGG
1 TCTTGATTTTTTT-AAACCTATGCATTTTGAGAAAGGTATCTGATCATTTGG
46287836 GTTAAATGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 13 0.26
56 37 0.74
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (55 bp):
TCTTGATTTTTTTAAACCTATGCATTTTGAGAAAGGTATCTGATCATTTGGATTT
Found at i:46289674 original size:12 final size:13
Alignment explanation
Indices: 46289654--46289687 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
46289644 AAAATGAATC
*
46289654 AAAACAAAACCG-
1 AAAAGAAAACCGA
46289666 AAAAGAAAACCGA
1 AAAAGAAAACCGA
46289679 AAAAGAAAA
1 AAAAGAAAA
46289688 AAGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACCGA
Found at i:46290543 original size:20 final size:19
Alignment explanation
Indices: 46290518--46290557 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
46290508 CTAATAATTT
46290518 TCATAAACAATAATGAAAAA
1 TCATAAACAATAA-GAAAAA
**
46290538 TCATAAATGATAAGAAAAA
1 TCATAAACAATAAGAAAAA
46290557 T
1 T
46290558 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (19 bp):
TCATAAACAATAAGAAAAA
Found at i:46290604 original size:10 final size:9
Alignment explanation
Indices: 46290580--46290626 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
46290570 AAATTGATAC
*
46290580 AATTTTAAA
1 AATTATAAA
46290589 AATTATAAA
1 AATTATAAA
46290598 AACTTATAAA
1 AA-TTATAAA
*
46290608 TATTATAAA
1 AATTATAAA
46290617 AA-TATAAA
1 AATTATAAA
46290625 AA
1 AA
46290627 AAACAAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.24
9 18 0.53
10 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTATAAA
Found at i:46290622 original size:17 final size:18
Alignment explanation
Indices: 46290585--46290626 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
46290575 GATACAATTT
46290585 TAAAAATTATAAAAACTTA
1 TAAAAATTATAAAAAC-TA
*
46290604 TAAATATTATAAAAA-TA
1 TAAAAATTATAAAAACTA
46290621 TAAAAA
1 TAAAAA
46290627 AAACAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTATAAAAACTA
Found at i:46290879 original size:77 final size:78
Alignment explanation
Indices: 46290657--46291477 Score: 929
Period size: 77 Copynumber: 10.7 Consensus size: 78
46290647 AAATTATAAT
* * * *
46290657 GCCTCGGG-CACACGCCGAGGTATTTTT-AAATTCATTTTTTTTC--AAAAATTAACTCATAATG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATAATG
* *
46290718 CAAGAGGTAAGTTGA
64 CGAGAGGTGAGTTGA
* * *
46290733 GCCTCGGG-CACATGCCAATGTATTTTTCAATTTATGTTTTTC-AAAAAATCAACTCATAATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
46290796 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
46290809 GCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
*
46290873 ATAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
46290886 GCCTC-AGACACATGCTGAGGTATTTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATAATGC
1 GCCTCGGGTCACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC
*
46290949 GATAGGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * *
46290963 GCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
46291028 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
46291041 GCCTCGGGTCGCATGCTGAGGTA-TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
46291105 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
46291118 GCCTCGAGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTAC
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATC-AACTCATAATGC
46291183 GAG-GGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * ** * *
46291196 GTCTCAGGTCACACGTTGAGGTA-TTTTAAATTTCTGTTTTTTC-AAAAAATCAACTCATAATGT
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAAAATCAACTCATAATGC
* *
46291259 GAGGGGTGATTTGA
65 GAGAGGTGAGTTGA
* * ** * *
46291273 GCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAAAAATAAACTCATAATGC
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGC
*
46291338 AAGAGGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * * *
46291352 GCCTTGGGTCACATACCGAGGTA-TTTTCAATTTTTGTTTTTC--AAAGATCAACTCATAATTCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* *
46291414 AGAGATGAGTTAA
66 AGAGGTGAGTTGA
* * * * *
46291427 GCTTCGGGTCGCATGCCAAGCTA-TTTTCGATTTCTGTTTTTCAATAAAAAT
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAA-AAAAAT
46291478 AAAGAATAAA
Statistics
Matches: 645, Mismatches: 82, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
75 68 0.11
76 106 0.16
77 238 0.37
78 175 0.27
79 58 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
AGAGGTGAGTTGA
Found at i:46291047 original size:232 final size:227
Alignment explanation
Indices: 46290665--46291475 Score: 964
Period size: 232 Copynumber: 3.5 Consensus size: 227
46290655 ATGCCTCGGG
* * * * * *
46290665 CACACGCCGAGGTATTTTT-AAATTCATTTTTTTTCAAAAATTAACTCATAATGCAAGAGGTAAG
1 CACATGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAG
* * *
46290729 TTGAGCCTCGGGCACATGCC-AATGTATTTTTCAATTTATGTTTTTCAAAAAATCAACTCATAAT
64 TTGAGCCTCGGTCACATGCCGAGT-TA-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAAT
46290793 GCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAA
127 GCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAA
* *
46290858 TCAACTCATAATGCGATAGGTGAGTTGAGCCTCAGA
192 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGT
* * *
46290894 CACATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGATAGGTGAG
1 CACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAG
* *
46290959 TTGAGCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGA
64 TTGAGCCTCGG-TCACATGCCGAGTTA-TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAA
* * *
46291024 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAA
126 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAA
*
46291089 ATCAACTCATGATGCGAGAGGTGAGTTGAGCCTCGAGT
191 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-AGT
* * *
46291127 CACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTACGAG-GGTGA
1 CACATGCCGAGGTATTTTTCAATTTCTGTTTTTC--AAAAATC-AACTCATAATGCGAGAGGTGA
* * ** * *
46291191 GTTGAGTCTCAGGTCACACGTTGAGGTATTTTAAATTTCTGTTTTTTCAAAAAATCAACTCATAA
63 GTTGAGCCTC-GGTCACATGCCGAGTTATTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATAA
* * * * * *
46291256 TGTGAGGGGTGATTTGAGCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAA
126 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTC-AAAA
* * **
46291321 AAATAAACTCATAATGCAAGAGGTGAGTTGAGCCTTGGGT
189 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCAGT
* * * * *
46291361 CACATACCGAGGTA-TTTTCAATTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGATGAGTT
1 CACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTT
* * * * * *
46291425 AAGCTTCGGGTCGCATGCCAAGCTATTTTCGATTTCTGTTTTTCAATAAAA
66 GAGCCTC-GGTCACATGCCGAGTTATTTTCAATTTCTGTTTTTCAA-AAAA
46291476 ATAAAGAATA
Statistics
Matches: 500, Mismatches: 66, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
229 19 0.04
230 62 0.12
231 76 0.15
232 191 0.38
233 88 0.18
234 63 0.13
235 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (227 bp):
CACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTT
GAGCCTCGGTCACATGCCGAGTTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGA
GAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAA
CTCATAATGCGAGAGGTGAGTTGAGCCTCAGT
Found at i:46291104 original size:155 final size:153
Alignment explanation
Indices: 46290657--46291477 Score: 958
Period size: 155 Copynumber: 5.3 Consensus size: 153
46290647 AAATTATAAT
* * * *
46290657 GCCTCGGGCACACGCCGAGGTATTTTT-AAATTCATTTTTTTTC--AAAAATTAACTCATAATGC
1 GCCTCGGTCACACGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATAATGC
* * ** * *
46290719 AAGAGGTAAGTTGAGCCTCGGG-CACATGCCAATGTATTTTTCAATTTATGTTTTTCAAAAAATC
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAAAAATC
46290783 AACTCATAATGCGAGAGGTGAGTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
* * *
46290809 GCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCG
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* * * *
46290873 ATAGGTGAGTTGAGCCTC-AGACACATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAAATC
65 AGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTA--TTTTCAATTTCTGTTTTTCAAAAAATC
*
46290937 AACTCATAATGCGATAGGTGAGTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
* * * *
46290963 GCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGG-TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* *
46291028 AGAGGTGAGTTGAGCCTCGGGTCGCATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCA
65 AGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCA
*
46291093 ACTCATGATGCGAGAGGTGAGTTGA
129 ACTCATAATGCGAGAGGTGAGTTGA
* *
46291118 GCCTCGAGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTAC
1 GCCTCG-GTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATC-AACTCATAATGC
* * * * *
46291183 GAG-GGTGAGTTGAGTCTCAGGTCACACGTTGAGGTATTTTAAATTTCTGTTTTTTCAAAAAATC
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTG-TTTTTCAAAAAATC
* * *
46291247 AACTCATAATGTGAGGGGTGATTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
** * *
46291273 GCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAAAAATAAACTCATAATGC
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGC
* * * * * *
46291338 AAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTATTTTCAATTTTTGTTTTTC-AAAGATCA
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCA
* * *
46291402 ACTCATAATTCGAGAGATGAGTTAA
129 ACTCATAATGCGAGAGGTGAGTTGA
* * * * * *
46291427 GCTTCGGGTCGCATGCCAAGCTA-TTTTCGATTTCTGTTTTTCAATAAAAAT
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA-AAAAAT
46291478 AAAGAATAAA
Statistics
Matches: 570, Mismatches: 82, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
151 7 0.01
152 12 0.02
153 88 0.15
154 125 0.22
155 259 0.45
156 79 0.14
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (153 bp):
GCCTCGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGA
GAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAAC
TCATAATGCGAGAGGTGAGTTGA
Found at i:46291709 original size:30 final size:29
Alignment explanation
Indices: 46291644--46291781 Score: 152
Period size: 30 Copynumber: 4.7 Consensus size: 29
46291634 ACAAAAATTA
* *
46291644 AAAATTAAATTTTGACCCCTAAACTTT-T
1 AAAATTACATTTTAACCCCTAAACTTTCT
*
46291672 CAAAATTACATTTTAACCTCTAAACTTTCAT
1 -AAAATTACATTTTAACCCCTAAACTTTC-T
46291703 AAAATTACATTTTAACCCCTAAACTTTCCT
1 AAAATTACATTTTAACCCCTAAACTTT-CT
* * **
46291733 AAAATTACATTTTCACCCTTTGACTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTCT
* *
46291762 AAAAGTTACACTTTATCCCC
1 AAAA-TTACATTTTAACCCC
46291782 AAAAGTTTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
29 30 0.32
30 61 0.66
31 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTCT
Found at i:46292128 original size:3 final size:3
Alignment explanation
Indices: 46292122--46292153 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
46292112 AAAAGAAGAC
46292122 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
46292154 AATACGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46292841 original size:17 final size:17
Alignment explanation
Indices: 46292819--46292873 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
46292809 GTAATTTATC
*
46292819 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTAA
*
46292836 AAAATTTTCTTGTGTTAA
1 AAAATTTTCGTGT-TTAA
46292854 AAAATTCTT-GTGTTTTAA
1 AAAATT-TTCGTG-TTTAA
46292872 AA
1 AA
46292874 TAAAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.38
18 17 0.53
19 3 0.09
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (17 bp):
AAAATTTTCGTGTTTAA
Found at i:46292858 original size:18 final size:18
Alignment explanation
Indices: 46292819--46292867 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
46292809 GTAATTTATC
* *
46292819 AAAATTTTCGTGT-TTCA
1 AAAATTTTCTTGTGTTAA
46292836 AAAATTTTCTTGTGTTAA
1 AAAATTTTCTTGTGTTAA
46292854 AAAA--TTCTTGTGTT
1 AAAATTTTCTTGTGTT
46292868 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 12 0.41
18 7 0.24
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (18 bp):
AAAATTTTCTTGTGTTAA
Found at i:46301213 original size:25 final size:25
Alignment explanation
Indices: 46301137--46301213 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
46301127 CTTTCTCTCA
* * *
46301137 AGCAATAT-ACAGGAAGCTCACATG
1 AGCAATATAACGGGAAGCTCATAAG
* * * * **
46301161 ATCCATGTAACGGGAAGCTTATCCG
1 AGCAATATAACGGGAAGCTCATAAG
46301186 AGCAATATAACGGGAAGCTCATAAG
1 AGCAATATAACGGGAAGCTCATAAG
46301211 AGC
1 AGC
46301214 CATAATTAGG
Statistics
Matches: 38, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
24 5 0.13
25 33 0.87
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCAATATAACGGGAAGCTCATAAG
Found at i:46301374 original size:26 final size:25
Alignment explanation
Indices: 46301336--46301385 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
46301326 CGAAGAGTCA
46301336 TTAACAGGAAGCTCACAAAGAGCCT
1 TTAACAGGAAGCTCACAAAGAGCCT
**
46301361 TTAATCAGGAAGCTCATGAAGAGCC
1 TTAA-CAGGAAGCTCACAAAGAGCC
46301386 ATATAACGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (25 bp):
TTAACAGGAAGCTCACAAAGAGCCT
Found at i:46302424 original size:17 final size:18
Alignment explanation
Indices: 46302386--46302426 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46302376 AAAAAGATGA
46302386 TATTT-TCATCATTTAAT
1 TATTTATCATCATTTAAT
* *
46302403 CATTTATCATC-TTTTAT
1 TATTTATCATCATTTAAT
46302420 TATTTAT
1 TATTTAT
46302427 TCTTTCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATCATTTAAT
Found at i:46303016 original size:21 final size:21
Alignment explanation
Indices: 46302989--46303034 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
46302979 AATATTTTGA
*
46302989 ATTTAAAAATTTATTTTCA-T
1 ATTTTAAAATTTATTTTCATT
*
46303009 ATTTTAAAATTTATTTTTATT
1 ATTTTAAAATTTATTTTCATT
46303030 ATTTT
1 ATTTT
46303035 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTAAAATTTATTTTCATT
Found at i:46316268 original size:21 final size:21
Alignment explanation
Indices: 46316244--46316284 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46316234 TTATAGATGT
46316244 CTCTGTTCTC-TATTGAAAATC
1 CTCTGTTCTCAT-TTGAAAATC
*
46316265 CTCTGTTTTCATTTGAAAAT
1 CTCTGTTCTCATTTGAAAAT
46316285 AAACAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (21 bp):
CTCTGTTCTCATTTGAAAATC
Found at i:46318350 original size:24 final size:24
Alignment explanation
Indices: 46318323--46318368 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
46318313 TAATTTTACT
46318323 TTATCAATATTT-AAAATAAACACA
1 TTAT-AATATTTAAAAATAAACACA
* *
46318347 TTATTATTTTTAAAAATAAACA
1 TTATAATATTTAAAAATAAACA
46318369 GTTTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATAATATTTAAAAATAAACACA
Found at i:46318575 original size:80 final size:79
Alignment explanation
Indices: 46318435--46318587 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 79
46318425 TTTGAATCCC
* * * *
46318435 AAATTTAATCAATACTACCTCTTAATACTTATTATTTGAATCAATTAAGCTAAATTCAGAATATA
1 AAATTTAATCAATACCACCTCTTAATACTTACTATTTGAATCAATTAAACTAAAGTCAGAATATA
46318500 TATAATTTTTATCA
66 TATAATTTTTATCA
* *
46318514 AAATTTAATTAATACCACCTCTTAGTACTTTACTATTTGAATCAATTAAACTAAAGTCAGAATAT
1 AAATTTAATCAATACCACCTCTTAATAC-TTACTATTTGAATCAATTAAACTAAAGTCAGAATAT
46318579 ATATAATTT
65 ATATAATTT
46318588 CTATGAAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 25 0.37
80 42 0.63
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.41
Consensus pattern (79 bp):
AAATTTAATCAATACCACCTCTTAATACTTACTATTTGAATCAATTAAACTAAAGTCAGAATATA
TATAATTTTTATCA
Found at i:46329696 original size:20 final size:20
Alignment explanation
Indices: 46329658--46329708 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
46329648 TTTAATATTT
**
46329658 AAAAATTT-AAAATTTTTAA
1 AAAAATTTAAAAATCATTAA
46329677 AAAAATTTAAAAATCATTAA
1 AAAAATTTAAAAATCATTAA
**
46329697 AATTATTTAAAA
1 AAAAATTTAAAA
46329709 TATGGTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTAAAAATCATTAA
Found at i:46329706 original size:10 final size:10
Alignment explanation
Indices: 46329653--46329709 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
46329643 TGATTTTTAA
46329653 TATTTAAAA-
1 TATTTAAAAT
46329662 -ATTTAAAAT
1 TATTTAAAAT
*
46329671 T-TTTAAAAA
1 TATTTAAAAT
*
46329680 AATTTAAAAAT
1 TATTT-AAAAT
*
46329691 CA-TTAAAAT
1 TATTTAAAAT
46329700 TATTTAAAAT
1 TATTTAAAAT
46329710 ATGGTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.21
9 13 0.34
10 12 0.32
11 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:46337821 original size:27 final size:27
Alignment explanation
Indices: 46337763--46337824 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
46337753 CACGTATATG
46337763 TATATAAAATATATATAAAAATTATAA
1 TATATAAAATATATATAAAAATTATAA
* **
46337790 AATATAAAATATATATAAGTATGTAT-A
1 TATATAAAATATATATAAAAAT-TATAA
46337817 TATATAAA
1 TATATAAA
46337825 TGAGGAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (27 bp):
TATATAAAATATATATAAAAATTATAA
Found at i:46338598 original size:13 final size:13
Alignment explanation
Indices: 46338577--46338618 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
46338567 TTTCTTATGT
*
46338577 AAAAGATAAAATA
1 AAAAAATAAAATA
46338590 AAAAAATAAAATA
1 AAAAAATAAAATA
*
46338603 AAACAAACAAAA-A
1 AAA-AAATAAAATA
46338616 AAA
1 AAA
46338619 GAGAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:46338605 original size:18 final size:18
Alignment explanation
Indices: 46338577--46338618 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46338567 TTTCTTATGT
* *
46338577 AAAAGATAAAATAAA-AA
1 AAAAAATAAAACAAACAA
46338594 AATAAAATAAAACAAACAA
1 AA-AAAATAAAACAAACAA
46338613 AAAAAA
1 AAAAAA
46338619 GAGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 15 0.71
19 4 0.19
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAACAAACAA
Found at i:46339769 original size:100 final size:100
Alignment explanation
Indices: 46339666--46341021 Score: 1021
Period size: 100 Copynumber: 13.6 Consensus size: 100
46339656 CACCGTCGTG
* * * * * * * *
46339666 GCTTCAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCACTGTCGTATCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* ** * * * ** *
46339731 GCTGCATTGCCT-GGGAAGTAAGTTTCGCCATTGTG
66 ACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * ** * * * **
46339766 GCTTCAACCTTTTGAGTTGCGATGTCGGGGAAGCGAGGTTCACCGTCATAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * * ** *
46339831 GCTGCATCGCCT-GGGAAGTAAGTTTCGCCATTGTG
66 ACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * * * **
46339866 GATTCAATCTTTTGAGTTGCGATGTCGGGGAAGCAAGATTCA-TCGTCATAGCTTCAATCTGTTC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACT-GTTGTAGCTTCAATCTGTTC
* * *
46339930 CGCTGCATCGCCT-GGGAAGTAAGATCCGCTGTTGTA
65 CACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * * *
46339966 GCTTCAATATTTTTAATTGAAATGTAAAGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGCTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
46340031 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
*
46340066 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
46340131 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * *
46340166 GCTTCAATCTTTTTAATTGCAACGTCAGTGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
46340231 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * * *
46340266 GCTTCAATC-TTTTAATTACAATGTTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
*
46340330 ACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * **
46340365 GCTTCAATCTTTTTAATTACAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATATTTTTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * *
46340430 ATTACAATG-TCAGGTAAGTGAGATCCGCTGTTGTA
66 ACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * * *
46340465 GCTTCAATCTGTTCCATTGCAACG-CTAGGAAAGTAAGATTCACTGTTGTAGCTTCAATCT-TTT
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * *
46340528 AATTGCAATG-TCAGGGAAGTAAGATCCGCTATTGTA
65 CACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * *
46340564 GCTTCAATCTATTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC--TTC
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * * *
46340626 TTATTTGCAATG-TCAGGGAAGTAAGATCTGTTGTTGTA
65 -CA-CTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * ** * * * **
46340664 GCTTCAATCTGTTCCACTGCAACCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TTTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * *
46340727 ATTGCAATG-TCGGGGAAGTAAGATCCGCTATTGTA
66 ACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * *
46340762 GCTTCAATCTATTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC--TTC
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * * *
46340824 TTATTTGCAATG-TCAGGGAAGTAAGATCTGTTGTTGTA
65 -CA-CTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * ** * *
46340862 GCTTCAATCTGTTCCACTGCAACG-CTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TCT
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGT-T
** * * * *
46340925 TAATTGCAATGTTAGGGAAGTAAGATCCGCTGTTGTA
64 CCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* ** * * * *
46340962 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCT
46341022 TCTTAATTGC
Statistics
Matches: 1117, Mismatches: 122, Indels: 34
0.88 0.10 0.03
Matches are distributed among these distances:
98 55 0.05
99 251 0.22
100 806 0.72
101 4 0.00
102 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
Found at i:46339954 original size:50 final size:50
Alignment explanation
Indices: 46339644--46339954 Score: 162
Period size: 50 Copynumber: 6.2 Consensus size: 50
46339634 TGCAATTTCA
* * * * * * *
46339644 GGAAGTAAGATTCACCGTCGTGGCTTCAATCTATTTAC-TTGCAAT-GTCGG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCT-GTTCCGCTGC-ATCGCCTG
* * * * * *
46339694 GGAAATGAGATTCACTGTCGTATCTTCAATCTGTTCCGCTGCATTGCCTG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * ** * * * ** * * *
46339744 GGAAGTAAGTTTCGCCATTGTGGCTTCAACCTTTTGAGTTGCGAT-GTCGG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGC-ATCGCCTG
** *
46339794 GGAAGCGAGGTTCACCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * ** * * * ** * * *
46339844 GGAAGTAAGTTTCGCCATTGTGGATTCAATCTTTTGAGTTGCGAT-GTCGG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGC-ATCGCCTG
* *
46339894 GGAAGCAAGATTCATCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
1 GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
46339944 GGAAGTAAGAT
1 GGAAGTAAGAT
46339955 CCGCTGTTGT
Statistics
Matches: 183, Mismatches: 72, Indels: 12
0.69 0.27 0.04
Matches are distributed among these distances:
49 9 0.05
50 170 0.93
51 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (50 bp):
GGAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCCGCTGCATCGCCTG
Found at i:46340406 original size:249 final size:248
Alignment explanation
Indices: 46339946--46341033 Score: 1257
Period size: 249 Copynumber: 4.4 Consensus size: 248
46339936 ATCGCCTGGG
* * ** * * * *
46339946 AAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGAAATG-TAAAGG-AAGTAAGATCCAC
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT--AGGAAAGTAAGATCCGC
* ** * * *
46340009 TGTTGTAGCTTCAATCTGCTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAAT
64 TGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAAT
** * * *
46340074 CTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC
128 C-TTTCCACTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAAC
*
46340139 GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACGTCAGTG-
192 GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCAG-GA
*
46340196 AAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
* *
46340261 TTGTAGCTTCAATCTTTTAATTACAATGTTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTG
66 TTGTAGCTTCAATCTTTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCT-
* * * * *
46340326 TTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATG-
130 TTCCACTGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGC
* * * * *
46340389 TCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATATTTTTAATTACAATGTCAGGT
194 T-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCAGGA
* * * *
46340445 AAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAACGCTAGGAAAGTAAGATTCACTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
*
46340510 TTGTAGCTTCAATCTTTTAATTGCAATG-TCAGGGAAGTAAGATCCGCTATTGTAGCTTCAATCT
66 TTGTAGCTTCAATCTTTTAATTGCAATGCT-AGGAAAGTAAGATCCGCTATTGTAGCTTCAATCT
* ** *
46340574 ATTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTATTTGCAAT
130 -TTCCACTGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCAACTGCAAC
* * * * * ** * *
46340637 G-TCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAACCT-AGGA
192 GCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCAGGA
* ** * * * *
46340693 AAGTAAGATCCGCTGTTGTAGCTTCAATAT-TTTAATTGCAATG-TCGGGGAAGTAAGATCCGCT
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT-AGGAAAGTAAGATCCGCT
* ** * *
46340756 ATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
65 GTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATC
* * * * * *
46340821 -TTCTTATTTGCAATGTCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAAC
129 TTTC-CA-CTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAAC
* * * * *
46340885 GCTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATATTCTTAATTGCAATGTTAGGG
192 GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCAGGA
46340942 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
46341007 TTGTAGCTTCAATCTTCTTAATTGCAA
66 TTGTAGCTTCAATCTT-TTAATTGCAA
46341034 ACTATGGTTT
Statistics
Matches: 717, Mismatches: 101, Indels: 40
0.84 0.12 0.05
Matches are distributed among these distances:
246 4 0.01
247 40 0.06
248 160 0.22
249 399 0.56
250 112 0.16
251 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (248 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTG
TTGTAGCTTCAATCTTTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTT
TCCACTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTA
GGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCAGGA
Found at i:46341033 original size:50 final size:49
Alignment explanation
Indices: 46339946--46341033 Score: 1165
Period size: 50 Copynumber: 21.8 Consensus size: 49
46339936 ATCGCCTGGG
* *
46339946 AAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGAAATG-TAAAGG-
1 AAGTAAGATCCGCTGTTGTAGCTTCAAT-CTTTTAATTGCAATGCT--AGGA
* * ** * *
46339996 AAGTAAGATCCACTGTTGTAGCTTCAATCTGCTCCACTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
*
46340046 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATG-TCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGCT-AGGA
** * *
46340096 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
*
46340146 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACG-TCAGTG-
1 AAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGCT-AG-GA
* ** * *
46340196 AAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* *
46340246 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTACAATGTTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGCTAGGA
* ** *
46340295 AAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* *
46340345 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATG-TCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGCT-AGGA
* * * *
46340395 AAGTGAGATCCGCTGTTGTAGCTTCAATATTTTTAATTACAATG-TCAGGT
1 AAGTAAGATCCGCTGTTGTAGCTTCAAT-CTTTTAATTGCAATGCT-AGGA
* ** *
46340445 AAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* * *
46340495 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTAATTGCAATG-TCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGCT-AGGA
* ** *
46340544 AAGTAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* *
46340594 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTATTTGCAATG-TCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTAATTGCAATGCT-AGGA
* * ** * *
46340644 AAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAA-CCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* * *
46340693 AAGTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATG-TCGGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGCT-AGGA
* ** *
46340742 AAGTAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* *
46340792 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTATTTGCAATG-TCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTAATTGCAATGCT-AGGA
* * ** * * *
46340842 AAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGAA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
* * *
46340892 AAGTAAGATCCGCTGTTGTAGCTTCAATATTCTTAATTGCAATGTTAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTAATTGCAATGCTAGGA
** * *
46340942 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGA
46340992 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTAATTGCAA
46341034 ACTATGGTTT
Statistics
Matches: 867, Mismatches: 134, Indels: 74
0.81 0.12 0.07
Matches are distributed among these distances:
48 10 0.01
49 159 0.18
50 684 0.79
51 14 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (49 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGCTAGGA
Found at i:46341151 original size:44 final size:45
Alignment explanation
Indices: 46341038--46341153 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
46341028 TTGCAAACTA
* * * *
46341038 TGGTTTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
* *
46341083 TGTTATCTTC-ATTCTGCTCCGCTGTCAGTACAAAAAGGCAAG-GC
1 TGGTATCTTCGA-TCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
* *
46341127 TGGTGTCTTCGATCTGCTTTGCTGTCA
1 TGGTATCTTCGATCTGCTTCGCTGTCA
46341154 AGGCAGGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
44 23 0.39
45 36 0.61
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (45 bp):
TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
Found at i:46341240 original size:88 final size:88
Alignment explanation
Indices: 46341118--46341438 Score: 527
Period size: 88 Copynumber: 3.6 Consensus size: 88
46341108 CAGTACAAAA
* * * * * * * *
46341118 AGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAAGGCAGGAAGGCTAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
46341183 ACCAGCTCCA-CTACAACCGAGAG
66 ACCAGCTCCATC-ACAACCGAGAG
* *
46341206 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
46341271 ACCAGCTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
46341294 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
46341359 ACCAGTTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
46341382 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
46341439 AACTTCGTTG
Statistics
Matches: 223, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
88 222 1.00
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (88 bp):
AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
ACCAGCTCCATCACAACCGAGAG
Found at i:46341256 original size:44 final size:44
Alignment explanation
Indices: 46341043--46341434 Score: 178
Period size: 44 Copynumber: 8.9 Consensus size: 44
46341033 AACTATGGTT
* * * * * *
46341043 TCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGCAAGATCTGTTA
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATTTG-TG
* * * ** ** *
46341088 TCTTC-ATTCTGCTCCGCTGTCAGTACAAAAAGGCAAGGCTGGTG
1 TCTTCGA-CCTGCTTCGCTGTCAATACAGGAAGGCAAGATTTGTG
* * ** * *
46341132 TCTTCGATCTGCTTTGCTGTCAAGGCAGGAAGGCTAGATCTGTTG
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATTTG-TG
* * * * * * *
46341177 TCTTCAACCAGCTCCACT-AC-A-ACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGACCTGCTTCGCTGTCAATACAG-GA-AGGCAAGATTTGTG
* * *
46341220 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTG
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGAT-TTGTG
* * * * *
46341265 TCTTCAACCAGC-TC-C-ATCACA-ACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGACCTGCTTCGCTGTCA-ATACAG-GA-AGGCAAGATTTGTG
* * *
46341308 TCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTG
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGAT-TTGTG
* * * * *
46341353 TCTTCAACCAG-TTC-C-ATCACA-ACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGACCTGCTTCGCTGTCA-ATACAG-GA-AGGCAAGATTTGTG
* *
46341396 TCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGAT
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGAT
46341435 CTTTAACTTC
Statistics
Matches: 250, Mismatches: 73, Indels: 49
0.67 0.20 0.13
Matches are distributed among these distances:
42 12 0.05
43 51 0.20
44 91 0.36
45 84 0.34
46 12 0.05
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATTTGTG
Found at i:46343894 original size:17 final size:16
Alignment explanation
Indices: 46343872--46343905 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46343862 TTGACTTTGA
46343872 GTTTTTCGATTTTTTTT
1 GTTTTT-GATTTTTTTT
*
46343889 GTTTTTGTTTTTTTTT
1 GTTTTTGATTTTTTTT
46343905 G
1 G
46343906 AATCGGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (16 bp):
GTTTTTGATTTTTTTT
Found at i:46346058 original size:31 final size:31
Alignment explanation
Indices: 46346020--46346082 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
46346010 CCACTTAAGA
*
46346020 AGGTGTGACCAACAGTCATGCAATGCAATGC
1 AGGTGTGACCAACAGTCATGCAACGCAATGC
*
46346051 AGGTGTGACCAACAGTCATGTAACGCAATGC
1 AGGTGTGACCAACAGTCATGCAACGCAATGC
46346082 A
1 A
46346083 AAAAGGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (31 bp):
AGGTGTGACCAACAGTCATGCAACGCAATGC
Found at i:46349806 original size:17 final size:17
Alignment explanation
Indices: 46349784--46349818 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46349774 CTGTGTTTTG
46349784 TCATAGGCTGCTCTTGA
1 TCATAGGCTGCTCTTGA
46349801 TCATAGGCTGCTCTTGA
1 TCATAGGCTGCTCTTGA
46349818 T
1 T
46349819 TGATCTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (17 bp):
TCATAGGCTGCTCTTGA
Found at i:46350970 original size:19 final size:19
Alignment explanation
Indices: 46350948--46350996 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
46350938 AAAAAATAAA
46350948 ATTTTATAAA-AAATATTTT
1 ATTTT-TAAATAAATATTTT
*
46350967 ATTTTTAAATATATATTTT
1 ATTTTTAAATAAATATTTT
46350986 ATTTTTTAAAT
1 A-TTTTTAAAT
46350997 TATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAAATAAATATTTT
Found at i:46351000 original size:19 final size:19
Alignment explanation
Indices: 46350960--46351000 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
46350950 TTTATAAAAA
46350960 ATATTTTATTTTTAAATAT
1 ATATTTTATTTTTAAATAT
46350979 ATATTTTATTTTTTAAAT-T
1 ATATTTTA-TTTTTAAATAT
46350998 ATA
1 ATA
46351001 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTATTTTTAAATAT
Found at i:46361530 original size:17 final size:18
Alignment explanation
Indices: 46361510--46361543 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46361500 TTTTTATGTT
*
46361510 TATTTTCAA-TTTAATTA
1 TATTTTAAATTTTAATTA
46361527 TATTTTAAATTTTAATT
1 TATTTTAAATTTTAATT
46361544 TAATATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTAAATTTTAATTA
Found at i:46373286 original size:16 final size:16
Alignment explanation
Indices: 46373265--46373307 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
46373255 CCAATATCCT
*
46373265 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
46373281 ATTATCACATTTACAC
1 ATTATCATATTTACAC
46373297 ATATAT-ATATT
1 AT-TATCATATT
46373308 CCTTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:46375211 original size:37 final size:37
Alignment explanation
Indices: 46375170--46375280 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
46375160 TAAAAATGGG
* *
46375170 GCTATTACCGTAGTACTTGAAGTCAAATTATGTGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
*
46375207 GCTATTACAACAGTACTTGAAGTCAAATTATGTGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
* *
46375244 GCTATTACAGCAGTACTTAAAGTCAAATTATATGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
46375281 ACATTTACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (37 bp):
GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
Found at i:46376256 original size:38 final size:38
Alignment explanation
Indices: 46376201--46376274 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
46376191 ATCACTAATA
*
46376201 TTATCGAAAAGTGACAAATCAGTCACCCATTAACATCG
1 TTATCAAAAAGTGACAAATCAGTCACCCATTAACATCG
* *
46376239 TTATCAAAAAGTTACAAATCAGTCACTCATTAACAT
1 TTATCAAAAAGTGACAAATCAGTCACCCATTAACAT
46376275 TTTTTGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (38 bp):
TTATCAAAAAGTGACAAATCAGTCACCCATTAACATCG
Found at i:46377278 original size:20 final size:20
Alignment explanation
Indices: 46377253--46377290 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46377243 TTGTTATTTT
46377253 TTGAAACTTGAGTGACTGAA
1 TTGAAACTTGAGTGACTGAA
*
46377273 TTGAAAGTTGAGTGACTG
1 TTGAAACTTGAGTGACTG
46377291 TTTTGTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAACTTGAGTGACTGAA
Found at i:46377561 original size:20 final size:20
Alignment explanation
Indices: 46377536--46377575 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46377526 AAATTATGTA
*
46377536 TATATATATTCTT-TATTTTT
1 TATATA-ATTATTATATTTTT
46377556 TATATAATTATTATATTTTT
1 TATATAATTATTATATTTTT
46377576 ACAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATAATTATTATATTTTT
Found at i:46391225 original size:130 final size:130
Alignment explanation
Indices: 46390987--46391228 Score: 403
Period size: 130 Copynumber: 1.9 Consensus size: 130
46390977 GTTAACGTAA
* * * *
46390987 ACCCAAATCTAGCACAATAACCTATGGCTCAAATGATTCGGCAAATGGCTTAAGCTCTTACAGAA
1 ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
* *
46391052 CAACAGCCGTTGTGCATTGTGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
66 CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
* *
46391117 ACCCGAATCTAGCACAACAACCTATGGTTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
1 ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
*
46391182 CAACAGTCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGA
66 CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGA
46391229 GATTAAGTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 103 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (130 bp):
ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
Found at i:46400105 original size:80 final size:79
Alignment explanation
Indices: 46400017--46400169 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 79
46400007 CATTTCATAG
* * * *
46400017 AAATTATATATATTCTGACTTTAGTTTAATTGATTCAAATAGTAAAGTACTAAGAGGTGGTATTA
1 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAAT-AAGTACTAAGAGGTAGTATTA
46400082 ATTAAATTTTGATAA
65 ATTAAATTTTGATAA
* *
46400097 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTATTAAGAGGTAGTATTGA
1 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTACTAAGAGGTAGTATTAA
46400162 TTAAATTT
66 TTAAATTT
46400170 GGGATTCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 27 0.40
80 40 0.60
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.42
Consensus pattern (79 bp):
AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTACTAAGAGGTAGTATTAA
TTAAATTTTGATAA
Found at i:46403195 original size:43 final size:42
Alignment explanation
Indices: 46403132--46403257 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
46403122 AGGACTCCGA
46403132 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
*
46403176 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTTGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* ***
46403218 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACG-TGGCAT
46403258 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (42 bp):
TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:46403933 original size:14 final size:15
Alignment explanation
Indices: 46403909--46403943 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
46403899 TACTTTAATC
46403909 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
46403924 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
46403939 ATGGT
1 ATGGT
46403944 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:46404379 original size:93 final size:93
Alignment explanation
Indices: 46404197--46404799 Score: 1003
Period size: 93 Copynumber: 6.5 Consensus size: 93
46404187 GAGTAAATGA
* *
46404197 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTA-TAATGCAGTCCAATTATATATGTATATGCTGTCAATT
*
46404262 TTTGATGTAT-AAGGCAGTCCAATTATAT
65 TTTGATGTATAAATGCAGTCCAATTATAT
* *
46404290 ATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTT
1 ATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAATTT
*
46404355 TTGACGTATAAATGCAGTCCAATTATAT
66 TTGATGTATAAATGCAGTCCAATTATAT
* * *
46404383 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTA-TAATGCAGTCCAATTATATATGTATATGCTGTCAATT
46404448 TTTGATGTATAAATGCAGTCCAATTATAT
65 TTTGATGTATAAATGCAGTCCAATTATAT
* *
46404477 ATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTA-TAATGCAGTCCAATTATATATGTATATGCTGTCAATT
46404541 TTTGATGTATAAATGCAGTCCAATTATAT
65 TTTGATGTATAAATGCAGTCCAATTATAT
* *
46404570 ATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTT
1 ATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAATTT
*
46404635 TTGACGTATAAATGCAGTCCAATTATAT
66 TTGATGTATAAATGCAGTCCAATTATAT
* *
46404663 ATGTATATGCTGTCAATTTTTGACGTATAAAGGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTAT-AATGCAGTCCAATTATATATGTATATGCTGTCAATT
46404728 TTTGATGTATAAATGCAGTCCAATTATAT
65 TTTGATGTATAAATGCAGTCCAATTATAT
46404757 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
1 ATGTATATGCTGTCAATTTTTGATGTAT-AATGCAGTCCAATT
46404800 TTGTAAATAT
Statistics
Matches: 484, Mismatches: 22, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
92 44 0.09
93 247 0.51
94 193 0.40
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (93 bp):
ATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATATGTATATGCTGTCAATTT
TTGATGTATAAATGCAGTCCAATTATAT
Found at i:46404701 original size:280 final size:279
Alignment explanation
Indices: 46404197--46404797 Score: 1103
Period size: 280 Copynumber: 2.1 Consensus size: 279
46404187 GAGTAAATGA
*
46404197 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTC-AATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATT
46404262 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTC
65 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTC
46404327 CAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATG
130 CAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATG
* *
46404392 CTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTA
195 CTGTCAAATTTTGACGTACAAAGGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTA
46404457 TAAATGCAGTCCAATTATAT
260 TAAATGCAGTCCAATTATAT
46404477 ATGTATATGCTGTCAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTT
1 ATGTATATGCTGTCAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTT
*
46404542 TTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTC
66 TTGATGTAT-AAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTC
46404607 CAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATG
130 CAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATG
* * *
46404672 CTGTCAATTTTTGACGTATAAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTA
195 CTGTCAAATTTTGACGTACAAAGGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTA
46404737 TAAATGCAGTCCAATTATAT
260 TAAATGCAGTCCAATTATAT
*
46404757 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAA
1 ATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAA
46404798 TTTTGTAAAT
Statistics
Matches: 311, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
279 59 0.19
280 229 0.74
281 23 0.07
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (279 bp):
ATGTATATGCTGTCAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTT
TTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTATAAGGCAGTCC
AATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGC
TGTCAAATTTTGACGTACAAAGGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTAT
AAATGCAGTCCAATTATAT
Found at i:46404823 original size:47 final size:47
Alignment explanation
Indices: 46404197--46404799 Score: 1034
Period size: 47 Copynumber: 12.9 Consensus size: 47
46404187 GAGTAAATGA
* *
46404197 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
46404244 ATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
46404290 ATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
46404336 ATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * *
46404383 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
46404430 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
46404477 ATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
46404523 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
46404570 ATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
46404616 ATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
46404663 ATGTATATGCTGTCAATTTTTGACGTATAAAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
46404710 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
46404757 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
46404800 TTGTAAATAT
Statistics
Matches: 527, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 175 0.33
47 352 0.67
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (47 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
Found at i:46406002 original size:21 final size:21
Alignment explanation
Indices: 46405976--46406026 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
46405966 GTCCGAACAA
* *
46405976 AACCTCTATTGCCTAAAATTT
1 AACCTCTATTGCCCAAAATTC
46405997 AACCTCTATTGCCCAAAATTC
1 AACCTCTATTGCCCAAAATTC
46406018 AACCTCTAT
1 AACCTCTAT
46406027 ATTCTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (21 bp):
AACCTCTATTGCCCAAAATTC
Found at i:46406354 original size:24 final size:24
Alignment explanation
Indices: 46406322--46406371 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46406312 AAATCTGTTT
46406322 GAACTTATAATTATTTCTTTATAA
1 GAACTTATAATTATTTCTTTATAA
46406346 GAACTTATAATTATTTCTTTATAA
1 GAACTTATAATTATTTCTTTATAA
46406370 GA
1 GA
46406372 TCATAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (24 bp):
GAACTTATAATTATTTCTTTATAA
Found at i:46409768 original size:18 final size:18
Alignment explanation
Indices: 46409745--46409779 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46409735 TCCACGTCAT
46409745 GACGATGAAGGTACTCCC
1 GACGATGAAGGTACTCCC
46409763 GACGATGAAGGTACTCC
1 GACGATGAAGGTACTCC
46409780 ACATTGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (18 bp):
GACGATGAAGGTACTCCC
Found at i:46413566 original size:31 final size:30
Alignment explanation
Indices: 46413528--46413611 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
46413518 CTACTTCCAA
** **
46413528 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGT-TACAAATT
46413559 GGTCACTCAATT-TTAAAAAGTTACAAATT
1 GGTCACTCAATTATTAAAAAGTTACAAATT
* **
46413588 GGTCACTGAATTATTCGAAAGTTA
1 GGTCACTCAATTATTAAAAAGTTA
46413612 TCTTTTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.38
30 16 0.36
31 12 0.27
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (30 bp):
GGTCACTCAATTATTAAAAAGTTACAAATT
Found at i:46413593 original size:29 final size:31
Alignment explanation
Indices: 46413528--46413602 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
46413518 CTACTTCCAA
** **
46413528 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
46413559 GGTCACTCAATT-TTAAAAAGT-TACAAATT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
*
46413588 GGTCACTGAATTATT
1 GGTCACTCAATTATT
46413603 CGAAAGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 17 0.45
30 9 0.24
31 12 0.32
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (31 bp):
GGTCACTCAATTATTAAAAAGTATACAAATT
Found at i:46417433 original size:60 final size:60
Alignment explanation
Indices: 46417349--46417468 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
46417339 CATATAGAGA
*
46417349 AATGGGTATGGGGTTATGATCTTCC-AAGAACCTG-TAAATACATGGAAATCTTGAAAAGT
1 AATGGGTATGGGGTTATGATCTTCCAAAG-ACCCGCTAAATACATGGAAATCTTGAAAAGT
* *
46417408 AATGGGTATGGGTTTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGGAAAGT
1 AATGGGTATGGG-GTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
46417469 GAACATACCT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 12 0.22
60 16 0.29
61 27 0.49
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (60 bp):
AATGGGTATGGGGTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
Found at i:46420294 original size:18 final size:18
Alignment explanation
Indices: 46420258--46420310 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
46420248 TTTTTAATTA
*
46420258 AAAAATTATAATAAGTATT
1 AAAAATTATAA-AAATATT
46420277 AAAAATTATAAAAATATT
1 AAAAATTATAAAAATATT
* *
46420295 AAATATTAAAAAAATA
1 AAAAATTATAAAAATA
46420311 AAATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATATT
Found at i:46420304 original size:16 final size:16
Alignment explanation
Indices: 46420276--46420321 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
46420266 TAATAAGTAT
46420276 TAAAA-ATTATAAAAATA
1 TAAAATATTA-AAAAA-A
*
46420293 TTAAATATTAAAAAAA
1 TAAAATATTAAAAAAA
46420309 TAAAATATTAAAA
1 TAAAATATTAAAA
46420322 TTGATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATTAAAAAAA
Found at i:46421021 original size:16 final size:17
Alignment explanation
Indices: 46420990--46421022 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46420980 ATTGTTTACT
46420990 AAGTATTATATGATATA
1 AAGTATTATATGATATA
*
46421007 AAGTATT-TTTGATATA
1 AAGTATTATATGATATA
46421023 GTTAGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
AAGTATTATATGATATA
Found at i:46424689 original size:43 final size:43
Alignment explanation
Indices: 46424401--46424801 Score: 502
Period size: 43 Copynumber: 9.4 Consensus size: 43
46424391 AAAAAAAACA
* * *** * *
46424401 CCGCTAAAAGTCATGATTTATAGCGGCGTTTCTCCCAAAATCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * * *
46424444 CCGCTAAAAGTCATGATCTATAACAG-ATTTGTGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
46424486 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
*
46424529 CCGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* *
46424572 CTGCTCAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
*
46424615 CCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * *
46424658 CCGCTAAAGGTCATGATCTATAGCGGCGTTTGGGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * *
46424701 TCGCTAAAGGTCATGATCTATAGCGGTGTTTGTGGTG-GAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGG-GAGAAGCG
* * * * * * * * *
46424744 CCGCTAAAGGTCCTGACCTTTAACGGCGTTT-TTGTAAAAGCA
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
46424786 CCGCTAAAAGTCATGA
1 CCGCTAAAAGTCATGA
46424802 CTTTTAGCGG
Statistics
Matches: 317, Mismatches: 38, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
42 54 0.17
43 262 0.83
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
Found at i:46424832 original size:44 final size:42
Alignment explanation
Indices: 46424744--46424833 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
46424734 GGTGGAAGCG
* * * *
46424744 CCGCTAAAGGTCCTGACCTTTAACGGCGTTTTTGTAAAAGCA
1 CCGCTAAAAGTCATGACCTTTAACGGCGTTTTTCTAAAAACA
* * *
46424786 CCGCTAAAAGTCATGACTTTTAGCGGCTTTTATTTCTAAAAACA
1 CCGCTAAAAGTCATGACCTTTAACGGC-GTT-TTTCTAAAAACA
46424830 CCGC
1 CCGC
46424834 AAATGTTAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 23 0.59
43 2 0.05
44 14 0.36
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
CCGCTAAAAGTCATGACCTTTAACGGCGTTTTTCTAAAAACA
Found at i:46427866 original size:3 final size:3
Alignment explanation
Indices: 46427858--46427891 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46427848 TTATTTTTTG
46427858 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46427892 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46433899 original size:18 final size:18
Alignment explanation
Indices: 46433871--46433919 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
46433861 AAATAAAAAA
* *
46433871 AATATTTTGAAAATGAAT
1 AATAATTTGAAAATAAAT
*
46433889 AATGATTTGAAAATAAAT
1 AATAATTTGAAAATAAAT
46433907 AATAATTTGAAAA
1 AATAATTTGAAAA
46433920 CGAACGACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (18 bp):
AATAATTTGAAAATAAAT
Found at i:46434273 original size:25 final size:25
Alignment explanation
Indices: 46434245--46434311 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
46434235 AACTGTCCTT
* *
46434245 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
*
46434270 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
46434295 GATAG-ACTATACTGAAA
1 GATAGTA-TATACTGAAA
46434312 ACACTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:46445371 original size:319 final size:319
Alignment explanation
Indices: 46444792--46445429 Score: 1258
Period size: 319 Copynumber: 2.0 Consensus size: 319
46444782 GATTCAGCCG
*
46444792 GATATGACTTATAATGAAGAACCGGTCAAGATATTGGCACGGGAAACAAAAGAGCTTAGAAATAA
1 GATATGACTTACAATGAAGAACCGGTCAAGATATTGGCACGGGAAACAAAAGAGCTTAGAAATAA
46444857 AAAGATAAATTTGGTGAAGGTATTATGGAAAAATAACAAGGAAATGGAAATCATGAAATTGATGA
66 AAAGATAAATTTGGTGAAGGTATTATGGAAAAATAACAAGGAAATGGAAATCATGAAATTGATGA
46444922 GCTCATCAATCATAATATATATTATTGATACATGGAAATTATTGGGCTAATTTGAATGTTGAGTT
131 GCTCATCAATCATAATATATATTATTGATACATGGAAATTATTGGGCTAATTTGAATGTTGAGTT
46444987 TGTGCATGATAGGGGAATAATGTATTGAATGGATGTATGAATGTTTATTGTATTGTATTGAAAAT
196 TGTGCATGATAGGGGAATAATGTATTGAATGGATGTATGAATGTTTATTGTATTGTATTGAAAAT
46445052 ATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTGTT
261 ATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTGTT
*
46445111 GATATGACTTACAGTGAAGAACCGGTCAAGATATTGGCACGGGAAACAAAAGAGCTTAGAAATAA
1 GATATGACTTACAATGAAGAACCGGTCAAGATATTGGCACGGGAAACAAAAGAGCTTAGAAATAA
46445176 AAAGATAAATTTGGTGAAGGTATTATGGAAAAATAACAAGGAAATGGAAATCATGAAATTGATGA
66 AAAGATAAATTTGGTGAAGGTATTATGGAAAAATAACAAGGAAATGGAAATCATGAAATTGATGA
46445241 GCTCATCAATCATAATATATATTATTGATACATGGAAATTATTGGGCTAATTTGAATGTTGAGTT
131 GCTCATCAATCATAATATATATTATTGATACATGGAAATTATTGGGCTAATTTGAATGTTGAGTT
46445306 TGTGCATGATAGGGGAATAATGTATTGAATGGATGTATGAATGTTTATTGTATTGTATTGAAAAT
196 TGTGCATGATAGGGGAATAATGTATTGAATGGATGTATGAATGTTTATTGTATTGTATTGAAAAT
46445371 ATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTGTT
261 ATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTGTT
46445430 TCCTTTTCCC
Statistics
Matches: 317, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 317 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (319 bp):
GATATGACTTACAATGAAGAACCGGTCAAGATATTGGCACGGGAAACAAAAGAGCTTAGAAATAA
AAAGATAAATTTGGTGAAGGTATTATGGAAAAATAACAAGGAAATGGAAATCATGAAATTGATGA
GCTCATCAATCATAATATATATTATTGATACATGGAAATTATTGGGCTAATTTGAATGTTGAGTT
TGTGCATGATAGGGGAATAATGTATTGAATGGATGTATGAATGTTTATTGTATTGTATTGAAAAT
ATTAGGTAAGTATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTGTT
Found at i:46447784 original size:17 final size:18
Alignment explanation
Indices: 46447762--46447795 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
46447752 AATTTGGGCC
46447762 GTGTGGGCC-ACACGGGT
1 GTGTGGGCCTACACGGGT
46447779 GTGTGGGCCTACACGGG
1 GTGTGGGCCTACACGGG
46447796 CGAACATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGTGGGCCTACACGGGT
Found at i:46451326 original size:31 final size:31
Alignment explanation
Indices: 46451291--46451357 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
46451281 TTTAACAGCT
*
46451291 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
46451322 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
46451353 GGTGA
1 GGTGA
46451358 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:46455310 original size:18 final size:19
Alignment explanation
Indices: 46455287--46455324 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
46455277 GGAAGCAAGC
*
46455287 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
46455305 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
46455324 A
1 A
46455325 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:46463673 original size:2 final size:2
Alignment explanation
Indices: 46463666--46463695 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46463656 GTGAAATTGC
46463666 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
46463696 AAGCTAGAAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46466662 original size:44 final size:44
Alignment explanation
Indices: 46466613--46466797 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
46466603 TATCTTGGAA
* *
46466613 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * *
46466657 AGATAAGATCTACCATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** ** * * * *
46466701 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* *
46466745 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
46466789 AGATAAGAT
1 AGATAAGAT
46466798 CTACAATCTT
Statistics
Matches: 97, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 79 0.81
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:46466903 original size:132 final size:132
Alignment explanation
Indices: 46466591--46466896 Score: 513
Period size: 132 Copynumber: 2.3 Consensus size: 132
46466581 TCGGCTTTAC
* * *
46466591 TCTGCTTCCCATTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* * *
46466656 GAGATAAGATCTACCATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
66 GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
46466721 AA
131 AA
46466723 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
** *
46466788 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
46466853 AA
131 AA
* *
46466855 TCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGCCTTC
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTC
46466897 AGTCTGCCTT
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 163 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (132 bp):
TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
AA
Found at i:46467141 original size:217 final size:217
Alignment explanation
Indices: 46466877--46467409 Score: 895
Period size: 217 Copynumber: 2.5 Consensus size: 217
46466867 TATCTTAGAA
** * *
46466877 AGATAAGATTTGCCGCCTTCAGTCTGCCTTGCTGCCACTTCAGGAGGATAAGACTTGCTTAATTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* * * *
46466942 ATCTGCTCTACTGTAGCTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
*
46467007 GATAAGATCTATGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
46467072 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
46467094 AGATAATATTTGCCATCTTCAGTCTGCCTTGCTGTAACTTCAGGAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* ** *
46467159 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAATTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
* *
46467224 GATAAGATCTAAGGTTTTAACCTGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
46467289 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
46467311 AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGAAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
46467376 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
46467410 CGATCTGTTA
Statistics
Matches: 294, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 294 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
CTGCTCCACTGCAACTTCAGGG
Found at i:46467177 original size:44 final size:43
Alignment explanation
Indices: 46466908--46467409 Score: 323
Period size: 44 Copynumber: 11.6 Consensus size: 43
46466898 GTCTGCCTTG
* * *
46466908 CTGCCACTTCA-GGAGGATAAGACTTGCTTAATTAATCTGCTCTA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
* * * ** *
46466952 CTGTAGCTTCAGGGAGATAAGACTAG--ATGCAATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
* * * *
46466992 CTGCAACTTCAGAGAGATAAGATCTATGGT-TTTAACCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAATCTGCTCCA
* * **
46467036 CTACAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAATCTGCTCCA
* * * * **
46467080 CTGCAACTTCAGGGAGATAATATTTGCCATCTTCAGTCTGC-CTTG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AATCTGCTC-CA
* *
46467125 CTGTAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
* * * * *
46467169 CTGCAACTTTAGGGAGATAAGACTAG--ATGTGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
* * * * *
46467209 CTGCAATTTCAGAGAGATAAGATCTAAGGT-TTTAACCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAATCTGCTCCA
* **
46467253 CTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAATCTGCTCCA
* * * *
46467297 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AATCTGCTC-CA
* *
46467342 CTGCAACTTCA-GAAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
46467386 CTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
46467410 CGATCTGTTA
Statistics
Matches: 355, Mismatches: 70, Indels: 66
0.72 0.14 0.13
Matches are distributed among these distances:
40 39 0.11
41 25 0.07
42 5 0.01
43 17 0.05
44 190 0.54
45 75 0.21
46 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
Found at i:46481383 original size:31 final size:31
Alignment explanation
Indices: 46481348--46481414 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
46481338 TTTAACAGCT
*
46481348 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
46481379 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
46481410 GGTGA
1 GGTGA
46481415 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:46485379 original size:31 final size:31
Alignment explanation
Indices: 46485344--46485410 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
46485334 TTTAACAGCT
*
46485344 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
46485375 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
46485406 GGTGA
1 GGTGA
46485411 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:46499578 original size:6 final size:6
Alignment explanation
Indices: 46499569--46499598 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
46499559 GATGCATGAG
46499569 CATGTA CATGTA CATGTA CATGTA CATGTA
1 CATGTA CATGTA CATGTA CATGTA CATGTA
46499599 GTTTGTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
CATGTA
Found at i:46513501 original size:42 final size:42
Alignment explanation
Indices: 46513387--46513516 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
46513377 CTCTAACTCA
* * * *
46513387 TATGAGTTTCCGTTCAACCCTAATGGGTTTCTGTTTAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
* * * * *
46513429 TTTAAGCTTCTGTTTAACCCTTAT-AGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGA-GTTTCTGTTTAGCTCT
*
46513471 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
46513513 TATG
1 TATG
46513517 CGTTTCTATT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
Found at i:46513521 original size:21 final size:21
Alignment explanation
Indices: 46513387--46513523 Score: 96
Period size: 21 Copynumber: 6.5 Consensus size: 21
46513377 CTCTAACTCA
* * *
46513387 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
46513408 AATGGGTTTCTGTTTAGCTCT
1 TATGAGTTTCTGTTTAGCCCT
* * * *
46513429 TTTAAGCTTCTGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
46513450 TAT-AGGTTTCCGTTCAGCTCT
1 TATGA-GTTTCTGTTTAGCCCT
* * *
46513471 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
*
46513492 TATGAGTTTCTGTTTAGCACT
1 TATGAGTTTCTGTTTAGCCCT
*
46513513 TATGCGTTTCT
1 TATGAGTTTCT
46513524 ATTCAGCCTT
Statistics
Matches: 86, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 84 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCTGTTTAGCCCT
Found at i:46514040 original size:21 final size:21
Alignment explanation
Indices: 46514014--46514053 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
46514004 CAAAACAGGT
46514014 TTTTAGCGGCGT-TTTTTAGTC
1 TTTTAGCGGC-TCTTTTTAGTC
46514035 TTTTAGCGGCTCTTTTTAG
1 TTTTAGCGGCTCTTTTTAG
46514054 CGCCACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.53
Consensus pattern (21 bp):
TTTTAGCGGCTCTTTTTAGTC
Found at i:46514147 original size:30 final size:30
Alignment explanation
Indices: 46514111--46514181 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
46514101 CGCTATTGAC
*
46514111 AACGTCGCTAAGGTTTGCGGCGTTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
46514141 AACGTCGCTAAGGTTTGCGGCATTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
* *
46514171 AATGCCGCTAA
1 AACGTCGCTAA
46514182 AGGTCATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
AACGTCGCTAAGGTTTGCGGCATTTCTATA
Found at i:46514258 original size:43 final size:43
Alignment explanation
Indices: 46514174--46514336 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
46514164 TTCTATAAAT
* * * **
46514174 GCCGCTAAAGGTCATG-TTCTTTAGCGGCGCTTATCCCACAAAC
1 GCCGCTAAAGATCATGACT-TTTAGCGGCGCTTTTATCACAAAC
* * *
46514217 GTCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTATTACAAAC
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
* *
46514260 GCCGCTATAGATCATGACTTTTAGCAGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
* *
46514303 GCCGCTATAGATCATGACTTTTAGTGGCGCTTTT
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTT
46514337 TCTATAAACG
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 105 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
Found at i:46514346 original size:43 final size:43
Alignment explanation
Indices: 46514193--46514397 Score: 207
Period size: 43 Copynumber: 4.7 Consensus size: 43
46514183 GGTCATGTTC
* * * * * *
46514193 TTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGGTCATGACT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAGATCATGACT
46514236 TTTAGCGGCGCTTTTAT-TACAAACGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTT-TCTACAAACGCCGCTATAGATCATGACT
*
46514279 TTTAGCAGCGCTTTTATC-ACAAACGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTT-TCTACAAACGCCGCTATAGATCATGACT
* * ** * * **
46514322 TTTAGTGGCGCTTTTTCTATAAACGCTTCTATTGTTTGGTGACT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAG-ATCATGACT
* * *
46514366 TTTAGCGGTGCTTTTTCTATAAACGCCACTAT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTAT
46514398 TTTGGGATTT
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.01
43 102 0.74
44 34 0.25
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAGATCATGACT
Found at i:46514346 original size:86 final size:86
Alignment explanation
Indices: 46514163--46514347 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 86
46514153 GTTTGCGGCA
* * * * * * *
46514163 TTTCTATAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGG
1 TTTCTATAAACGCCGCTAAAGATCATGCTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAAGA
46514228 TCATGACTTTTAGCGGCGCTT
66 TCATGACTTTTAGCGGCGCTT
* * * * *
46514249 TTAT-TACAAACGCCGCTATAGATCATGACT-TTTAGCAGCGCTTTTATCACAAACGCCGCTATA
1 TT-TCTATAAACGCCGCTAAAGATCATG-CTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAA
*
46514312 GATCATGACTTTTAGTGGCGCTT
64 GATCATGACTTTTAGCGGCGCTT
46514335 TTTCTATAAACGC
1 TTTCTATAAACGC
46514348 TTCTATTGTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
85 1 0.01
86 79 0.96
87 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (86 bp):
TTTCTATAAACGCCGCTAAAGATCATGCTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAAGA
TCATGACTTTTAGCGGCGCTT
Found at i:46516694 original size:9 final size:9
Alignment explanation
Indices: 46516680--46517108 Score: 268
Period size: 9 Copynumber: 48.2 Consensus size: 9
46516670 TATATTTATG
46516680 TATGTAAGT
1 TATGTAAGT
46516689 TATGT-A-T
1 TATGTAAGT
*
46516696 TATGTTAGT
1 TATGTAAGT
*
46516705 AATGTAAGT
1 TATGTAAGT
*
46516714 TGTGT-A-T
1 TATGTAAGT
46516721 TATGTAAGT
1 TATGTAAGT
46516730 TATGTAAGT
1 TATGTAAGT
46516739 TATGTAAGT
1 TATGTAAGT
*
46516748 TCTGT-A-T
1 TATGTAAGT
46516755 TATGTAAGT
1 TATGTAAGT
46516764 TATGTAAGT
1 TATGTAAGT
*
46516773 TGTG-AA-T
1 TATGTAAGT
*
46516780 TATGTAATT
1 TATGTAAGT
46516789 TATGTAA-T
1 TATGTAAGT
*
46516797 TCGTGT-A-T
1 T-ATGTAAGT
*
46516805 TATGGAAGT
1 TATGTAAGT
46516814 TATGTAAGT
1 TATGTAAGT
*
46516823 AATGT-A-T
1 TATGTAAGT
*
46516830 TATGTCAGT
1 TATGTAAGT
46516839 TATGT-A-T
1 TATGTAAGT
46516846 TATGTAAGT
1 TATGTAAGT
46516855 TATGT-A-T
1 TATGTAAGT
46516862 TATGTAAGTT
1 TATGTAAG-T
46516872 TATGTAAGT
1 TATGTAAGT
*
46516881 TATGTAAAT
1 TATGTAAGT
* *
46516890 TATATAATT
1 TATGTAAGT
* *
46516899 TATGAAATT
1 TATGTAAGT
* *
46516908 TGATCTTTAAAT
1 T-A--TGTAAGT
46516920 TATGTAAGT
1 TATGTAAGT
*
46516929 TATGTAAAT
1 TATGTAAGT
46516938 TATGTAAGT
1 TATGTAAGT
* * *
46516947 TAAGAAATT
1 TATGTAAGT
* *
46516956 TGATCTTTAAAT
1 T-A--TGTAAGT
46516968 TATGTAAGT
1 TATGTAAGT
*
46516977 CT-TGTAACT
1 -TATGTAAGT
46516986 TATGTAAGT
1 TATGTAAGT
* *
46516995 TATGAAATT
1 TATGTAAGT
* *
46517004 TGATTTTTAAAT
1 T-A--TGTAAGT
46517016 TATGTAAGT
1 TATGTAAGT
*
46517025 TATGTAAAT
1 TATGTAAGT
46517034 TATGTAAGT
1 TATGTAAGT
* *
46517043 TATGAAATT
1 TATGTAAGT
* *
46517052 TGATCTTTAAAT
1 T-A--TGTAAGT
46517064 TATGTAAGT
1 TATGTAAGT
46517073 TATGT-A-T
1 TATGTAAGT
*
46517080 TATGTAATT
1 TATGTAAGT
*
46517089 TATGTAAAT
1 TATGTAAGT
46517098 TATGTAAGT
1 TATGTAAGT
46517107 TA
1 TA
46517109 AAATGTTTGA
Statistics
Matches: 330, Mismatches: 56, Indels: 68
0.73 0.12 0.15
Matches are distributed among these distances:
7 45 0.14
8 25 0.08
9 223 0.68
10 14 0.04
11 4 0.01
12 19 0.06
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:46516709 original size:16 final size:16
Alignment explanation
Indices: 46516706--46516870 Score: 87
Period size: 16 Copynumber: 10.5 Consensus size: 16
46516696 TATGTTAGTA
**
46516706 ATGTAAGTTGTGTATT
1 ATGTAAGTAATGTATT
*
46516722 ATGTAAGTTATGTAAGTT
1 ATGTAAGTAATGT-A-TT
**
46516740 ATGTAAGTTCTGTATT
1 ATGTAAGTAATGTATT
* *
46516756 ATGTAAGTTATGTAAGT
1 ATGTAAGTAATGT-ATT
*
46516773 -TGTGAA-TTATGTAATTT
1 ATGT-AAGTAATGT-A-TT
* **
46516790 ATGTAATTCGTGTATT
1 ATGTAAGTAATGTATT
46516806 ATG---G-AA-GT-T-
1 ATGTAAGTAATGTATT
46516815 ATGTAAGTAATGTATT
1 ATGTAAGTAATGTATT
* *
46516831 ATGTCAGTTATGTATT
1 ATGTAAGTAATGTATT
*
46516847 ATGTAAGTTATGTATT
1 ATGTAAGTAATGTATT
46516863 ATGTAAGT
1 ATGTAAGT
46516871 TTATGTAAGT
Statistics
Matches: 122, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
9 3 0.02
10 1 0.01
11 2 0.02
12 1 0.01
13 2 0.02
14 2 0.02
15 1 0.01
16 79 0.65
17 10 0.08
18 21 0.17
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGTAAGTAATGTATT
Found at i:46516710 original size:25 final size:25
Alignment explanation
Indices: 46516680--46516892 Score: 138
Period size: 25 Copynumber: 8.5 Consensus size: 25
46516670 TATATTTATG
46516680 TATGTAAGTTATGTATTATGTTAGT
1 TATGTAAGTTATGTATTATGTTAGT
* * *
46516705 AATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGTTAGT
*
46516730 TATGTAAGTTATGTAAGTTCTG-TA-T
1 TATGTAAGTTATGT-A-TTATGTTAGT
* * *
46516755 TATGTAAGTTATGTAAGT-TGTGAAT
1 TATGTAAGTTATGT-ATTATGTTAGT
* *
46516780 TATGTAATTTATGTAATT-CGTGTA-T
1 TATGTAAGTTATGT-ATTATGT-TAGT
* *
46516805 TATGGAAGTTATGTAAGTAATG-TA-T
1 TATGTAAGTTATGT-A-TTATGTTAGT
* *
46516830 TATGTCAGTTATGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGTTAGT
*
46516855 TATGT-A-TTATGTAAGTTTATGTAAGT
1 TATGTAAGTTATGT-A--TTATGTTAGT
*
46516881 TATGTAAATTAT
1 TATGTAAGTTAT
46516893 ATAATTTATG
Statistics
Matches: 153, Mismatches: 21, Indels: 25
0.77 0.11 0.13
Matches are distributed among these distances:
23 12 0.08
24 6 0.04
25 106 0.69
26 19 0.12
27 6 0.04
28 4 0.03
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTTAGT
Done.