Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 35 of 135
Found at i:9018898 original size:10 final size:9
Alignment explanation
Indices: 9018826--9018918 Score: 96
Period size: 9 Copynumber: 10.1 Consensus size: 9
9018816 ATAAAACATA
*
9018826 TAACTAAAT
1 TAACCAAAT
*
9018835 TAACCAATT
1 TAACCAAAT
*
9018844 TAACTAAAT
1 TAACCAAAT
*
9018853 TAACCAATT
1 TAACCAAAT
*
9018862 TAACTAAAT
1 TAACCAAAT
*
9018871 TAACCAATT
1 TAACCAAAT
*
9018880 TAACTAAAT
1 TAACCAAAT
9018889 TAACCGAAAT
1 TAACC-AAAT
9018899 TAACCGAAAT
1 TAACC-AAAT
*
9018909 TAACCGAAT
1 TAACCAAAT
9018918 T
1 T
9018919 TTAAGTATCG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
9 50 0.72
10 19 0.28
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.30
Consensus pattern (9 bp):
TAACCAAAT
Found at i:9024353 original size:29 final size:28
Alignment explanation
Indices: 9024307--9024373 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 28
9024297 ATAGTAAATA
* ** * *
9024307 AGTCATTTTCGTCCATAATTTTTTATTTG
1 AGTCATTTTCATAAATAATTATTT-TTGG
9024336 AGTCATTTTCATAAATAATTATTTTTGG
1 AGTCATTTTCATAAATAATTATTTTTGG
*
9024364 GGTCATTTTC
1 AGTCATTTTC
9024374 GAAAAAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (28 bp):
AGTCATTTTCATAAATAATTATTTTTGG
Found at i:9032809 original size:91 final size:91
Alignment explanation
Indices: 9032651--9032857 Score: 360
Period size: 91 Copynumber: 2.3 Consensus size: 91
9032641 AAGGCCATGA
* *
9032651 TTTTGGTAGGTAGTAATTTGCTTTCCAGTCCTCTATATCAACTTGTTTCTAAATTTTAGAATTTT
1 TTTTGGTAGGTAGTAATTTGCTTTCCAGTCCTCTAGATCAACTTGTTTCTAAATTTTAGAATGTT
9032716 AGTTAGGTAGCATTTATTGACTATGG
66 AGTTAGGTAGCATTTATTGACTATGG
*
9032742 TTTTGGTAGGTAGTAATTTGCTTTCCAGTCTTCTAGATCAACTTGTTTCTAAATTTTAGAATGTT
1 TTTTGGTAGGTAGTAATTTGCTTTCCAGTCCTCTAGATCAACTTGTTTCTAAATTTTAGAATGTT
9032807 AGTTAGGTAGCATTTATTGACTATGG
66 AGTTAGGTAGCATTTATTGACTATGG
* * *
9032833 TTTTGGTAGGTGGCAACTTGCTTTC
1 TTTTGGTAGGTAGTAATTTGCTTTC
9032858 TAGCTTTCTG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (91 bp):
TTTTGGTAGGTAGTAATTTGCTTTCCAGTCCTCTAGATCAACTTGTTTCTAAATTTTAGAATGTT
AGTTAGGTAGCATTTATTGACTATGG
Found at i:9038331 original size:9 final size:9
Alignment explanation
Indices: 9038311--9038343 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
9038301 TGTATATGAC
9038311 ATTTTTATCT
1 ATTTTTA-CT
9038321 ATTTTTACT
1 ATTTTTACT
9038330 ATTTTT-CT
1 ATTTTTACT
9038338 ATTTTT
1 ATTTTT
9038344 TTGTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTTACT
Found at i:9046398 original size:30 final size:30
Alignment explanation
Indices: 9046277--9046619 Score: 288
Period size: 29 Copynumber: 11.6 Consensus size: 30
9046267 AAGACGTGAA
* *
9046277 TTTGGAATAGTTTAGGGGGTGAAAATGTAAT
1 TTTGGAAAAGTTTA-GGGGTCAAAATGTAAT
* * *
9046308 TTTGGGAAAGCTT-GGGGTCAAAATGTGAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
* ** ** *
9046337 TTTGGAGAAGTTT-GACGTCAAAACATGAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
* *
9046366 TTTGGAAAGGTTTAGGGGTCAAGATGTAAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
** * * *
9046396 TTTGGTGATGTTT-GGAGTCAAAATGTTAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
*
9046425 TTT-GAAGAAGTTTA-GGGTCAAAATATAAT
1 TTTGGAA-AAGTTTAGGGGTCAAAATGTAAT
* *
9046454 TTTGGAAAAGTTTAAGGGTCAAAATATAAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
* *
9046484 TTTAGAAAAGTTTAGAGGTCAAAATGTAAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
* * *
9046514 TTTGTAAAAAGTTGA-GGGTCAAATTGTAAT
1 TTTG-GAAAAGTTTAGGGGTCAAAATGTAAT
** *
9046544 TTTGTTAAAGTTTAAGGGG--AAAATGCAAT
1 TTTGGAAAAGTTT-AGGGGTCAAAATGTAAT
** **
9046573 TTTGGAAAAAATTAGGGAACAAAATGTAAT
1 TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
*
9046603 TTTAGAAAAGTTTAGGG
1 TTTGGAAAAGTTTAGGG
9046620 AACTATCGTA
Statistics
Matches: 247, Mismatches: 55, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
28 5 0.02
29 113 0.46
30 108 0.44
31 21 0.09
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (30 bp):
TTTGGAAAAGTTTAGGGGTCAAAATGTAAT
Found at i:9046398 original size:88 final size:87
Alignment explanation
Indices: 9046277--9046617 Score: 278
Period size: 88 Copynumber: 3.8 Consensus size: 87
9046267 AAGACGTGAA
* * * *
9046277 TTTGGAATAGTTTAGGGGGTGAAAATGTAATTTTGGGAAAGCTTGGGGTCAAAATGTGATTTTGG
1 TTTGGAA-AGTTTA-GGGGTCAAAATGTAATTTTGGGAAAGTTTGGGGTCAAAATGTAATTTTGA
*
9046342 AGAAGTTT-GACGTCAAAACATGAT
64 AGAAGTTTAG-CGTCAAAACATAAT
* * * *
9046366 TTTGGAAAGGTTTAGGGGTCAAGATGTAATTTTGGTG-ATGTTTGGAGTCAAAATGTTATTTTGA
1 TTTGGAAA-GTTTAGGGGTCAAAATGTAATTTTGG-GAAAGTTTGGGGTCAAAATGTAATTTTGA
* *
9046430 AGAAGTTTAGGGTCAAAATATAAT
64 AGAAGTTTAGCGTCAAAACATAAT
* * * * *
9046454 TTTGGAAAAGTTTAAGGGTCAAAATATAATTTTAGAAAAGTTTAGAGGTCAAAATGTAATTTTGT
1 TTTGG-AAAGTTTAGGGGTCAAAATGTAATTTTGGGAAAGTTT-GGGGTCAAAATGTAATTTTG-
* * * ***
9046519 AAAAAGTTGAGGGTCAAATTGTAAT
63 AAGAAGTTTAGCGTCAAAACATAAT
* * * * * **
9046544 TTTGTTAAAGTTTAAGGGG--AAAATGCAATTTTGGAAAAAATTAGGGAACAAAATGTAATTTTA
1 TTTG-GAAAGTTT-AGGGGTCAAAATGTAATTTTGG-GAAAGTTTGGGGTCAAAATGTAATTTT-
9046607 GAA-AAGTTTAG
62 GAAGAAGTTTAG
9046618 GGAACTATCG
Statistics
Matches: 207, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
88 100 0.48
89 64 0.31
90 39 0.19
91 4 0.02
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (87 bp):
TTTGGAAAGTTTAGGGGTCAAAATGTAATTTTGGGAAAGTTTGGGGTCAAAATGTAATTTTGAAG
AAGTTTAGCGTCAAAACATAAT
Found at i:9046601 original size:59 final size:60
Alignment explanation
Indices: 9046412--9046617 Score: 206
Period size: 59 Copynumber: 3.5 Consensus size: 60
9046402 GATGTTTGGA
* * ** **
9046412 GTCAAAATGTTATTTT-GAAGAAGTTTAG-GGTCAAAATATAATTTTGGAAAAGTTTAAGG
1 GTCAAAATGTAATTTTAGAA-AAGTTTAGAGGGCAAAATGCAATTTTGGAAAAAATTAAGG
* * * * * *
9046471 GTCAAAATATAATTTTAGAAAAGTTTAGAGGTCAAAATGTAATTTTGTAAAAAGTTGAGG
1 GTCAAAATGTAATTTTAGAAAAGTTTAGAGGGCAAAATGCAATTTTGGAAAAAATTAAGG
* * *
9046531 GTCAAATTGTAATTTT-GTTAAAGTTTA-AGGGGAAAATGCAATTTTGGAAAAAATT-AGG
1 GTCAAAATGTAATTTTAG-AAAAGTTTAGAGGGCAAAATGCAATTTTGGAAAAAATTAAGG
*
9046589 GAACAAAATGTAATTTTAGAAAAGTTTAG
1 G-TCAAAATGTAATTTTAGAAAAGTTTAG
9046618 GGAACTATCG
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
58 4 0.03
59 67 0.54
60 52 0.42
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (60 bp):
GTCAAAATGTAATTTTAGAAAAGTTTAGAGGGCAAAATGCAATTTTGGAAAAAATTAAGG
Found at i:9046622 original size:30 final size:28
Alignment explanation
Indices: 9046275--9046619 Score: 228
Period size: 30 Copynumber: 11.7 Consensus size: 28
9046265 TCAAGACGTG
* * *
9046275 AATTTGGAATAGTTTAGGGGGTGAAAATGT
1 AATTTTGAAAAGTTTA--GGGTCAAAATGT
* * *
9046305 AATTTTGGGAAAGCTTGGGGTCAAAATGT
1 AATTTT-GAAAAGTTTAGGGTCAAAATGT
* * * **
9046334 GATTTTGGAGAAGTTT-GACGTCAAAACAT
1 AATTTT-GAAAAGTTTAG-GGTCAAAATGT
* * *
9046363 GATTTTGGAAAGGTTTAGGGGTCAAGATGT
1 AATTTT-GAAAAGTTTA-GGGTCAAAATGT
** *
9046393 AATTTTGGTGATGTTT-GGAGTCAAAATGT
1 AATTTT-GAAAAGTTTAGG-GTCAAAATGT
* *
9046422 TATTTTGAAGAAGTTTAGGGTCAAAATAT
1 AATTTTGAA-AAGTTTAGGGTCAAAATGT
*
9046451 AATTTTGGAAAAGTTTAAGGGTCAAAATAT
1 AATTTT-GAAAAGTTT-AGGGTCAAAATGT
9046481 AATTTTAGAAAAGTTTAGAGGTCAAAATGT
1 AATTTT-GAAAAGTTTAG-GGTCAAAATGT
* *
9046511 AATTTTGTAAAAAGTTGAGGGTCAAATTGT
1 AATTTTG--AAAAGTTTAGGGTCAAAATGT
* * *
9046541 AATTTTGTTAAAGTTTAAGGG-GAAAATGC
1 AATTTTG-AAAAGTTT-AGGGTCAAAATGT
** *
9046570 AATTTTGGAAAAAATTAGGGAACAAAATGT
1 AATTTT-GAAAAGTTTAGGG-TCAAAATGT
9046600 AATTTTAGAAAAGTTTAGGG
1 AATTTT-GAAAAGTTTAGGG
9046620 AACTATCGTA
Statistics
Matches: 251, Mismatches: 48, Indels: 32
0.76 0.15 0.10
Matches are distributed among these distances:
28 8 0.03
29 109 0.43
30 118 0.47
31 16 0.06
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.34
Consensus pattern (28 bp):
AATTTTGAAAAGTTTAGGGTCAAAATGT
Found at i:9049870 original size:17 final size:17
Alignment explanation
Indices: 9049840--9049876 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9049830 AAGTAATTAC
*
9049840 AAGAATATGAAAGGTTA
1 AAGAAGATGAAAGGTTA
*
9049857 AAGAAGATGGAAGGTTA
1 AAGAAGATGAAAGGTTA
9049874 AAG
1 AAG
9049877 GTCAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.30, T:0.19
Consensus pattern (17 bp):
AAGAAGATGAAAGGTTA
Found at i:9049876 original size:24 final size:24
Alignment explanation
Indices: 9049849--9049896 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9049839 CAAGAATATG
* *
9049849 AAAGGTTAA-AGAAGATGGAAGGTT
1 AAAGGTCAAGAGAA-ATGAAAGGTT
9049873 AAAGGTCAAGAGAAATGAAAGGTT
1 AAAGGTCAAGAGAAATGAAAGGTT
9049897 GAACATCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAGAGAAATGAAAGGTT
Found at i:9054459 original size:24 final size:24
Alignment explanation
Indices: 9054432--9054479 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9054422 CAAAAATATG
* *
9054432 AAAGGTTAA-AGAAGATGGAAGGTT
1 AAAGGTCAAGAGAA-ATGAAAGGTT
9054456 AAAGGTCAAGAGAAATGAAAGGTT
1 AAAGGTCAAGAGAAATGAAAGGTT
9054480 GAACATCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAGAGAAATGAAAGGTT
Found at i:9065097 original size:22 final size:23
Alignment explanation
Indices: 9065072--9065117 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
9065062 TACTGAAATC
9065072 ATATATGA-AATTATTT-GAAAAA
1 ATAT-TGATAATTATTTGGAAAAA
*
9065094 ATATTTATAATTATTTGGAAAAA
1 ATATTGATAATTATTTGGAAAAA
9065117 A
1 A
9065118 AATTTATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 12 0.57
23 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTGATAATTATTTGGAAAAA
Found at i:9065122 original size:23 final size:22
Alignment explanation
Indices: 9065080--9065124 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
9065070 TCATATATGA
*
9065080 AATTATTTGAAAAAATATTTAT
1 AATTATTTGAAAAAAAATTTAT
9065102 AATTATTTGGAAAAAAAATTTAT
1 AATTATTT-GAAAAAAAATTTAT
9065125 TAGTCGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTATTTGAAAAAAAATTTAT
Found at i:9070593 original size:126 final size:126
Alignment explanation
Indices: 9070368--9070620 Score: 479
Period size: 126 Copynumber: 2.0 Consensus size: 126
9070358 CCTAAAGGAG
*
9070368 TGGGTTGACTTCTTTGTCGCACCATGGCTCCTGTGTGTCACGACATCGACTTTTGGACGCGGATT
1 TGGGTTGACTTCTTTGTCGCACCATGGCTCCTGTGTGTCACGACATCGACTTTTAGACGCGGATT
9070433 TTACATTGAGTGAAGGACGTTTCGATCTTTACAATGTCACTTAAACATGAGAAATGACATC
66 TTACATTGAGTGAAGGACGTTTCGATCTTTACAATGTCACTTAAACATGAGAAATGACATC
*
9070494 TGGGTTGACTTCTTTGTCGCACCATGGCTCCTGTGTGTCGCGACATCGACTTTTAGACGCGGATT
1 TGGGTTGACTTCTTTGTCGCACCATGGCTCCTGTGTGTCACGACATCGACTTTTAGACGCGGATT
*
9070559 TTACATTGAGTGAAGGACGTTTCGATCTTTACAATGTCACTTAAACATGAGAAATGATATC
66 TTACATTGAGTGAAGGACGTTTCGATCTTTACAATGTCACTTAAACATGAGAAATGACATC
9070620 T
1 T
9070621 AACCTAGGGT
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (126 bp):
TGGGTTGACTTCTTTGTCGCACCATGGCTCCTGTGTGTCACGACATCGACTTTTAGACGCGGATT
TTACATTGAGTGAAGGACGTTTCGATCTTTACAATGTCACTTAAACATGAGAAATGACATC
Found at i:9071892 original size:12 final size:12
Alignment explanation
Indices: 9071824--9071892 Score: 102
Period size: 12 Copynumber: 5.7 Consensus size: 12
9071814 AACAGCAAAA
9071824 CAACAAAAATAG
1 CAACAAAAATAG
*
9071836 CAACAAAAATAA
1 CAACAAAAATAG
9071848 CAACAAAAATAG
1 CAACAAAAATAG
9071860 CAACAAAAATAG
1 CAACAAAAATAG
*
9071872 CAATAAAAAATAG
1 CAA-CAAAAATAG
*
9071885 CATCAAAA
1 CAACAAAA
9071893 CAGTAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
12 41 0.80
13 10 0.20
ACGTcount: A:0.68, C:0.16, G:0.06, T:0.10
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:9071960 original size:21 final size:20
Alignment explanation
Indices: 9071917--9072008 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
9071907 ATAAACAACA
*
9071917 ACCAAAATAGTAAAAAAAA-
1 ACCAAAACAGTAAAAAAAAC
*
9071936 ACCAAAACAATAAAAAATAAC
1 ACCAAAACAGTAAAAAA-AAC
*
9071957 ACCAAAACAGCAAAAAAAAC
1 ACCAAAACAGTAAAAAAAAC
*
9071977 AATCAAAACAGTAAAAAAATAGC
1 -ACCAAAACAGTAAAAAAA-A-C
9072000 ACCAAAACA
1 ACCAAAACA
9072009 ATAATATAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
19 15 0.25
20 5 0.08
21 31 0.51
22 9 0.15
23 1 0.02
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (20 bp):
ACCAAAACAGTAAAAAAAAC
Found at i:9071992 original size:42 final size:42
Alignment explanation
Indices: 9071928--9072008 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
9071918 CCAAAATAGT
9071928 AAAAAAAAACCAAAACAAT-AAAAAATAACACCAAAACAGCA
1 AAAAAAAAACCAAAACAATAAAAAAATAACACCAAAACAGCA
* * *
9071969 AAAAAAACAATCAAAACAGTAAAAAAATAGCACCAAAACA
1 AAAAAAA-AACCAAAACAATAAAAAAATAACACCAAAACA
9072009 ATAATATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 7 0.20
42 10 0.29
43 18 0.51
ACGTcount: A:0.72, C:0.19, G:0.04, T:0.06
Consensus pattern (42 bp):
AAAAAAAAACCAAAACAATAAAAAAATAACACCAAAACAGCA
Found at i:9072808 original size:26 final size:27
Alignment explanation
Indices: 9072779--9072845 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
9072769 ATGAAAAATC
*
9072779 CAAAATAAAGAAAAGATGAGT-AGAAA
1 CAAAAGAAAGAAAAGATGAGTGAGAAA
**
9072805 CAAAAGAAA-AAATCATGAGTGAGAAA
1 CAAAAGAAAGAAAAGATGAGTGAGAAA
* *
9072831 AAAAAGAATGAAAAG
1 CAAAAGAAAGAAAAG
9072846 TGACAAAGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 9 0.28
26 20 0.62
27 3 0.09
ACGTcount: A:0.66, C:0.04, G:0.19, T:0.10
Consensus pattern (27 bp):
CAAAAGAAAGAAAAGATGAGTGAGAAA
Found at i:9090163 original size:42 final size:41
Alignment explanation
Indices: 9089872--9090209 Score: 221
Period size: 42 Copynumber: 8.3 Consensus size: 41
9089862 TTTGGAAATA
* * * *
9089872 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTTTCT-T
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
* * * * * * *
9089911 AATGCGCCGCAAAATGTAAAG-CATTAGCGGCGC-TTAACAA
1 AA-GCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
* * * * * *
9089951 AAGCGCCGCTAAAGGTCTGGTCATTAGCGGTGCTATAACCAC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTA-TAT
*
9089993 AAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTCTCA-A-
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-T-ATAT
* * * *
9090034 ATGCGCCGCTAAAGGT-AGGGT-ACTTAGCGGTGCTTTCATTT
1 AAGCGCCGCTAAAGGTCA-GGTCA-TTAGCGGCGCTTTTATAT
* * *
9090075 AAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTATATAT
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
* *
9090116 AAAGCGCCGGTAAAGGTCAGGTCATTAGCAGCGCTTTTATAAT
1 -AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTAT-AT
* * * ***
9090159 AAGCGTCACTAAAGGT---GTGAATTAGCGGCGCTTTCCCAT
1 AAGCGCCGCTAAAGGTCAGGT-CATTAGCGGCGCTTTTATAT
9090198 AAGCGCCGCTAA
1 AAGCGCCGCTAA
9090210 TGTATTTAAA
Statistics
Matches: 239, Mismatches: 44, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
39 32 0.13
40 57 0.24
41 64 0.27
42 83 0.35
43 2 0.01
44 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
Found at i:9092538 original size:49 final size:49
Alignment explanation
Indices: 9092495--9093266 Score: 729
Period size: 49 Copynumber: 15.3 Consensus size: 49
9092485 AAGTATCCTT
*
9092495 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* *
9092544 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
9092592 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * ** * *
9092641 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGA
1 TTATATTAAATTA---AA--A-GATTTAATTATTTAATTATATTA-AAGTA-AAT-AA
** *
9092697 TTA-ATTAAATATTTAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAAT-TAAAAGATT--TA-A-TT-A---TTTAATTATATTAAAGTAAATAA
* *
9092753 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
9092802 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* *
9092851 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* *
9092899 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
9092947 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
9092996 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTAATTATAAACACTACCGATTAA
1 TTATATTAAATTA---AA--A-GATTTAATTATTTAATT-A-TATTAA-AGTA---AATAA
* * *
9093056 TTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAACTAA
1 TT--ATA-TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * ** *
9093108 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-T
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA-AATAA
* *
9093157 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* **
9093206 GTATATTAAATT-AATTATTTAATTATTTAATTATATT-AAGATAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAG-TAAATAA
9093254 TTATATTAAATTA
1 TTATATTAAATTA
9093267 TTTAATTATA
Statistics
Matches: 607, Mismatches: 73, Indels: 86
0.79 0.10 0.11
Matches are distributed among these distances:
47 3 0.00
48 181 0.30
49 263 0.43
50 8 0.01
51 1 0.00
52 12 0.02
53 8 0.01
54 32 0.05
55 16 0.03
56 23 0.04
57 15 0.02
58 23 0.04
59 4 0.01
60 8 0.01
62 3 0.00
63 7 0.01
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (49 bp):
TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
Found at i:9092659 original size:18 final size:18
Alignment explanation
Indices: 9092516--9093284 Score: 173
Period size: 18 Copynumber: 45.3 Consensus size: 18
9092506 TAAAAGATTT
9092516 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9092534 AAGTAAATAAGTATATTA
1 AATTATTTAATTATATTA
9092552 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
9092564 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9092582 AAGTAAATAAGTATATT-
1 AATTATTTAATTATATTA
* **
9092599 AA-T-TTAAAAGATA-T-
1 AATTATTTAATTATATTA
*
9092613 AATTATTTAATTGTATTA
1 AATTATTTAATTATATTA
* **
9092631 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
9092649 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
9092668 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
9092687 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
9092704 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
9092725 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
9092743 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
9092761 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
9092774 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
9092792 AAGTAACTAATTATATTA
1 AATTATTTAATTATATTA
* *
9092810 AATTA---AA--AGATTT
1 AATTATTTAATTATATTA
9092823 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9092841 AAGTAAATAAGTATATTA
1 AATTATTTAATTATATTA
9092859 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
9092871 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9092889 AAGTAAATAAGTATATTA
1 AATTATTTAATTATATTA
9092907 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
9092919 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9092937 AAGTAAATAAGTATATT-
1 AATTATTTAATTATATTA
* **
9092954 AA-T-TTAAAAGATA-T-
1 AATTATTTAATTATATTA
*
9092968 AATTATTTAATTGTATTA
1 AATTATTTAATTATATTA
* **
9092986 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
9093004 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
9093023 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* ***
9093042 ACACTA-CCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
9093059 AA-TATTTAAGTTAAAAAATTT
1 AATTATTTAA-TT---ATATTA
9093080 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
9093098 AAGTAACTAATTATATCA
1 AATTATTTAATTATATTA
* *
9093116 AGTTGA---AA-GAT-TT-
1 AATT-ATTTAATTATATTA
9093129 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
*
9093147 AAGTATCCTT--TTATATTA
1 AATTAT--TTAATTATATTA
* * *
9093165 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
9093178 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* *
9093196 AAGTTA-ATAAGTATATT-
1 AA-TTATTTAATTATATTA
9093213 AA--A-TTAATTAT-TT-
1 AATTATTTAATTATATTA
9093226 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
**
9093244 AGA-TAAATAATTATATTA
1 A-ATTATTTAATTATATTA
*
9093262 AATTATTTAATTATATTT
1 AATTATTTAATTATATTA
9093280 AATTA
1 AATTA
9093285 ACTATTTAAC
Statistics
Matches: 537, Mismatches: 128, Indels: 172
0.64 0.15 0.21
Matches are distributed among these distances:
12 16 0.03
13 38 0.07
14 23 0.04
15 39 0.07
16 55 0.10
17 31 0.06
18 262 0.49
19 17 0.03
20 4 0.01
21 18 0.03
22 34 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:9092737 original size:161 final size:146
Alignment explanation
Indices: 9092495--9093266 Score: 735
Period size: 161 Copynumber: 5.1 Consensus size: 146
9092485 AAGTATCCTT
* * * * *
9092495 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATTAAATTAAAAGATTTAATTATGTAATTATATAAAACTAAATAAGTATATTAAATTAAAG
* *
9092560 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAATT
* *
9092625 GTATTAAACTAAATAA
131 ATATTAAAGTAAATAA
* * *
9092641 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTAATTATAAACACTATCGATTAATTAA
1 TTATATTAAATTA---AA--A-GATTTAATTATGTAATT-A-TATAAA-ACTA---AATAAGT--
* * *
9092705 ATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAG
52 ATA-TTAAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAG
*
9092770 ATTTAATTATTTAATTATATTAAAGTAACTAA
115 ATTTAATTATTTAATTATATTAAAGTAAATAA
* * * *
9092802 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATTAAATTAAAAGATTTAATTATGTAATTATATAAAACTAAATAAGTATATTAAATTAAAG
*
9092867 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATT-AAATATTTAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAATT
9092931 ATATTAAAGTAAATAA
131 ATATTAAAGTAAATAA
* * * * * * *
9092947 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTT
1 TTATATTAAATTAAAAGATTTAATTATGTAATTATATAAAACTAAATAAGTATATTAAATTA---
* * * * * * * * *
9093012 AATCATGTTTAATTATGTATTTAATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAAA
63 AA-GA--TTTAATTATTTAATT-A-TATTAA-AGTA---AATAAGT--ATA-TTAAATTAAAAGA
*
9093077 TTTAATTATTTAATTATATTAAAGTAACTAA
116 TTTAATTATTTAATTATATTAAAGTAAATAA
* * * * * * ** ** *
9093108 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAA
1 TTATATTAAATTAAAAGATTTAATTATGTAATTATATAAAACTA-AATAAGTATATTAAATT-AA
* **
9093172 AGATTTAATTATTTAATTATATTAAAGTTAATAAGTATATTAAATT-AATTATTTAATTATTTAA
64 AGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAA
9093236 TTATATT-AAGATAAATAA
129 TTATATTAAAG-TAAATAA
9093254 TTATATTAAATTA
1 TTATATTAAATTA
9093267 TTTAATTATA
Statistics
Matches: 521, Mismatches: 69, Indels: 72
0.79 0.10 0.11
Matches are distributed among these distances:
145 93 0.18
146 96 0.18
147 12 0.02
148 8 0.02
149 3 0.01
150 10 0.02
151 27 0.05
152 3 0.01
153 15 0.03
154 16 0.03
155 3 0.01
156 27 0.05
157 10 0.02
158 3 0.01
159 8 0.02
160 12 0.02
161 173 0.33
162 2 0.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (146 bp):
TTATATTAAATTAAAAGATTTAATTATGTAATTATATAAAACTAAATAAGTATATTAAATTAAAG
ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAATT
ATATTAAAGTAAATAA
Found at i:9092917 original size:30 final size:30
Alignment explanation
Indices: 9092883--9092945 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
9092873 TTATTTAATT
*
9092883 ATATTAAAGTAAATAAGTATATTAAATTAA
1 ATATTAAAGTAAATAAGTATATTAAAGTAA
* * ** *
9092913 ATATTTAATTATTTAATTATATTAAAGTAA
1 ATATTAAAGTAAATAAGTATATTAAAGTAA
9092943 ATA
1 ATA
9092946 AGTATATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (30 bp):
ATATTAAAGTAAATAAGTATATTAAAGTAA
Found at i:9093163 original size:355 final size:355
Alignment explanation
Indices: 9092496--9093266 Score: 1384
Period size: 355 Copynumber: 2.2 Consensus size: 355
9092486 AGTATCCTTT
* *
9092496 TATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATA
1 TATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATA
9092561 TTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTG
65 TTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTG
9092626 TATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAC
130 TATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAC
* *
9092691 TATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTA
195 TACCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATAATTA
*
9092756 TATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAAGAT
260 TATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAAGAT
9092821 TTAATTATTTAATTATATTAAAGTAAATAAG
325 TTAATTATTTAATTATATTAAAGTAAATAAG
9092852 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATAT
1 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATAT
9092917 TTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTGT
66 TTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTGT
9092982 ATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACT
131 ATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACT
*
9093047 ACCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAACTAATTAT
196 ACCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATAATTAT
* * * *
9093112 ATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAAAGAT
261 ATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA-ACTAATTATATTAAATTAAAAGAT
*
9093176 TTAATTATTTAATTATATTAAAGTTAATAAG
325 TTAATTATTTAATTATATTAAAGTAAATAAG
* *
9093207 TATATTAAATTAATTATTTAATTATTTAATTATATT-AAGATAAATAATTATATTAAATTA
1 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAG-TAAATAAGTATATTAAATTA
9093267 TTTAATTATA
Statistics
Matches: 400, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
354 3 0.01
355 385 0.96
356 12 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (355 bp):
TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATAT
TTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTGT
ATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACT
ACCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATAATTAT
ATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAAGATT
TAATTATTTAATTATATTAAAGTAAATAAG
Found at i:9093187 original size:8 final size:8
Alignment explanation
Indices: 9093174--9093275 Score: 59
Period size: 8 Copynumber: 12.2 Consensus size: 8
9093164 AAGTTAAAAG
9093174 ATTTAATT
1 ATTTAATT
9093182 ATTTAATT
1 ATTTAATT
9093190 ATATTAAAGTT
1 AT-TT-AA-TT
* *
9093201 A-ATAAGT
1 ATTTAATT
9093208 ATATTAA--
1 AT-TTAATT
9093215 A-TTAATT
1 ATTTAATT
9093222 ATTTAATT
1 ATTTAATT
9093230 ATTTAATT
1 ATTTAATT
*
9093238 ATATTAAGAT
1 AT-TTAA-TT
**
9093248 AAATAATT
1 ATTTAATT
9093256 ATATTAAATT
1 AT-TT-AATT
9093266 ATTTAATT
1 ATTTAATT
9093274 AT
1 AT
9093276 ATTTAATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.05
7 4 0.05
8 36 0.49
9 16 0.22
10 10 0.14
11 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:9093349 original size:8 final size:8
Alignment explanation
Indices: 9093313--9093406 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
9093303 TGGTCGTAAA
9093313 TAATTATAT
1 TAATTAT-T
9093322 ATAATTATT
1 -TAATTATT
9093331 TAAGCTTATT
1 TAA--TTATT
9093341 TAATTATT
1 TAATTATT
9093349 TAATTGA--
1 TAATT-ATT
**
9093356 -AAAGATT
1 TAATTATT
9093363 TAATTATT
1 TAATTATT
9093371 TAATTATAT
1 TAATTAT-T
9093380 TAA--A-T
1 TAATTATT
*
9093385 TAAATATT
1 TAATTATT
9093393 TAATTATT
1 TAATTATT
9093401 TAATTA
1 TAATTA
9093407 ATAAAAACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 39 0.57
9 6 0.09
10 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (8 bp):
TAATTATT
Found at i:9093369 original size:258 final size:257
Alignment explanation
Indices: 9092806--9093293 Score: 660
Period size: 258 Copynumber: 1.9 Consensus size: 257
9092796 AACTAATTAT
* * * * * * * *
9092806 ATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATT-AAATATT
1 ATTAAGTTAAAAAATTTAATTATTTAATTAGA-TAAAGTAACTAATTATATCAAGTTGAAAGATT
*
9092870 TAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAATATTTAATTATTTAATTATAT
65 TAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAGATTTAATTATTTAATTATAT
* *
9092935 TAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAATTAT
130 TAAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTAT
* ** *
9093000 ATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTACCGATTAATTAAATA
195 ATTAAATTATTTAATCATATTTAATTAACTATTTAATTATAAACACTACCGAATAATTAAATA
* *
9093063 TTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAACTAATTATATCAAGTTGAAAGATT
1 ATTAAGTTAAAAAATTTAATTATTTAATTAGA-TAAAGTAACTAATTATATCAAGTTGAAAGATT
** ** *
9093128 TAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAAAGATTTAATTATTTAATTAT
65 TAATTATTTAATTATATTAAAGTA-AATAAGTATATTAAATT-AAAGATTTAATTATTTAATTAT
* ** *
9093192 ATTAAAGTTAATAAGTATATTAAATT-AATTATTTAATTATTTAATTATATTAAGA-TAAATAAT
128 ATTAAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAATTATATTAA-ACTAAATAAT
*
9093255 TATATTAAATTATTTAATTATATTTAATTAACTATTTAA
192 TATATTAAATTATTTAATCATATTTAATTAACTATTTAA
9093294 CTTAAAATGT
Statistics
Matches: 203, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
257 50 0.25
258 106 0.52
259 47 0.23
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (257 bp):
ATTAAGTTAAAAAATTTAATTATTTAATTAGATAAAGTAACTAATTATATCAAGTTGAAAGATTT
AATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAGATTTAATTATTTAATTATATT
AAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATA
TTAAATTATTTAATCATATTTAATTAACTATTTAATTATAAACACTACCGAATAATTAAATA
Found at i:9099030 original size:66 final size:66
Alignment explanation
Indices: 9098924--9099071 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 66
9098914 CAAATTGCTC
* *
9098924 AACTTAAAGAGGAGGCTGCAACAAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATC-T
1 AACTTAAAGAGGAGGTTGCAACAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCA-CAT
9098988 AA
65 AA
** *
9098990 AACTTAAAGAGGAGGTTGCAATGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGTTGCAACAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
9099055 C
66 A
*
9099056 AACTTAAAGTGGAGGT
1 AACTTAAAGAGGAGGT
9099072 AGCAGCGAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 1 0.01
66 73 0.99
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (66 bp):
AACTTAAAGAGGAGGTTGCAACAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:9099461 original size:43 final size:43
Alignment explanation
Indices: 9099398--9099536 Score: 215
Period size: 43 Copynumber: 3.2 Consensus size: 43
9099388 CTGTTATATT
*
9099398 AGCGGCGCTTGTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
* * * *
9099441 AGCGGCACTTGTGGAGAAAGCGCCGCTGAAGAACATGGCATTC
1 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
* *
9099484 AGCGGCGCTTGTGGAAAAAGCGCCGTTAAAGAACATGGGCTTC
1 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
9099527 AGCGGCGCTT
1 AGCGGCGCTT
9099537 TTTCGCATAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (43 bp):
AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
Found at i:9102518 original size:28 final size:28
Alignment explanation
Indices: 9102487--9102571 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
9102477 AAAGAAAAGT
9102487 CTTTGTGGCAAACTCTGAAAAGAATAAC
1 CTTTGTGGCAAACTCTGAAAAGAATAAC
* * * * *
9102515 CTTTGTAGCAAGCTTTGAAAGGAATAGC
1 CTTTGTGGCAAACTCTGAAAAGAATAAC
* *
9102543 CTTTGTGGAAAACTCT-AAAATGAAAAAC
1 CTTTGTGGCAAACTCTGAAAA-GAATAAC
9102571 C
1 C
9102572 CTTATGGCTC
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 3 0.07
28 41 0.93
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (28 bp):
CTTTGTGGCAAACTCTGAAAAGAATAAC
Found at i:9105173 original size:11 final size:10
Alignment explanation
Indices: 9105143--9105176 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
9105133 AAGTTATATG
9105143 TAATCTAGTT
1 TAATCTAGTT
9105153 TAAT-TAGTT
1 TAATCTAGTT
9105162 TAATCATAGTT
1 TAATC-TAGTT
9105173 TAAT
1 TAAT
9105177 TTACATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 4 0.18
11 9 0.41
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (10 bp):
TAATCTAGTT
Found at i:9105196 original size:21 final size:21
Alignment explanation
Indices: 9105172--9105242 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
9105162 TAATCATAGT
9105172 TTAATTTACATTAATGATCTA
1 TTAATTTACATTAATGATCTA
* *
9105193 TTAA-TTAAACTTAAT-AGC-A
1 TTAATTTACA-TTAATGATCTA
** *
9105212 TCCATTTATATTAATGATCTA
1 TTAATTTACATTAATGATCTA
9105233 TTAATTTACA
1 TTAATTTACA
9105243 ACAATGAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
19 8 0.22
20 12 0.32
21 17 0.46
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
TTAATTTACATTAATGATCTA
Found at i:9107160 original size:24 final size:26
Alignment explanation
Indices: 9107106--9107160 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
9107096 AATGATTTTA
*
9107106 ACTAAAAAAATATATAGATTAAATTG
1 ACTAAAAAAATATATAGATTAAATAG
*
9107132 A-TAAAAAAATATA-ATATTAAA-AG
1 ACTAAAAAAATATATAGATTAAATAG
9107155 ACTAAA
1 ACTAAA
9107161 TTTGATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.08
24 11 0.42
25 12 0.46
26 1 0.04
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (26 bp):
ACTAAAAAAATATATAGATTAAATAG
Found at i:9109388 original size:22 final size:22
Alignment explanation
Indices: 9109360--9109441 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
9109350 TCAACTCTAC
9109360 TCATTTCTCTCCTAAATGTTCA
1 TCATTTCTCTCCTAAATGTTCA
** **
9109382 TCATTTCTCATCGCTTCCTATAACTCTA
1 TCATTTCTC-TC-C-T-AAAT-GTTC-A
9109410 CTCATTTCTCTCCTAAATGTTCA
1 -TCATTTCTCTCCTAAATGTTCA
9109433 TCATTTCTC
1 TCATTTCTC
9109442 ATCGCTTCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
22 18 0.40
23 3 0.07
24 3 0.07
25 3 0.07
26 3 0.07
27 3 0.07
28 3 0.07
29 9 0.20
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (22 bp):
TCATTTCTCTCCTAAATGTTCA
Found at i:9109409 original size:51 final size:51
Alignment explanation
Indices: 9109352--9109453 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
9109342 TCTTTCTCTC
9109352 AACTCTACTCATTTCTCTCCTAAATGTTCATCATTTCTCATCGCTTCCTAT
1 AACTCTACTCATTTCTCTCCTAAATGTTCATCATTTCTCATCGCTTCCTAT
9109403 AACTCTACTCATTTCTCTCCTAAATGTTCATCATTTCTCATCGCTTCCTAT
1 AACTCTACTCATTTCTCTCCTAAATGTTCATCATTTCTCATCGCTTCCTAT
9109454 CGATTTCTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.43
Consensus pattern (51 bp):
AACTCTACTCATTTCTCTCCTAAATGTTCATCATTTCTCATCGCTTCCTAT
Found at i:9111395 original size:21 final size:21
Alignment explanation
Indices: 9111369--9111428 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
9111359 AATAGTGCAA
9111369 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
9111390 AGTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* *
9111411 TCTTCTACCGAAACAAGT
1 ACTTCTACCGATACAAGT
9111429 ATTACTTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:9111436 original size:21 final size:21
Alignment explanation
Indices: 9111369--9111444 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
9111359 AATAGTGCAA
*
9111369 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAT
*
9111390 AGTTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGTGA-T
*
9111412 -CTTCTACCGAAACAAGT-ATT
1 ACTTCTACCGATACAAGTGA-T
*
9111432 ACTTCTACTGATA
1 ACTTCTACCGATA
9111445 GTTAAAACTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.96
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAT
Found at i:9112219 original size:52 final size:52
Alignment explanation
Indices: 9112163--9112348 Score: 180
Period size: 52 Copynumber: 3.6 Consensus size: 52
9112153 GTATTGGGAA
*
9112163 TCATATACTCACGACGACACATAGTCATCCAACCTCATAATCCATAAAGGAT
1 TCATATACTCACGATGACACATAGTCATCCAACCTCATAATCCATAAAGGAT
* * * *** * * *
9112215 TCATATATTCACGATGTCACATAATCATCGGGCCCCATAATCCGTATAGGAT
1 TCATATACTCACGATGACACATAGTCATCCAACCTCATAATCCATAAAGGAT
* * * *
9112267 TCATATACTCACGATGACATAGAGTCAT-CAGACCT-TTAATCCGA-AATATGAT
1 TCATATACTCACGATGACACATAGTCATCCA-ACCTCATAATCC-ATAA-AGGAT
*
9112319 TCATATAACTCACGATGACACAAAGTCATC
1 TCATAT-ACTCACGATGACACATAGTCATC
9112349 GGACCTTTTT
Statistics
Matches: 104, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
51 7 0.07
52 77 0.74
53 20 0.19
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (52 bp):
TCATATACTCACGATGACACATAGTCATCCAACCTCATAATCCATAAAGGAT
Found at i:9112320 original size:104 final size:106
Alignment explanation
Indices: 9112117--9112350 Score: 250
Period size: 104 Copynumber: 2.2 Consensus size: 106
9112107 GCATTTTTAT
* * * * *
9112117 ACTCACGATAACACAGAGTCAT-TGG-ACCATTAATCCGTATTGGGAATCATATACTCACGACGA
1 ACTCACGATGACACAAAGTCATCGGGCCCCA-TAATCCGTATTAGGAATCATATACTCACGACGA
*
9112180 CACATAGTCATCCAACCTCATAATCCATAAAGGATTCATAT-
65 CACAGAGTCATCCAACCTCATAATCCATAAAGGATTCATATA
* * * *
9112221 ATTCACGATGTCACATAA-TCATCGGGCCCCATAATCCGTA-TAGGATTCATATACTCACGATGA
1 ACTCACGATGACACA-AAGTCATCGGGCCCCATAATCCGTATTAGGAATCATATACTCACGACGA
* * *
9112284 CATAGAGTCAT-CAGACCT-TTAATCCGA-AATATGATTCATATA
65 CACAGAGTCATCCA-ACCTCATAATCC-ATAA-AGGATTCATATA
9112326 ACTCACGATGACACAAAGTCATCGG
1 ACTCACGATGACACAAAGTCATCGG
9112351 ACCTTTTTGC
Statistics
Matches: 107, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
103 10 0.09
104 62 0.58
105 32 0.30
106 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (106 bp):
ACTCACGATGACACAAAGTCATCGGGCCCCATAATCCGTATTAGGAATCATATACTCACGACGAC
ACAGAGTCATCCAACCTCATAATCCATAAAGGATTCATATA
Found at i:9114115 original size:6 final size:6
Alignment explanation
Indices: 9114090--9114128 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9114080 ACAATTCATA
* * *
9114090 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
9114129 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:9121235 original size:21 final size:20
Alignment explanation
Indices: 9121211--9121263 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
9121201 AGTGCAAACT
9121211 TCTACCGATACAAGTGAC-AG
1 TCTACCGATACAAGT-ACAAG
9121231 CTCTACCGATACAAGTACATAG
1 -TCTACCGATACAAGTACA-AG
9121253 TCTACCGATAC
1 TCTACCGATAC
9121264 TTCTAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (20 bp):
TCTACCGATACAAGTACAAG
Found at i:9121942 original size:52 final size:51
Alignment explanation
Indices: 9121861--9122100 Score: 275
Period size: 52 Copynumber: 4.6 Consensus size: 51
9121851 TGCATTTTTA
* * *
9121861 ATACTCACGATGACACAGAGTCATCGGACC-ATTAATTCATATTGGGAATCAT
1 ATACTCACGATGACACAGAGTCATCGGACCTA-TAATCCATA-TAGGATTCAT
* * * *
9121913 ATACTCACGACGACACATAGTCATTGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACAGAGTCATCGGACCT-ATAATCCATATAGGATTCAT
* * *
9121965 ATACTCACGATGACACATAATCATTGGACCTCATAATCCATATAGGATTCAT
1 ATACTCACGATGACACAGAGTCATCGGACCT-ATAATCCATATAGGATTCAT
* * * * *
9122017 ATACTCATGATGACACAGAGTCATCAGACCTTTAATCTGAAATAGGATTCAT
1 ATACTCACGATGACACAGAGTCATCGGACCTATAATC-CATATAGGATTCAT
*
9122069 ATAACTCACGATGACACAAAGTCATCGGACCT
1 AT-ACTCACGATGACACAGAGTCATCGGACCT
9122101 TTTTGCATTT
Statistics
Matches: 163, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
51 5 0.03
52 123 0.75
53 34 0.21
54 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (51 bp):
ATACTCACGATGACACAGAGTCATCGGACCTATAATCCATATAGGATTCAT
Found at i:9128439 original size:22 final size:23
Alignment explanation
Indices: 9128394--9128440 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
9128384 AAAAGTTATA
*
9128394 TTTAAGAATTTAGGGTCTTGGAT
1 TTTAAGAATTTAGGGTCTTAGAT
* *
9128417 TTTAA-AATTTATGGTGTTAGAT
1 TTTAAGAATTTAGGGTCTTAGAT
9128439 TT
1 TT
9128441 AAGGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (23 bp):
TTTAAGAATTTAGGGTCTTAGAT
Found at i:9128880 original size:15 final size:15
Alignment explanation
Indices: 9128824--9128880 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
9128814 TTTAATATAA
9128824 TTTAATATAAAATAT
1 TTTAATATAAAATAT
*
9128839 TTT-ATTTCAAAATAT
1 TTTAATAT-AAAATAT
*
9128854 AATTTAAAATAAAATAT
1 --TTTAATATAAAATAT
9128871 TTTAATATAA
1 TTTAATATAA
9128881 TTTAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.09
15 19 0.56
17 10 0.29
18 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATATAAAATAT
Found at i:9132422 original size:7 final size:7
Alignment explanation
Indices: 9132410--9132436 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9132400 GGCTAAAGAG
9132410 AGAAATT
1 AGAAATT
9132417 AGAAATT
1 AGAAATT
9132424 AGAAATT
1 AGAAATT
9132431 AGAAAT
1 AGAAAT
9132437 GTTAAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
AGAAATT
Found at i:9133034 original size:17 final size:17
Alignment explanation
Indices: 9133012--9133046 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9133002 TTACAGATAC
9133012 AGTCATGCCACAAATAT
1 AGTCATGCCACAAATAT
* *
9133029 AGTCATGTCACCAATAT
1 AGTCATGCCACAAATAT
9133046 A
1 A
9133047 ATTAGGGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (17 bp):
AGTCATGCCACAAATAT
Found at i:9133097 original size:29 final size:29
Alignment explanation
Indices: 9133053--9133126 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
9133043 TATAATTAGG
* *
9133053 GATGCAGACATAATACAAATGCAGTTACA
1 GATGCAGACATGATACAAATACAGTTACA
*
9133082 GATGCAGACATGATACAGATACAGTTACA
1 GATGCAGACATGATACAAATACAGTTACA
9133111 GATGCAGACATGATAC
1 GATGCAGACATGATAC
9133127 CTCCATCCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (29 bp):
GATGCAGACATGATACAAATACAGTTACA
Found at i:9133318 original size:40 final size:40
Alignment explanation
Indices: 9133209--9133319 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
9133199 ATGACACATC
* * * *
9133209 GCAGTGTTTACAATGTCACTGCCAGTTCAATTGTAAGCTT
1 GCAGTGTTTACAGTGTCACTGACAGTTCAGTTGAAAGCTT
* * * *
9133249 GTAGTGTTTACAGTATCACT-ACTGATTCAGTTGAAATCTT
1 GCAGTGTTTACAGTGTCACTGACAG-TTCAGTTGAAAGCTT
* *
9133289 GCAGTGTTAACAGTGTCACTGTCAGTTCAGT
1 GCAGTGTTTACAGTGTCACTGACAGTTCAGT
9133320 AAATATTCTC
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.04
40 52 0.93
41 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (40 bp):
GCAGTGTTTACAGTGTCACTGACAGTTCAGTTGAAAGCTT
Found at i:9133772 original size:41 final size:41
Alignment explanation
Indices: 9133727--9133816 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
9133717 TTATTACAGA
* * *
9133727 CCATGTGTCTCAAAACAATATGCACACACCCTGACACATGC
1 CCATGTGTCCCAAAACAATATACACACACCCTGACACACGC
* * *
9133768 CCATGTGCCCCAAAACAGTATACACACACCTTGACACACGC
1 CCATGTGTCCCAAAACAATATACACACACCCTGACACACGC
9133809 CCATGTGT
1 CCATGTGT
9133817 TAGCCCGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.32, C:0.36, G:0.13, T:0.19
Consensus pattern (41 bp):
CCATGTGTCCCAAAACAATATACACACACCCTGACACACGC
Found at i:9133957 original size:55 final size:55
Alignment explanation
Indices: 9133893--9133997 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
9133883 ACACATGCTC
* * * *
9133893 GTGTGCCTCCAAATAGTATACACACATACCCTGACACACGCCCGTGTGCCTACTT
1 GTGTCCCTCCAAACAGTATACACACACACCCTGACACACGCCCGCGTGCCTACTT
9133948 GTGTCCCTCCAAACAGTATACACACACACCCTGACACACGCCCGCGTGCC
1 GTGTCCCTCCAAACAGTATACACACACACCCTGACACACGCCCGCGTGCC
9133998 ACACACACCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (55 bp):
GTGTCCCTCCAAACAGTATACACACACACCCTGACACACGCCCGCGTGCCTACTT
Found at i:9136972 original size:31 final size:29
Alignment explanation
Indices: 9136937--9136998 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 29
9136927 TTAAATGGAC
9136937 TTAAT-TTTCTTATCCAAATTCATTTTCAAAT
1 TTAATATTT-TTATCCAAA-TC-TTTTCAAAT
9136968 TTAATATTTTTATCCAAATCTTTTCAAAT
1 TTAATATTTTTATCCAAATCTTTTCAAAT
9136997 TT
1 TT
9136999 CAGACGGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 11 0.37
30 2 0.07
31 14 0.47
32 3 0.10
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAATATTTTTATCCAAATCTTTTCAAAT
Found at i:9137330 original size:16 final size:15
Alignment explanation
Indices: 9137302--9137331 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
9137292 TAAATGGAAA
9137302 GAGATAGGAGATAGT
1 GAGATAGGAGATAGT
9137317 GAGATAGTGAGATAG
1 GAGATAG-GAGATAG
9137332 ATTGAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (15 bp):
GAGATAGGAGATAGT
Found at i:9137339 original size:10 final size:8
Alignment explanation
Indices: 9137302--9137331 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9137292 TAAATGGAAA
9137302 GAGATAG-
1 GAGATAGT
9137309 GAGATAGT
1 GAGATAGT
9137317 GAGATAGT
1 GAGATAGT
9137325 GAGATAG
1 GAGATAG
9137332 ATTGAGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (8 bp):
GAGATAGT
Found at i:9140931 original size:2 final size:2
Alignment explanation
Indices: 9140926--9140971 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9140916 AATATATTCA
9140926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9140968 AT AT
1 AT AT
9140972 TACATTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9147170 original size:224 final size:222
Alignment explanation
Indices: 9146738--9147171 Score: 534
Period size: 224 Copynumber: 1.9 Consensus size: 222
9146728 TGCCACTTTT
* * * *
9146738 ACTATTAATCATATAATCATTCATTATACGAACTTAATCAAATGAATTATAATTAGTCGTACATT
1 ACTATTAATCATACAATCATTAATTATACGAACATAATCAAATGAATTATAATTAGTCGTACACT
* * * ***
9146803 CAACAATCCAATTGAATCGTTTCTATACAAGTGTAATGACATTACGTGCATTTGCATTTACCTAA
66 CAACAATCCAATTGAATCGTTTATATACAAGTATAATAACATTACGTGCATACACATTTACCTAA
* * * * *
9146868 TTATGAACGTAATGGAATGAATTATAATTTTAATCATAAAATCATAGATACTATTTAATTGAACT
131 TTATGAACCTAATCGAATGAATTATAATATTAATCATAAAATCATAGATACAATTGAATTGAACT
*
9146933 ATGTATAAATGTAATTAAATGGATCAG
196 ATGGATAAATGTAATTAAATGGATCAG
* *
9146960 ACTATTATTCATACAATCATTAATTATACGAACATAATCGAATGAATTATATAATTAGTCGTACA
1 ACTATTAATCATACAATCATTAATTATACGAACATAATCAAATGAA-T-TATAATTAGTCGTACA
** * * *
9147025 CTCAATGATCCAATTGAAGT-GTTTATATACAAGTATAATAACATTATGTGCATACACTTTTTCC
64 CTCAACAATCCAATTGAA-TCGTTTATATACAAGTATAATAACATTACGTGCATACACATTTACC
* * *
9147089 TAATTATGAACCTAATCGAATGAATTATACA-ATTAATCATACAATCATTA-ATTCAATTGGATT
128 TAATTATGAACCTAATCGAATGAATTATA-ATATTAATCATAAAATCA-TAGATACAATTGAATT
* *
9147152 -ATTCTATGGATGAATGTAAT
191 GA-ACTATGGATAAATGTAAT
9147172 GACATATTGG
Statistics
Matches: 178, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
222 41 0.23
223 2 0.01
224 131 0.74
225 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (222 bp):
ACTATTAATCATACAATCATTAATTATACGAACATAATCAAATGAATTATAATTAGTCGTACACT
CAACAATCCAATTGAATCGTTTATATACAAGTATAATAACATTACGTGCATACACATTTACCTAA
TTATGAACCTAATCGAATGAATTATAATATTAATCATAAAATCATAGATACAATTGAATTGAACT
ATGGATAAATGTAATTAAATGGATCAG
Found at i:9152770 original size:58 final size:58
Alignment explanation
Indices: 9152708--9152827 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
9152698 AACCATTAAC
*
9152708 AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTCAT
1 AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
* *
9152766 AAACTAAATCCAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
9152824 AAAC
1 AAAC
9152828 AACTCCTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.05
58 55 0.95
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (58 bp):
AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:9158288 original size:20 final size:18
Alignment explanation
Indices: 9158259--9158318 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 18
9158249 TTTTTTAAAA
9158259 AATATATATTATATTATTTT
1 AATATATATTA-ATT-TTTT
*
9158279 AATATTTATTAATTTTTT
1 AATATATATTAATTTTTT
*
9158297 -ATTTAT-TTAAATTTTTT
1 AATATATATT-AATTTTTT
9158314 -ATATA
1 AATATA
9158319 GTTATCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.06
17 16 0.46
18 4 0.11
19 3 0.09
20 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATATATTAATTTTTT
Found at i:9158299 original size:15 final size:17
Alignment explanation
Indices: 9158281--9158315 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9158271 ATTATTTTAA
9158281 TATTTA-TT-AATTTTT
1 TATTTATTTAAATTTTT
9158296 TATTTATTTAAATTTTT
1 TATTTATTTAAATTTTT
9158313 TAT
1 TAT
9158316 ATAGTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTAAATTTTT
Found at i:9160337 original size:17 final size:17
Alignment explanation
Indices: 9160315--9160350 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9160305 AATTAGAGGC
9160315 AACCAAATTTGAATTCT
1 AACCAAATTTGAATTCT
9160332 AACCAAATTTGAATTCT
1 AACCAAATTTGAATTCT
9160349 AA
1 AA
9160351 AAAAGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
AACCAAATTTGAATTCT
Found at i:9178746 original size:11 final size:11
Alignment explanation
Indices: 9178732--9178787 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
9178722 CATTTGAAAA
*
9178732 TTAAATTTATT
1 TTAAATTTAAT
*
9178743 TTAAATTCAAT
1 TTAAATTTAAT
9178754 TTAAATTTAAAT
1 TTAAATTT-AAT
*
9178766 TTGAATTTAAT
1 TTAAATTTAAT
9178777 TTAAATTTAAT
1 TTAAATTTAAT
9178788 ATTATTATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:9178777 original size:23 final size:23
Alignment explanation
Indices: 9178732--9178786 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
9178722 CATTTGAAAA
*
9178732 TTAAATTT-ATTTTAAATTCAAT
1 TTAAATTTAAATTTAAATTCAAT
* *
9178754 TTAAATTTAAATTTGAATTTAAT
1 TTAAATTTAAATTTAAATTCAAT
9178777 TTAAATTTAA
1 TTAAATTTAA
9178787 TATTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAAATTTAAATTTAAATTCAAT
Found at i:9178784 original size:17 final size:16
Alignment explanation
Indices: 9178729--9178803 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 16
9178719 AATCATTTGA
* *
9178729 AAATTAAATTTATTTT
1 AAATTTAATTTAATTT
*
9178745 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
9178762 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
9178779 AAATTTAATATT-ATTAT
1 AAATTTAAT-TTAATT-T
9178796 AAATTTAA
1 AAATTTAA
9178804 AAAGAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.31
17 31 0.60
18 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:9178804 original size:6 final size:6
Alignment explanation
Indices: 9178732--9178786 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
9178722 CATTTGAAAA
* * *
9178732 TTAAAT TT-ATT TTAAA- TTCAAT TTAAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
9178777 TTAAAT TTAA
1 TTAAAT TTAA
9178787 TATTATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 13 0.32
6 28 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:9180576 original size:162 final size:162
Alignment explanation
Indices: 9180403--9180741 Score: 570
Period size: 162 Copynumber: 2.1 Consensus size: 162
9180393 GCTTTTCAAT
* * * *
9180403 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGTTGCCACGTGTCATTTTTTGGATTATTTCTGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTAGATTATTTATACA
*
9180468 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTTATTTAATTACGA
66 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTCATTTAATTACGA
* * *
9180533 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTACAAA
9180565 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTAGATTATTTATACA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTAGATTATTTATACA
*
9180630 TTTAGTCCTTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTCATTTAATTACGA
66 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTCATTTAATTACGA
* *
9180695 AATTGGCCCAAGATTTTTTCAAGATTTACAAT
131 AATTGGCCCAAGAATTTTTCAAGATTTACAAA
*
9180727 TTAATCCTTTGACTG
1 TTAGTCCTTTGACTG
9180742 CTGGATGCCT
Statistics
Matches: 165, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 165 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTAGATTATTTATACA
TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTCATTTAATTACGA
AATTGGCCCAAGAATTTTTCAAGATTTACAAA
Found at i:9180889 original size:29 final size:29
Alignment explanation
Indices: 9180857--9180972 Score: 105
Period size: 30 Copynumber: 4.0 Consensus size: 29
9180847 CTACATTCTG
* *
9180857 ACCCCAAAACTTCCAAAAATTACCATTTT
1 ACCCCGAAACTTCTAAAAATTACCATTTT
* *
9180886 ACCCCCGAATCTT-TTAAAATT-CCATTTCT
1 A-CCCCGAAACTTCTAAAAATTACCATTT-T
*
9180915 GACCCTGAAACTTCTAAAAATTACCATTTT
1 -ACCCCGAAACTTCTAAAAATTACCATTTT
* *
9180945 ACCCCCGAATCTT-TTAAAATT-CCATTTT
1 A-CCCCGAAACTTCTAAAAATTACCATTTT
9180973 TAACCTCGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
28 13 0.18
29 25 0.35
30 27 0.38
31 6 0.08
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
ACCCCGAAACTTCTAAAAATTACCATTTT
Found at i:9180926 original size:59 final size:58
Alignment explanation
Indices: 9180865--9181126 Score: 284
Period size: 59 Copynumber: 4.5 Consensus size: 58
9180855 TGACCCCAAA
* *
9180865 ACTTC-CAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTCTGACCCT-G
1 ACTTCACAAAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTT-TGAACCTCG
* * *
9180922 AAACTTC-TAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCTCG
1 --ACTTCACAAAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTGAACCTCG
* * * *
9180981 ATTTCACTGAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCG
1 ACTTCAC-AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTGAACCTCG
* * *
9181040 ATTTCACAGAAAATTACCATTTTACGCCCGAACTTTCCAAAATTCCATTTT-AACCCCG
1 ACTTCACA-AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTGAACCTCG
* * *
9181098 ATTTCACCAAAATTACCATTTTGCCCCCG
1 ACTTCACAAAAATTACCATTTTACCCCCG
9181127 GGTATCCAAA
Statistics
Matches: 183, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
57 23 0.13
58 22 0.12
59 138 0.75
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (58 bp):
ACTTCACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTGAACCTCG
Found at i:9180973 original size:29 final size:29
Alignment explanation
Indices: 9180872--9181098 Score: 135
Period size: 29 Copynumber: 7.8 Consensus size: 29
9180862 AAAACTTCCA
9180872 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * *
9180901 AAAATT-CCATTTCTGA-CCCTGAAACTTCTA
1 AAAATTACCATTT-T-ACCCCCGAATCTT-TT
9180931 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * * ** *
9180960 AAAATT-CCATTTTTAACCTCGATTTCACTG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
* *
9180990 AAAATTACCATTTTACCCCTGAA-CTTTCC
1 AAAATTACCATTTTACCCCCGAATCTTT-T
* * * ****
9181019 AAAATT-CCATTTTTAACCTCGATTTCACAG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
* *
9181049 AAAATTACCATTTTACGCCCGAA-CTTTCC
1 AAAATTACCATTTTACCCCCGAATCTTT-T
*
9181078 AAAATT-CCATTTTAACCCCGA
1 AAAATTACCATTTTACCCCCGA
9181099 TTTCACCAAA
Statistics
Matches: 147, Mismatches: 37, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
28 28 0.19
29 55 0.37
30 51 0.35
31 13 0.09
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTTT
Found at i:9181029 original size:118 final size:116
Alignment explanation
Indices: 9180872--9181126 Score: 313
Period size: 118 Copynumber: 2.2 Consensus size: 116
9180862 AAAACTTCCA
* * *
9180872 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTCTGACCCT-GAAACTTC-TA-AAA
1 AAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTT-TGAACCTCG--ACTTCACAGAAA
* * *
9180934 ATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCTCGATTTCACTG
63 ATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCA-TTTTAACCCCGATTTCAC-C
* * *
9180990 AAAATTACCATTTTACCCCTGAA-CTTTCCAAAATTCCATTTTTAACCTCGATTTCACAGAAAAT
1 AAAATTACCATTTTACCCCCGAATCTTT-CAAAATTCCATTTTGAACCTCGACTTCACAGAAAAT
*
9181054 TACCATTTTACGCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACC
65 TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACC
*
9181106 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
9181127 GGTATCCAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
116 23 0.19
117 31 0.26
118 66 0.55
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTGAACCTCGACTTCACAGAAAATT
ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACC
Found at i:9181126 original size:29 final size:29
Alignment explanation
Indices: 9180931--9181126 Score: 131
Period size: 29 Copynumber: 6.7 Consensus size: 29
9180921 GAAACTTCTA
**
9180931 AAAATTACCATTTTACCCCCGAATCTT--TT
1 AAAATTACCATTTTACCCCCG-AT-TTCACC
* * *
9180960 AAAATT-CCATTTTTAACCTCGATTTCACTG
1 AAAATTACCA-TTTTACCCCCGATTTCAC-C
*
9180990 AAAATTACCATTTTACCCCTGAACTTT--CC
1 AAAATTACCATTTTACCCCCG-A-TTTCACC
* * *
9181019 AAAATT-CCATTTTTAACCTCGATTTCACAG
1 AAAATTACCA-TTTTACCCCCGATTTCAC-C
*
9181049 AAAATTACCATTTTACGCCCGAACTTT--CC
1 AAAATTACCATTTTACCCCCG-A-TTTCACC
*
9181078 AAAATT-CCATTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCCGATTTCACC
*
9181106 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
9181127 GGTATCCAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.02
27 6 0.05
28 29 0.22
29 48 0.37
30 30 0.23
31 8 0.06
32 6 0.05
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGATTTCACC
Found at i:9192791 original size:38 final size:38
Alignment explanation
Indices: 9192749--9193249 Score: 183
Period size: 38 Copynumber: 13.4 Consensus size: 38
9192739 CCTATCCTCT
*
9192749 TGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
* * * **
9192787 TGAAATTGAAGT-AAG-AGCA-A-C--GTCATCCTCT-
1 TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
* * *
9192818 TGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTC
1 TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
** * ** ** *
9192856 TGAAATTGAAGTAAGAG--CAAGATC-TTTCCCTATCCGC
1 TGAAATTGAAGTAA-AGTTGGATATCAAGTCTTTAT-CTC
* * *
9192893 TGGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTC
1 T-GAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
** * ** ** *
9192932 TGAAATTGAAGTAAGAG--CAAGATC-TTTCCCTATCCGC
1 TGAAATTGAAGTAA-AGTTGGATATCAAGTCTTTAT-CTC
* *
9192969 TGGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTC
1 T-GAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
* *** * *
9193008 CGAAATTGAAGTAAGAGCAAGAT-T-AATTC-CTATCCTC
1 TGAAATTGAAGTAA-AGTTGGATATCAAGTCTTTAT-CTC
*
9193045 TTGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
** * *** * *
9193084 TGAAATTGAAGTAAGAG--CAAGATCTTTTC-CTATCCTTT
1 TGAAATTGAAGTAA-AGTTGGATATCAAGTCTTTAT-C-TC
* * **
9193122 TGAAATTGAAGTAGAGTTGGATAGCGCGTCTTTATCT-
1 TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
9193159 TCGAAATTGAAGT-AA---GG--A-CAACGTCATTTCCTATCTGC
1 T-GAAATTGAAGTAAAGTTGGATATCAA-GTC--TT--TATCT-C
*
9193197 TTGAAATTGAAGTAAAGTTGGATATCGAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
9193236 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
9193250 GAGCAAGACC
Statistics
Matches: 326, Mismatches: 90, Indels: 94
0.64 0.18 0.18
Matches are distributed among these distances:
31 13 0.04
32 13 0.04
33 2 0.01
34 6 0.02
35 2 0.01
36 21 0.06
37 50 0.15
38 149 0.46
39 40 0.12
40 20 0.06
42 4 0.01
44 4 0.01
45 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
Found at i:9192945 original size:76 final size:75
Alignment explanation
Indices: 9192728--9193398 Score: 827
Period size: 76 Copynumber: 9.0 Consensus size: 75
9192718 CAGATCGCAC
* * *
9192728 CAAGATCAATTCCTATCCTCTTGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
9192793 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
9192804 C-A-A-C-GT-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTCTGAAATT
1 CAAGATCTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATT
9192863 GAAGTAAGAG
66 GAAGTAAGAG
* * * *
9192873 CAAGATCTTTCCCTATCCGCTGGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTCTGAAAT
1 CAAGATCTTT-CCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
9192938 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * *
9192949 CAAGATCTTTCCCTATCCGCTGGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTCCGAAAT
1 CAAGATCTTT-CCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
9193014 TGAAGTAAGAG
65 TGAAGTAAGAG
* *
9193025 CAAGAT-TAATTCCTATCCTCTTGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAA
1 CAAGATCT--TTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAA
9193089 TTGAAGTAAGAG
64 TTGAAGTAAGAG
* * **
9193101 CAAGATCTTTTCCTATCCTTTTGAAATTGAAGTAGAGTTGGATAGCGCGTCTTTATCT-TCGAAA
1 CAAGATC-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCT-GAAA
9193165 TTGAAGTAAG-G
64 TTGAAGTAAGAG
* *
9193176 ACAACG-TCATTTCCTAT-CTGCTTGAAATTGAAGTAAAGTTGGATATCGAGTCTTTATCTCTGA
1 -CAA-GATC-TTTCCTATCCT-CTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGA
9193239 AATTGAAGTAAGAG
62 AATTGAAGTAAGAG
* * * *
9193253 CAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGGTAGCACGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
9193318 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * *
9193329 C-A-A-C-GT-C-ATCCTCTTGAAATTGAAGAAGAGTTGGATATCAAGCCTTTGTCCCTCTGAAA
1 CAAGATCTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTAT--CTCTGAAA
9193388 TTGAAGTAAGA
64 TTGAAGTAAGA
9193399 ATAAGATAAA
Statistics
Matches: 531, Mismatches: 43, Indels: 47
0.86 0.07 0.08
Matches are distributed among these distances:
69 95 0.18
70 3 0.01
71 22 0.04
72 1 0.00
73 3 0.01
74 2 0.00
75 9 0.02
76 388 0.73
77 7 0.01
78 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (75 bp):
CAAGATCTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATT
GAAGTAAGAG
Found at i:9193316 original size:38 final size:37
Alignment explanation
Indices: 9192749--9193326 Score: 165
Period size: 38 Copynumber: 15.4 Consensus size: 37
9192739 CCTATCCTCT
* * *
9192749 TGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGT-AAGTTGGATAGCACGTCTTTATCTC
* **
9192787 TGAAATTGAAGTAA----G--AGCAACGTCATCCTCT-
1 TGAAATTGAAGTAAGTTGGATAGC-ACGTCTTTATCTC
* * * *
9192818 TGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTC
1 TGAAATTGAAGTA-AGTTGGATAGCACGTCTTTATCTC
* * * ** *
9192856 TGAAATTGAAGTAAG-AGCA-AG-ATCTTTCCCTATCCGC
1 TGAAATTGAAGTAAGTTGGATAGCA-C-GTCTTTAT-CTC
* * * *
9192893 TGGAAATTGAAGTAGAGTTGGATATCAAGCCGTTATCTC
1 T-GAAATTGAAGTA-AGTTGGATAGCACGTCTTTATCTC
* * * ** *
9192932 TGAAATTGAAGTAAG-AGCA-AG-ATCTTTCCCTATCCGC
1 TGAAATTGAAGTAAGTTGGATAGCA-C-GTCTTTAT-CTC
*
9192969 TGGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTC
1 T-GAAATTGAAGTA-AGTTGGATAGCACGTCTTTATCTC
* * * * *
9193008 CGAAATTGAAGTAAG-AGCA-AG-A-TTAATTCCTATCCTC
1 TGAAATTGAAGTAAGTTGGATAGCACGT-CTT--TAT-CTC
* * *
9193045 TTGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGT-AAGTTGGATAGCACGTCTTTATCTC
* * * *
9193084 TGAAATTGAAGTAAG-AGCA-AG-ATC-TTTTCCTATCCTTT
1 TGAAATTGAAGTAAGTTGGATAGCA-CGTCTT--TAT-C-TC
*
9193122 TGAAATTGAAGTAGAGTTGGATAGCGCGTCTTTATCT-
1 TGAAATTGAAGTA-AGTTGGATAGCACGTCTTTATCTC
*
9193159 TCGAAATTGAAGTAA---GGACA--ACGTCATTTCCTATCTGC
1 T-GAAATTGAAGTAAGTTGGATAGCACGTC--TT--TATCT-C
*
9193197 TTGAAATTGAAGTAAAGTTGGATATCGA-GTCTTTATCTC
1 -TGAAATTGAAGT-AAGTTGGATAGC-ACGTCTTTATCTC
* * * *
9193236 TGAAATTGAAGTAAG-AGCA-AG-ACCTTTTCCTATCCTC
1 TGAAATTGAAGTAAGTTGGATAGCACGTCTT--TAT-CTC
*
9193273 TTGAAATTGAAGTAGAGTTGGGTAGCACGTCTTTATCTC
1 -TGAAATTGAAGTA-AGTTGGATAGCACGTCTTTATCTC
9193312 TGAAATTGAAGTAAG
1 TGAAATTGAAGTAAG
9193327 AGCAACGTCA
Statistics
Matches: 389, Mismatches: 82, Indels: 139
0.64 0.13 0.23
Matches are distributed among these distances:
31 15 0.04
32 13 0.03
33 3 0.01
34 18 0.05
35 6 0.02
36 33 0.08
37 38 0.10
38 171 0.44
39 27 0.07
40 32 0.08
41 9 0.02
42 19 0.05
43 1 0.00
44 3 0.01
45 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (37 bp):
TGAAATTGAAGTAAGTTGGATAGCACGTCTTTATCTC
Found at i:9193749 original size:11 final size:11
Alignment explanation
Indices: 9193715--9193790 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
9193705 ATCCAATTGA
*
9193715 AAATTAAATTT
1 AAATTTAATTT
*
9193726 -ATTTTAATCTT
1 AAATTTAAT-TT
*
9193737 AAATTTATTTT
1 AAATTTAATTT
*
9193748 AAATTCAATTT
1 AAATTTAATTT
9193759 AAATTTAAATTT
1 AAATTT-AATTT
*
9193771 GAATTTAATTT
1 AAATTTAATTT
9193782 AAATTTAAT
1 AAATTTAAT
9193791 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 6 0.11
11 31 0.58
12 16 0.30
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:9193787 original size:17 final size:16
Alignment explanation
Indices: 9193715--9193806 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
9193705 ATCCAATTGA
*
9193715 AAATTAAATTT-ATTT
1 AAATTTAATTTAATTT
* *
9193730 TAATCTTAAATTTATTTT
1 AAAT-TT-AATTTAATTT
*
9193748 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
9193765 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
9193782 AAATTTAATATT-ATTAT
1 AAATTTAAT-TTAATT-T
9193799 AAATTTAA
1 AAATTTAA
9193807 AAAGAAAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 12 0.19
17 37 0.59
18 11 0.17
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:9193807 original size:6 final size:6
Alignment explanation
Indices: 9193718--9193789 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
9193708 CAATTGAAAA
* * *
9193718 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
9193763 TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
9193790 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 32 0.59
7 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:9194222 original size:18 final size:17
Alignment explanation
Indices: 9194181--9194216 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9194171 GTTCTCAGAA
*
9194181 TCTAAAAAAAACCCTGT
1 TCTAAAAAAAACCCTCT
9194198 TCTAAAAAAAACCCATCT
1 TCTAAAAAAAACCC-TCT
9194216 T
1 T
9194217 TGAAAAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (17 bp):
TCTAAAAAAAACCCTCT
Found at i:9195576 original size:162 final size:162
Alignment explanation
Indices: 9195398--9195736 Score: 554
Period size: 162 Copynumber: 2.1 Consensus size: 162
9195388 GCTTTTCAAT
* * * *
9195398 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGTTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGACCTTTGACTGTTTGACTGTACCAAAGGCTGCCACGTGTCATTTTTTGGATTATTTATACA
* * **
9195463 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTTATTTAATTATGA
66 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTCATTTAATTACAA
* * *
9195528 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTACAAA
9195560 TTAGACCTTTGACTGTTTGACTGTACCAAAGGCTGCCACGTGTCATTTTTTGGATTATTTATACA
1 TTAGACCTTTGACTGTTTGACTGTACCAAAGGCTGCCACGTGTCATTTTTTGGATTATTTATACA
9195625 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTCATTTAATTACAA
66 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTCATTTAATTACAA
*
9195690 AATTGGCCCAAGAATTTTTCAAGATTTACAAT
131 AATTGGCCCAAGAATTTTTCAAGATTTACAAA
9195722 TTA-ATCCTTTGACTG
1 TTAGA-CCTTTGACTG
9195737 CTGGATGCCT
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
161 1 0.01
162 163 0.99
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
TTAGACCTTTGACTGTTTGACTGTACCAAAGGCTGCCACGTGTCATTTTTTGGATTATTTATACA
TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTCATTTAATTACAA
AATTGGCCCAAGAATTTTTCAAGATTTACAAA
Found at i:9195915 original size:59 final size:58
Alignment explanation
Indices: 9195865--9196185 Score: 344
Period size: 59 Copynumber: 5.4 Consensus size: 58
9195855 CCGAAACTTC
* **
9195865 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTTTATTTTTAACCCCGATTTCA
1 CAAAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCA
* *
9195923 TCGAAAATTACCATTTTACCCTCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 -CAAAAATTACCATTTTACCCCCGAATCTTT-CAAAATTCCATTTTTAACCCCGATTTCA
* * ** * * * * *
9195982 CCAAAGATTACTATTTTACCCTTGAATCTTTTAAAATTCCATTTCTGACCCCAAAACTTC-
1 -CAAAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCC--GATTTCA
* * *
9196042 CAAAAATTACAATTTTACCCCCGAATCTTTGAAAATTCCATTTTTAACCTCGATTTCA
1 CAAAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCA
9196100 CTAAATTACCATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCA-TTTTAACCCCGATTTCA
1 C-AAA--A--ATTACCATTTTACCCCCGAATCTTT-CAAAATTCCATTTTTAACCCCGATTTCA
* *
9196162 CCAAAATTACCATTTTGCCCCCGA
1 CAAAAATTACCATTTTACCCCCGA
9196186 GTATCCAAAA
Statistics
Matches: 221, Mismatches: 30, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
57 22 0.10
58 5 0.02
59 134 0.61
60 4 0.02
61 7 0.03
62 21 0.10
63 28 0.13
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAATCTTTCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:9196184 original size:29 final size:28
Alignment explanation
Indices: 9195862--9196205 Score: 120
Period size: 29 Copynumber: 11.6 Consensus size: 28
9195852 ACCCCGAAAC
9195862 TTCCAAAAATTACCATTTTACCCCCGAATCT
1 TTCC-AAAATTACCATTTTACCCCCG-A-CT
* ** *
9195893 TT-TAAAATT-TTATTTTTAACCCCGA-T
1 TTCCAAAATTACCA-TTTTACCCCCGACT
*
9195919 TTCATCGAAAATTACCATTTTACCCTCGAACT
1 TTC--C-AAAATTACCATTTTACCCCCG-ACT
*
9195951 TTCCAAAATT-CCATTTTTAACCCCGA-T
1 TTCCAAAATTACCA-TTTTACCCCCGACT
* **
9195978 TTCACCAAAGATTACTATTTTACCCTTGAATCT
1 TT--CCAAA-ATTACCATTTTACCCCCG-A-CT
* **
9196011 TT-TAAAATT-CCATTTCTGACCCCAAAAC-
1 TTCCAAAATTACCATTT-T-ACCCC-CGACT
*
9196039 TTCCAAAAATTACAATTTTACCCCCGAATCT
1 TTCC-AAAATTACCATTTTACCCCCG-A-CT
* * *
9196070 TT-GAAAATT-CCATTTTTAACCTCGA-T
1 TTCCAAAATTACCA-TTTTACCCCCGACT
9196096 TTCACTAAATTACCATTACCATTTTACCCCCGAACT
1 TTC-C--AA--A--ATTACCATTTTACCCCCG-ACT
*
9196132 TTCCAAAATT-CCATTTTAACCCCGA-T
1 TTCCAAAATTACCATTTTACCCCCGACT
* *
9196158 TTCACCAAAATTACCATTTTGCCCCCGAGT
1 TT--CCAAAATTACCATTTTACCCCCGACT
* * *
9196188 ATCCAAAAGTCCCATTTT
1 TTCCAAAATTACCATTTT
9196206 TCACCCTGAT
Statistics
Matches: 235, Mismatches: 37, Indels: 85
0.66 0.10 0.24
Matches are distributed among these distances:
26 9 0.04
27 4 0.02
28 51 0.22
29 78 0.33
30 47 0.20
31 15 0.06
32 5 0.02
33 5 0.02
34 12 0.05
35 5 0.02
36 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (28 bp):
TTCCAAAATTACCATTTTACCCCCGACT
Found at i:9196193 original size:28 final size:27
Alignment explanation
Indices: 9196110--9196205 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 27
9196100 CTAAATTACC
9196110 ATTACCATTTTACCCCCGAACTTTCCAAA
1 ATTACCATTTTACCCCCG-A-TTTCCAAA
*
9196139 ATT-CCATTTTAACCCCGATTTCACCAAA
1 ATTACCATTTTACCCCCGATTT--CCAAA
* *
9196167 ATTACCATTTTGCCCCCGAGTATCCAAA
1 ATTACCATTTTACCCCCGA-TTTCCAAA
* *
9196195 AGTCCCATTTT
1 ATTACCATTTT
9196206 TCACCCTGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
26 3 0.05
27 1 0.02
28 35 0.61
29 16 0.28
30 2 0.04
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (27 bp):
ATTACCATTTTACCCCCGATTTCCAAA
Found at i:9198031 original size:12 final size:11
Alignment explanation
Indices: 9198014--9198057 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
9198004 TCCGCCATCG
9198014 CCACGTCAGCA
1 CCACGTCAGCA
*
9198025 TCCACGTTAGCA
1 -CCACGTCAGCA
* *
9198037 CCACGTCATCG
1 CCACGTCAGCA
9198048 CCACGTCAGC
1 CCACGTCAGC
9198058 CATGTGACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.23, C:0.43, G:0.18, T:0.16
Consensus pattern (11 bp):
CCACGTCAGCA
Found at i:9198506 original size:2 final size:2
Alignment explanation
Indices: 9198501--9198537 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9198491 ACACACACAC
9198501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9198538 CAAAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9208351 original size:28 final size:28
Alignment explanation
Indices: 9208244--9208412 Score: 83
Period size: 29 Copynumber: 5.9 Consensus size: 28
9208234 GAAACGATGA
* * * *
9208244 AATCGGGGGTGAAAACGGGACTTTTGGAT
1 AATCGGGGGT-AAAATGGTAATTTTGGAG
* * *
9208273 ACTCGGGGGCAAAATGGTAATTTTGGTG
1 AATCGGGGGTAAAATGGTAATTTTGGAG
* *
9208301 CAATCGGGGTTAAAAATAG-AATTTT-GAG
1 -AATCGGGGGT-AAAATGGTAATTTTGGAG
* *
9208329 AGTTCGGGGGTAAAATGGTAATTTTTGGTGG
1 A-ATCGGGGGTAAAATGGTAA-TTTTGG-AG
** * *
9208360 AATTAGGGTTAAAAATGG-AATTTTAGAAG
1 AATCGGGGGT-AAAATGGTAATTTT-GGAG
** *
9208389 GTTCAGGGGTAAAATGGTAATTTT
1 AATCGGGGGTAAAATGGTAATTTT
9208413 TGGAAGTTTC
Statistics
Matches: 104, Mismatches: 26, Indels: 20
0.69 0.17 0.13
Matches are distributed among these distances:
27 7 0.07
28 31 0.30
29 42 0.40
30 15 0.14
31 9 0.09
ACGTcount: A:0.31, C:0.06, G:0.32, T:0.31
Consensus pattern (28 bp):
AATCGGGGGTAAAATGGTAATTTTGGAG
Found at i:9208383 original size:58 final size:59
Alignment explanation
Indices: 9208275--9208415 Score: 198
Period size: 58 Copynumber: 2.4 Consensus size: 59
9208265 TTTTGGATAC
* *
9208275 TCGGGGGCAAAATGGTAA-TTTTGGTGCAATCGGGGTTAAAAATAGAATTTT-G-AGAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGCAATCAGGGTTAAAAATAGAATTTTAGAAG-GT
* * *
9208332 TCGGGGGTAAAATGGTAATTTTTGGTGGAATTAGGGTTAAAAATGGAATTTTAGAAGGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGCAATCAGGGTTAAAAATAGAATTTTAGAAGGT
*
9208391 TCAGGGGTAAAATGGTAATTTTTGG
1 TCGGGGGTAAAATGGTAATTTTTGG
9208416 AAGTTTCGAG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 17 0.23
58 29 0.39
59 27 0.36
60 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.32, T:0.33
Consensus pattern (59 bp):
TCGGGGGTAAAATGGTAATTTTTGGTGCAATCAGGGTTAAAAATAGAATTTTAGAAGGT
Found at i:9208923 original size:162 final size:160
Alignment explanation
Indices: 9208592--9208912 Score: 375
Period size: 162 Copynumber: 2.0 Consensus size: 160
9208582 GGCTAATTTC
** * *
9208592 GTAATTAAGTAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGTCAGGGATTAAATT
1 GTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATG
* ** * * *
9208657 CATAAATAAGCCAAAAAATGACACGTGGTAGCCTCTGGTGCAGTCAAACAGTCAAAGGACGAATT
66 CATAAATAAGCC--AAAAGGACAAATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGGACAAATT
* * * * **
9208722 TATGAACCTTAAAAAATGCTTGGGCCAATTTT
129 GATAAACCTTAAAAAATACTAGGGCCAAAATT
*
9208754 GTAATTAAACAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATG
1 GTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATG
*
9208819 CATAAATAAGCC-AAAGGACTAAAT-GCAGCCTCTAGTGCAGTCAAGCAGTCAAAGGACTAAATT
66 CATAAATAAGCCAAAAGGAC-AAATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGGAC-AAATT
*
9208882 GA-AAACCAATT-AAAATTAC-AGGG-CAAAATT
129 GATAAACC--TTAAAAAATACTAGGGCCAAAATT
9208912 G
1 G
9208913 CAAATAATTA
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
158 6 0.04
159 43 0.32
160 13 0.10
161 2 0.01
162 72 0.53
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.25
Consensus pattern (160 bp):
GTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATG
CATAAATAAGCCAAAAGGACAAATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGGACAAATTGA
TAAACCTTAAAAAATACTAGGGCCAAAATT
Found at i:9210445 original size:13 final size:14
Alignment explanation
Indices: 9210427--9210512 Score: 52
Period size: 17 Copynumber: 5.7 Consensus size: 14
9210417 GGACTTATTT
9210427 AATTT-AATTTATA
1 AATTTAAATTTATA
9210440 AATTTAAATTTATAATA
1 AATTTAAA-TT-T-ATA
*
9210457 AACTTAAATTTTATGTA
1 AATTTAAA-TTTA--TA
9210474 AATTTAAATTTAAAATA
1 AATTTAAATTT---ATA
9210491 AATTT-AATTTA-A
1 AATTTAAATTTATA
*
9210503 AAATTAAATT
1 AATTTAAATT
9210513 ATATCCCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
12 5 0.08
13 10 0.17
14 2 0.03
15 3 0.05
16 10 0.17
17 29 0.48
19 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
AATTTAAATTTATA
Found at i:9210449 original size:6 final size:6
Alignment explanation
Indices: 9210423--9210503 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
9210413 TTTTGGACTT
* * *
9210423 ATTT-A ATTTAA TTTATAA ATTTAA ATTTATA A--TAA ACTTAA ATTT-T
1 ATTTAA ATTTAA ATT-TAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA
* *
9210469 ATGTAA ATTTAA ATTTAA A-ATAA ATTT-A ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
9210504 AATTAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.03
5 18 0.31
6 32 0.54
7 7 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:9210463 original size:17 final size:17
Alignment explanation
Indices: 9210437--9210501 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
9210427 AATTTAATTT
9210437 ATAAATTTAAATTTATA
1 ATAAATTTAAATTTATA
*
9210454 ATAAACTTAAATTT-TA
1 ATAAATTTAAATTTATA
* *
9210470 TGTAAATTTAAATTTAAA
1 -ATAAATTTAAATTTATA
9210488 ATAAATTT-AATTTA
1 ATAAATTTAAATTTA
9210502 AAAATTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.20
17 32 0.78
18 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
ATAAATTTAAATTTATA
Found at i:9210505 original size:17 final size:18
Alignment explanation
Indices: 9210438--9210512 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 18
9210428 ATTTAATTTA
*
9210438 TAAATTTAAATTTATAA-
1 TAAATTTAAATTTAAAAT
* *
9210455 TAAACTTAAATTT--TAT
1 TAAATTTAAATTTAAAAT
9210471 GTAAATTTAAATTTAAAA-
1 -TAAATTTAAATTTAAAAT
9210489 TAAATTT-AATTTAAAAAT
1 TAAATTTAAATTT-AAAAT
9210507 TAAATT
1 TAAATT
9210513 ATATCCCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 1 0.02
16 5 0.10
17 35 0.73
18 6 0.12
19 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAT
Found at i:9210859 original size:37 final size:37
Alignment explanation
Indices: 9210780--9211249 Score: 161
Period size: 38 Copynumber: 12.4 Consensus size: 37
9210770 ATCTTGCTCT
* * *
9210780 TACTTCAATTTCAGAGATAAAGACTTGATCCCCAGCTT
1 TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
* * *
9210818 TACTTCAATTTCAAGCTAAAGACTTGTTATCCAACTC
1 TACTTCAATTTCAAGATAAAGACTTGATACCCAACTC
* * * * ***
9210855 TACTTCAATTTCAAGAGGATAGGCAGTGAT--CTTGCTC
1 TACTTCAATTTCAAGA-TAAAGAC-TTGATACCCAACTC
* * * *
9210892 TTACTTCAATTTCAGAGATAAAGACTTAATATCCAGCTT
1 -TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
* ** *** ***
9210931 TACTTCAATTTCAAGAGGATGGGAAACGAT--CTTGCTC
1 TACTTCAATTTCAAGA-TA-AAGACTTGATACCCAACTC
* * * * *
9210968 TTACTTCATTTTCAGAGATAAAGACTCGTTATCCAACTT
1 -TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
* * ** ***
9211007 TACTTCAATTTCAAGAGGAATGAGATGAT--CTTGCTC
1 TACTTCAATTTCAAGA-TAAAGACTTGATACCCAACTC
* *
9211043 TTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTC
1 -TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
* * * * ***
9211082 TACTTCAATTTCAAGAGGATATGGCATGAT--CTTGCTC
1 TACTTCAATTTCAAGA-TA-AAGACTTGATACCCAACTC
* *
9211119 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
1 -TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
** ***
9211158 TACTTCAATTTCAAGA-AAATGTGAAATGAT--CTTGCTC
1 TACTTCAATTTCAAGATAAA---GACTTGATACCCAACTC
* * *
9211195 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
1 -TACTTCAATTTCA-AGATAAAGACTTGATACCCAACTC
9211234 TACTTCAATTTCAAGA
1 TACTTCAATTTCAAGA
9211250 GGATGGGAAA
Statistics
Matches: 312, Mismatches: 89, Indels: 63
0.67 0.19 0.14
Matches are distributed among these distances:
36 6 0.02
37 105 0.34
38 149 0.48
39 49 0.16
40 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (37 bp):
TACTTCAATTTCAAGATAAAGACTTGATACCCAACTC
Found at i:9210937 original size:76 final size:76
Alignment explanation
Indices: 9210817--9211484 Score: 932
Period size: 76 Copynumber: 8.9 Consensus size: 76
9210807 ATCCCCAGCT
* * *
9210817 TTACTTCAATTTCA-AGCTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGCAG
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
9210881 TGATCTTGCTC
66 TGATCTTGCTC
** * * *
9210892 TTACTTCAATTTCAGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAGAGGATGGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
*
9210957 CGATCTTGCTC
66 TGATCTTGCTC
* * * * *
9210968 TTACTTCATTTTCAGAGATAAAGACTCGTTATCCAACTTTACTTCAATTTCAAGAGGA-ATGAGA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
9211032 TGATCTTGCTC
66 TGATCTTGCTC
* * *
9211043 TTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTCTACTTCAATTTCAAGAGGATATGG-C
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GGAA
9211107 ATGATCTTGCTC
65 ATGATCTTGCTC
**
9211119 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAAAAT-GTGAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG-GAA
9211183 ATGATCTTGCTC
65 ATGATCTTGCTC
* * * *
9211195 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
*
9211260 CGATCTTGCTC
66 TGATCTTGCTC
*
9211271 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGAT--G--A
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
9211332 TG---TTGCTC
66 TGATCTTGCTC
* * *
9211340 TTGCTTCAATTTCAGAGATAAAGACTCGTTATCC-ACTCTACTTCAATTTCAAGTGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
9211404 TGATCTTGCTC
66 TGATCTTGCTC
* * * *
9211415 TTACTTCAATTTCAGAGATAAAGGC--CTTATCCCACTCTACTTCAATTTCAAGTGGATAGGAAA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
9211478 TGATCTT
66 TGATCTT
9211485 TCTGCGGTCT
Statistics
Matches: 532, Mismatches: 47, Indels: 29
0.88 0.08 0.05
Matches are distributed among these distances:
68 22 0.04
69 38 0.07
70 1 0.00
72 5 0.01
73 6 0.01
74 39 0.07
75 110 0.21
76 309 0.58
77 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (76 bp):
TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
TGATCTTGCTC
Found at i:9211191 original size:227 final size:226
Alignment explanation
Indices: 9210817--9211484 Score: 957
Period size: 227 Copynumber: 3.0 Consensus size: 226
9210807 ATCCCCAGCT
*
9210817 TTACTTCAATTTCA-AGCTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GGCA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATATGGCA
** * *
9210880 GTGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAA
66 -TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA
* *
9210945 GAGGATGGGAAACGATCTTGCTCTTACTTCATTTTCAGAGATAAAGACTCGTTATCCAACTTTAC
130 GAGGAT-GGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTAC
*
9211010 TTCAATTTCAAGAGGAATGAGATGATCTTGCTC
194 TTCAATTTCAAGAGGAATGAAATGATCTTGCTC
* *
9211043 TTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTCTACTTCAATTTCAAGAGGATATGGCA
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATATGGCA
9211108 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
66 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
** * * *
9211173 AAAATGTGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
131 AGGATG-GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTACT
*
9211238 TCAATTTCAAGAGG-ATGGGAAACGATCTTGCTC
195 TCAATTTCAAGAGGAAT--GAAATGATCTTGCTC
*
9211271 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGG--AT-G-A
1 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATATGGCA
* *
9211332 TG---TTGCTCTTGCTTCAATTTCAGAGATAAAGACTCGTTATCC-ACTCTACTTCAATTTCAAG
66 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
* * * *
9211393 TGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGGC-C-TTATCCCACTCTACT
131 AGGAT-GGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTACT
* *
9211456 TCAATTTCAAGTGGATAGGAAATGATCTT
195 TCAATTTCAAGAGGA-ATGAAATGATCTT
9211485 TCTGCGGTCT
Statistics
Matches: 401, Mismatches: 33, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
218 34 0.08
220 61 0.15
221 39 0.10
224 3 0.01
225 1 0.00
226 19 0.05
227 173 0.43
228 71 0.18
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (226 bp):
TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATATGGCA
TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
AGGATGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTACTT
CAATTTCAAGAGGAATGAAATGATCTTGCTC
Found at i:9211426 original size:38 final size:37
Alignment explanation
Indices: 9211374--9211484 Score: 111
Period size: 36 Copynumber: 3.0 Consensus size: 37
9211364 CTCGTTATCC
9211374 ACTCTACTTCAATTTCAAGTGGATAGGAAATGATCTT
1 ACTCTACTTCAATTTCAAGTGGATAGGAAATGATCTT
* * ** * **
9211411 GCTCTTACTTCAATTTCAGAGAT--AAAGG-CCTTATCCC
1 ACTC-TACTTCAATTTCA-AG-TGGATAGGAAATGATCTT
9211448 ACTCTACTTCAATTTCAAGTGGATAGGAAATGATCTT
1 ACTCTACTTCAATTTCAAGTGGATAGGAAATGATCTT
9211485 TCTGCGGTCT
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
34 1 0.02
35 2 0.04
36 17 0.31
37 14 0.26
38 17 0.31
39 2 0.04
40 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (37 bp):
ACTCTACTTCAATTTCAAGTGGATAGGAAATGATCTT
Found at i:9215844 original size:221 final size:218
Alignment explanation
Indices: 9215461--9215902 Score: 803
Period size: 221 Copynumber: 2.0 Consensus size: 218
9215451 TATTGGGAGC
*
9215461 TTGTGAACCACGATGTCGGTGCTTAGCCCCGGCATGTCTTGGTAGGACCAGGCGAGGACGTCCTT
1 TTGTGAACCACGATGTCGGTGCTTAGCCCCGGCATGTCTTGGTAGGACCAGACGAGGACGTCCTT
* *
9215526 GAATTCTCTTAGCAGCTCAATATGGTCTCTTCGTGTTTTTGCTGAGATGCTGGTCCCAATTCTTA
66 GAATTCTCTTAGCAGCTCAATAAGGTCTCTTCGTGTTTTTGCTGAGATGCTAGTCCCAATTCTTA
9215591 CTTCTTTCTTCTCTTCCTCATCCTCTATGCTTACTGTTTCCACCACCTCTTTGTGGGGCAAGATT
131 CTTCTTTCTTCTCTTCCTCATCCTCTATGCTTACTGTTT---CCACCTCTTTGTGGGGCAAGATT
9215656 TGCTTTTCCTCCTGTTCCATCATTCG
193 TGCTTTTCCTCCTGTTCCATCATTCG
**
9215682 TTGTGAACCACGATGTCGGTGCTTAGCCTTGGCATGTCTTGGTAGGACCAGACGAGGACGTCCTT
1 TTGTGAACCACGATGTCGGTGCTTAGCCCCGGCATGTCTTGGTAGGACCAGACGAGGACGTCCTT
*
9215747 GAATTCTCTTAGCAGCTCAATAAGGTCTTTTCGTGTTTTTGCTGAGATGCTAGTCCCAATTCTTA
66 GAATTCTCTTAGCAGCTCAATAAGGTCTCTTCGTGTTTTTGCTGAGATGCTAGTCCCAATTCTTA
9215812 CTTCTTTCTTCTCTTCCTCATCCTCTATGCTTACTGTTTCCACCTCTTTGTGGGGCAAGATTTGC
131 CTTCTTTCTTCTCTTCCTCATCCTCTATGCTTACTGTTTCCACCTCTTTGTGGGGCAAGATTTGC
9215877 TTTTCCTCCTGTTCCATCATTCG
196 TTTTCCTCCTGTTCCATCATTCG
9215900 TTG
1 TTG
9215903 CAATTCAGGA
Statistics
Matches: 215, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
218 52 0.24
221 163 0.76
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.38
Consensus pattern (218 bp):
TTGTGAACCACGATGTCGGTGCTTAGCCCCGGCATGTCTTGGTAGGACCAGACGAGGACGTCCTT
GAATTCTCTTAGCAGCTCAATAAGGTCTCTTCGTGTTTTTGCTGAGATGCTAGTCCCAATTCTTA
CTTCTTTCTTCTCTTCCTCATCCTCTATGCTTACTGTTTCCACCTCTTTGTGGGGCAAGATTTGC
TTTTCCTCCTGTTCCATCATTCG
Found at i:9223879 original size:29 final size:29
Alignment explanation
Indices: 9223847--9223939 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
9223837 AAAAATAAAA
9223847 TTTTGAGAGTTCAGGGGTAAAATGGTAAT
1 TTTTGAGAGTTCAGGGGTAAAATGGTAAT
**
9223876 TTTTG-GTAAAATC-GGGGTTAAAAATGG-AAT
1 TTTTGAG--AGTTCAGGGG-T-AAAATGGTAAT
*
9223906 TTTAGA-AGGTTCAGGGGTAAAATGGTAAT
1 TTTTGAGA-GTTCAGGGGTAAAATGGTAAT
9223935 TTTTG
1 TTTTG
9223940 GTGAAATCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
28 9 0.18
29 19 0.38
30 15 0.30
31 7 0.14
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
TTTTGAGAGTTCAGGGGTAAAATGGTAAT
Found at i:9223907 original size:30 final size:31
Alignment explanation
Indices: 9223865--9223967 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 31
9223855 GTTCAGGGGT
9223865 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
* **
9223896 AAAATGG-AA-TTTTAG-AAGGTTCAGGGG-T-
1 AAAATGGTAATTTTTGGTAA-AATC-GGGGTTA
* *
9223924 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
9223955 AAAATGG-AATTTT
1 AAAATGGTAATTTT
9223968 AGAAGGTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
28 9 0.16
29 13 0.23
30 20 0.35
31 15 0.26
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (31 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTTA
Found at i:9223938 original size:59 final size:59
Alignment explanation
Indices: 9223808--9224288 Score: 634
Period size: 59 Copynumber: 8.3 Consensus size: 59
9223798 ACCTGAGGGC
* * * ** *
9223808 AAAATGGTAA-TTTTGGTGTAATTGGGGTTAAAAATAAAATTTT-G-AGAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAG-GTTCGGGGGT
* * *
9223865 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
***
9223924 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTTAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
* * * *
9223983 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTAAAATGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
* * * * * *
9224042 AAAATGGTAATTTGTGGTGAAACCG-GGTTAAAAAT-GAAATTTGGAATGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
* * *
9224099 AAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAAAAGGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
* * *
9224158 AAAATGGTAATTTTTTGTGAAATCGGGGTT-AAAATGGAACTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
*
9224216 AAAATGGTAATTTTTGATGAAATCGAGGTT-AAAATGGAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
*
9224274 AAAACGGTAATTTTT
1 AAAATGGTAATTTTT
9224289 AGAAGTTTTG
Statistics
Matches: 383, Mismatches: 36, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
57 53 0.14
58 141 0.37
59 187 0.49
60 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
Found at i:9224025 original size:30 final size:30
Alignment explanation
Indices: 9223865--9224026 Score: 100
Period size: 30 Copynumber: 5.4 Consensus size: 30
9223855 GTTCAGGGGT
* *
9223865 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
* ** ** *
9223896 AAAATGGAATTTTAGAAG-GTTC-AGGGGT-
1 AAAATGGAATTTTTGGTGAAATCGA-GGTTA
9223924 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
* ** ** ** *
9223955 AAAATGGAATTTTAGAAG-GTTTTAGGGT-
1 AAAATGGAATTTTTGGTGAAATCGAGGTTA
9223983 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
*
9224014 AAAATAGAATTTT
1 AAAATGGAATTTT
9224027 AAAATGTTTG
Statistics
Matches: 92, Mismatches: 31, Indels: 17
0.66 0.22 0.12
Matches are distributed among these distances:
28 14 0.15
29 26 0.28
30 31 0.34
31 21 0.23
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGTGAAATCGAGGTTA
Found at i:9224290 original size:30 final size:30
Alignment explanation
Indices: 9224130--9224315 Score: 135
Period size: 30 Copynumber: 6.4 Consensus size: 30
9224120 ACCGAGGTTA
* *
9224130 AAAATGG-AA-TTTTAAAAGGTTTGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGGT
* * *
9224158 AAAATGGTAATTTTTTGTGAA--ATCGGGGTT
1 AAAATGGTAA-TTTTT-AGAAGGTTCGGGGGT
*
9224188 AAAATGG-AA-CTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGGT
* * *
9224216 AAAATGGTAATTTTTGATGAA--ATCGAGGTT
1 AAAATGGTAATTTTT-A-GAAGGTTCGGGGGT
9224246 AAAATGG-AA-TTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGGT
* **
9224274 AAAACGGTAATTTTTAGAA-GTTTTGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGGT
9224303 CAAAAT-GTAATTT
1 -AAAATGGTAATTT
9224316 CTTGAAATTT
Statistics
Matches: 123, Mismatches: 20, Indels: 29
0.72 0.12 0.17
Matches are distributed among these distances:
26 6 0.05
27 4 0.03
28 37 0.30
29 25 0.20
30 41 0.33
31 5 0.04
32 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTAGAAGGTTCGGGGGT
Found at i:9224302 original size:116 final size:117
Alignment explanation
Indices: 9223808--9224288 Score: 623
Period size: 116 Copynumber: 4.1 Consensus size: 117
9223798 ACCTGAGGGC
* * * * * *
9223808 AAAATGGTAATTTTGGTGTAATTGGGGTTAAAAAT-AAAATTTTG-AGAGTTCAGGGGTAAAATG
1 AAAATGGTAATTTTTGTGAAATCGGGGTTAAAAATGGAAATTTAGAAG-GTTCGGGGGTAAAATG
* * * *
9223871 GTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCAGGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGGTTCGGGGGT
* * ***
9223924 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTTAGGGTAAAATG
1 AAAATGGTAATTTTT-GTGAAATCGGGGTTAAAAATGGAAATTTAGAAGGTTCGGGGGTAAAATG
* * *
9223989 GTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTAAAATGTTTGGGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGGTTCGGGGGT
* * * * *
9224042 AAAATGGTAATTTGTGGTGAAA-CCGGGTTAAAAAT-GAAATTTGGAATGTTTGGGGGTAAAATG
1 AAAATGGTAATTT-TTGTGAAATCGGGGTTAAAAATGGAAATTTAGAAGGTTCGGGGGTAAAATG
* *
9224105 GTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAAAAGGTTTGGGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGGTTCGGGGGT
*
9224158 AAAATGGTAATTTTTTGTGAAATCGGGGTT-AAAATGGAACTTTAGAAGGTTCGGGGGTAAAATG
1 AAAATGGTAA-TTTTTGTGAAATCGGGGTTAAAAATGGAAATTTAGAAGGTTCGGGGGTAAAATG
* *
9224222 GTAATTTTTGATGAAATCGAGGTT-AAAATGGAATTTTAGAAGGTTCGGGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGGTTCGGGGGT
*
9224274 AAAACGGTAATTTTT
1 AAAATGGTAATTTTT
9224289 AGAAGTTTTG
Statistics
Matches: 319, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
115 5 0.02
116 144 0.45
117 83 0.26
118 84 0.26
119 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTGTGAAATCGGGGTTAAAAATGGAAATTTAGAAGGTTCGGGGGTAAAATGG
TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGGTTCGGGGGT
Found at i:9224326 original size:29 final size:30
Alignment explanation
Indices: 9224280--9224346 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
9224270 GGGTAAAACG
*
9224280 GTAATTT-TTAGAAGTTTTGGGGTCAAAAT
1 GTAATTTCTTAGAAATTTTGGGGTCAAAAT
9224309 GTAATTTCTT-GAAATTTTGGGGTCAAAAT
1 GTAATTTCTTAGAAATTTTGGGGTCAAAAT
*
9224338 GCAATTTCT
1 GTAATTTCT
9224347 AAACTATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (30 bp):
GTAATTTCTTAGAAATTTTGGGGTCAAAAT
Found at i:9224661 original size:163 final size:162
Alignment explanation
Indices: 9224442--9224754 Score: 518
Period size: 163 Copynumber: 1.9 Consensus size: 162
9224432 AATCGTAAAT
* * * **
9224442 CTTGTAAAATTCTTGGGCTAATTTCGTAATTAAGTAAAAGTTGATTTAAAGATTAAATTAAAACA
1 CTTGAAAAATGCTTGGGCCAATTTCGTAATTAAACAAAAGTTGATTTAAAGATTAAATTAAAACA
* *
9224507 AATTAAAAATGTCAGGGATTAAATGCATAAATAAGCCCAAAAAATGACACGTGGCAGCCTCTGGT
66 AATTAAAAATGTCAGGGATTAAATGCATAAATAAG-CCAAAAAATGACACATGACAGCCTCTGGT
9224572 GCAGTCAAACAGTCAAAGGACGAATTTATGAAC
130 GCAGTCAAACAGTCAAAGGACGAATTTATGAAC
* **
9224605 CTTGAAAAATGCTTGGGCCAATTTTGTAATTAAACAAAAGTTGATTTAGGGATTAAATTAAAACA
1 CTTGAAAAATGCTTGGGCCAATTTCGTAATTAAACAAAAGTTGATTTAAAGATTAAATTAAAACA
9224670 AATTAAAAATGTCAGGGATTAAATGCATAAATAAGCCAAAAAATGACACATGACAGCCTCTGGTG
66 AATTAAAAATGTCAGGGATTAAATGCATAAATAAGCCAAAAAATGACACATGACAGCCTCTGGTG
*
9224735 CAGTCAAGCAGTCAAAGGAC
131 CAGTCAAACAGTCAAAGGAC
9224755 TAAATTGAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
162 47 0.34
163 92 0.66
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (162 bp):
CTTGAAAAATGCTTGGGCCAATTTCGTAATTAAACAAAAGTTGATTTAAAGATTAAATTAAAACA
AATTAAAAATGTCAGGGATTAAATGCATAAATAAGCCAAAAAATGACACATGACAGCCTCTGGTG
CAGTCAAACAGTCAAAGGACGAATTTATGAAC
Found at i:9225576 original size:3 final size:3
Alignment explanation
Indices: 9225570--9225604 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9225560 TTTAAACCAC
9225570 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9225605 ATGGCTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9226335 original size:13 final size:14
Alignment explanation
Indices: 9226317--9226402 Score: 52
Period size: 17 Copynumber: 5.7 Consensus size: 14
9226307 GGACTTATTT
9226317 AATTT-AATTTATA
1 AATTTAAATTTATA
9226330 AATTTAAATTTATAATA
1 AATTTAAA-TT-T-ATA
*
9226347 AACTTAAATTTTATGTA
1 AATTTAAA-TTTA--TA
9226364 AATTTAAATTTAAAATA
1 AATTTAAATTT---ATA
9226381 AATTT-AATTTA-A
1 AATTTAAATTTATA
*
9226393 AAATTAAATT
1 AATTTAAATT
9226403 ATATCCCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
12 5 0.08
13 10 0.17
14 2 0.03
15 3 0.05
16 10 0.17
17 29 0.48
19 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
AATTTAAATTTATA
Found at i:9226339 original size:6 final size:6
Alignment explanation
Indices: 9226313--9226393 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
9226303 TTTTGGACTT
* * *
9226313 ATTT-A ATTTAA TTTATAA ATTTAA ATTTATA A--TAA ACTTAA ATTT-T
1 ATTTAA ATTTAA ATT-TAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA
* *
9226359 ATGTAA ATTTAA ATTTAA A-ATAA ATTT-A ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
9226394 AATTAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.03
5 18 0.31
6 32 0.54
7 7 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:9226353 original size:17 final size:17
Alignment explanation
Indices: 9226327--9226391 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
9226317 AATTTAATTT
9226327 ATAAATTTAAATTTATA
1 ATAAATTTAAATTTATA
*
9226344 ATAAACTTAAATTT-TA
1 ATAAATTTAAATTTATA
* *
9226360 TGTAAATTTAAATTTAAA
1 -ATAAATTTAAATTTATA
9226378 ATAAATTT-AATTTA
1 ATAAATTTAAATTTA
9226392 AAAATTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.20
17 32 0.78
18 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
ATAAATTTAAATTTATA
Found at i:9226395 original size:17 final size:18
Alignment explanation
Indices: 9226328--9226402 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 18
9226318 ATTTAATTTA
*
9226328 TAAATTTAAATTTATAA-
1 TAAATTTAAATTTAAAAT
* *
9226345 TAAACTTAAATTT--TAT
1 TAAATTTAAATTTAAAAT
9226361 GTAAATTTAAATTTAAAA-
1 -TAAATTTAAATTTAAAAT
9226379 TAAATTT-AATTTAAAAAT
1 TAAATTTAAATTT-AAAAT
9226397 TAAATT
1 TAAATT
9226403 ATATCCCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 1 0.02
16 5 0.10
17 35 0.73
18 6 0.12
19 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAT
Found at i:9227589 original size:5 final size:5
Alignment explanation
Indices: 9227579--9227608 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9227569 CAACCCCTTC
9227579 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
9227609 GTTAGATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9227755 original size:2 final size:2
Alignment explanation
Indices: 9227748--9227817 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
9227738 ATACAATCCC
*
9227748 CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9227790 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9227818 ATATATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9227822 original size:2 final size:2
Alignment explanation
Indices: 9227817--9227855 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9227807 TCTCTCTCTC
9227817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9227856 TAAAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9228672 original size:19 final size:18
Alignment explanation
Indices: 9228635--9228682 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
9228625 ATGTTTGAAT
**
9228635 TAAAAAATATTAATTATA
1 TAAAAAATATTAAAAATA
9228653 TAAAAAATATTAAAAAATA
1 TAAAAAATATT-AAAAATA
*
9228672 TATAAAATATT
1 TAAAAAATATT
9228683 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATATTAAAAATA
Found at i:9234613 original size:23 final size:24
Alignment explanation
Indices: 9234561--9234613 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
9234551 AGGGATGTTG
* *
9234561 AAATT-AAATTGTAATTTTTACGA
1 AAATTAAAAATGTAATTTTTACAA
*
9234584 TAA-TAAAAATGTAATTTTTA-AA
1 AAATTAAAAATGTAATTTTTACAA
9234606 AAATTAAA
1 AAATTAAA
9234614 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATTAAAAATGTAATTTTTACAA
Found at i:9235334 original size:6 final size:7
Alignment explanation
Indices: 9235318--9235344 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9235308 GCTTTTAGAT
9235318 AAAATTA
1 AAAATTA
9235325 AAAATTA
1 AAAATTA
9235332 AAAATTA
1 AAAATTA
9235339 AAAATT
1 AAAATT
9235345 TCAACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTA
Found at i:9237435 original size:39 final size:36
Alignment explanation
Indices: 9237329--9237437 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 36
9237319 TAAACTGATA
* *
9237329 ATGACACTGTAAACACCGCAATACTATACTGACCGGC
1 ATGACACTGTAAACACCG-TATACTATACTGACCGAC
* * * **
9237366 AGTGACACTGTAAACACTGTAAAATAATACTGATTTGAC
1 A-TGACACTGTAAACACCGTATACT-ATACTGA-CCGAC
9237405 GATGACACTGTAAACACCGTAGTACTATACTGA
1 -ATGACACTGTAAACACCGTA-TACTATACTGA
9237438 GTAGGTAGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
37 4 0.07
38 23 0.40
39 27 0.47
40 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (36 bp):
ATGACACTGTAAACACCGTATACTATACTGACCGAC
Found at i:9240086 original size:21 final size:21
Alignment explanation
Indices: 9240036--9240094 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
9240026 TAACCGTGTA
*
9240036 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGAGAC
*
9240057 AGTTCTACCGATACAAGAGAC
1 ACTTCTACCGATACAAGAGAC
* * *
9240078 TCTTTTACCGAAACAAG
1 ACTTCTACCGATACAAG
9240095 TCATACATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (21 bp):
ACTTCTACCGATACAAGAGAC
Found at i:9240121 original size:113 final size:111
Alignment explanation
Indices: 9239919--9240166 Score: 388
Period size: 113 Copynumber: 2.2 Consensus size: 111
9239909 TCAAGAAATA
**
9239919 GTGTAGACTTCTACCGATACAAGTGACAATTCTATTGATACAAGACTCTTCTACCGAAACAAGTC
1 GTGTA-ACTTCTACCGATACAAGTGACAATTCTACCGATACAAGACTCTTCTACCGAAACAAGTC
*
9239984 ATACATCTACCGATACTAAAAACTCCAAAGAGCTAAGAAGTTTAACC
65 ATACATCTACCAATACTAAAAACTCCAAAGAGCTAAGAAGTTTAACC
* *
9240031 GTGTAACTTCTACCGATACAAGTGACAGTTCTACCGATACAAGAGACTCTTTTACCGAAACAAGT
1 GTGTAACTTCTACCGATACAAGTGACAATTCTACCGATAC-A-AGACTCTTCTACCGAAACAAGT
* *
9240096 CATACATCTACTAATACTAAAAACTCCAGAGAGCTAAGAAGTTTAACC
64 CATACATCTACCAATACTAAAAACTCCAAAGAGCTAAGAAGTTTAACC
* *
9240144 CTGTAACTTTTACCGATACAAGT
1 GTGTAACTTCTACCGATACAAGT
9240167 ACCCTAACTA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
111 32 0.26
112 6 0.05
113 87 0.70
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (111 bp):
GTGTAACTTCTACCGATACAAGTGACAATTCTACCGATACAAGACTCTTCTACCGAAACAAGTCA
TACATCTACCAATACTAAAAACTCCAAAGAGCTAAGAAGTTTAACC
Found at i:9244568 original size:10 final size:10
Alignment explanation
Indices: 9244553--9244581 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
9244543 AAAAACTTGG
9244553 TTTTATTTTT
1 TTTTATTTTT
9244563 TTTTA-TTTT
1 TTTTATTTTT
9244572 TTTTATTTTT
1 TTTTATTTTT
9244582 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:9244625 original size:19 final size:19
Alignment explanation
Indices: 9244603--9244647 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9244593 TTATATTAGG
9244603 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
9244622 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
9244641 ATTTAAT
1 ATTTAAT
9244648 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:9246856 original size:21 final size:21
Alignment explanation
Indices: 9246831--9246880 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
9246821 GAATTTCAGC
*
9246831 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
9246852 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
9246873 AGAAAACT
1 AGCAAACT
9246881 GAGGCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:9246881 original size:21 final size:21
Alignment explanation
Indices: 9246842--9246881 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9246832 GCAATCTATA
*
9246842 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
9246863 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
9246882 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Done.