Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 187 of 199
Found at i:54441024 original size:3 final size:3
Alignment explanation
Indices: 54441016--54441042 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
54441006 CTTCGAGGCT
54441016 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
54441043 GAACCCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:54449150 original size:20 final size:20
Alignment explanation
Indices: 54449127--54449165 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
54449117 TCAAAGATTT
54449127 ACACAGCTTGACTACACGAA
1 ACACAGCTTGACTACACGAA
54449147 ACACAGCTTGACTACACGA
1 ACACAGCTTGACTACACGA
54449166 CCATGTGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (20 bp):
ACACAGCTTGACTACACGAA
Found at i:54451348 original size:37 final size:37
Alignment explanation
Indices: 54451298--54451372 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
54451288 CACCAAAAGA
54451298 GGATTATCGGTTAAATTTTCGAAAATGAACTAATTGC
1 GGATTATCGGTTAAATTTTCGAAAATGAACTAATTGC
54451335 GGATTATCGGTTAAATTTTCGAAAATGAACTAATTGC
1 GGATTATCGGTTAAATTTTCGAAAATGAACTAATTGC
54451372 G
1 G
54451373 TGTCACCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (37 bp):
GGATTATCGGTTAAATTTTCGAAAATGAACTAATTGC
Found at i:54458387 original size:20 final size:18
Alignment explanation
Indices: 54458358--54458399 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
54458348 AGAAGATTAG
*
54458358 GAAAAGAAAGCTAAAAGAAA
1 GAAAAAAAAGC-AAAA-AAA
54458378 GAAAAAAAAGCAAAAAAA
1 GAAAAAAAAGCAAAAAAA
54458396 GAAA
1 GAAA
54458400 CGATCGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 4 0.19
20 10 0.48
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (18 bp):
GAAAAAAAAGCAAAAAAA
Found at i:54461343 original size:20 final size:21
Alignment explanation
Indices: 54461297--54461344 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
54461287 AAACATACCT
*
54461297 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
54461318 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
54461338 AACCCAA
1 AACCCAA
54461345 CCTAAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.10
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:54462381 original size:3 final size:3
Alignment explanation
Indices: 54462322--54462399 Score: 61
Period size: 3 Copynumber: 25.7 Consensus size: 3
54462312 TTTAGCATTT
* * * * *
54462322 TTA TTA TT- TTA TTCA TTA TTT TTA ATA TT- TTA TCA TCTT TTA TCA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
54462367 TTA TTG TTA TTA TTA GTTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
54462400 TCTTCATCTA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.81
4 7 0.12
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:54462386 original size:16 final size:16
Alignment explanation
Indices: 54462367--54462397 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54462357 TCTTTTATCA
*
54462367 TTATTGTTATTATTAG
1 TTATTATTATTATTAG
54462383 TTATTATTATTATTA
1 TTATTATTATTATTA
54462398 TTTCTTCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATTATTATTATTAG
Found at i:54463084 original size:110 final size:110
Alignment explanation
Indices: 54462888--54463207 Score: 412
Period size: 110 Copynumber: 2.9 Consensus size: 110
54462878 TTCAAAAAAC
* * *
54462888 AAAAATTTTTCAAATAAGGCAATG-TTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
54462952 AGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
54462997 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
54463062 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
* ** * ** * ** * * *
54463107 TAAAAATTTCGAAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACGTACCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
54463172 GGGTTTCGA--TTTCTCATTTAACCAAATAGCCAAATA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATA
54463208 TCCTCTCAAA
Statistics
Matches: 187, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
108 24 0.13
109 22 0.12
110 141 0.75
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (110 bp):
AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
Found at i:54466581 original size:6 final size:6
Alignment explanation
Indices: 54466572--54466624 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
54466562 AGAAAAAGAA
* *
54466572 AAAATC AAAATC AAAGTC AAAATG AAAATC AAAAATC AAAAATC AAAAT-
1 AAAATC AAAATC AAAATC AAAATC AAAATC -AAAATC -AAAATC AAAATC
54466621 AAAA
1 AAAA
54466625 AAAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 4 0.10
6 25 0.60
7 13 0.31
ACGTcount: A:0.70, C:0.11, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:54467633 original size:7 final size:7
Alignment explanation
Indices: 54467616--54467666 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
54467606 TTTGAGTAAA
54467616 AAAAATG
1 AAAAATG
54467623 -AAAATG
1 AAAAATG
54467629 AAAAATG
1 AAAAATG
54467636 -AAAATG
1 AAAAATG
54467642 AAAAATG
1 AAAAATG
*
54467649 AAAAATA
1 AAAAATG
54467656 AAAAATG
1 AAAAATG
54467663 AAAA
1 AAAA
54467667 GTAAAATGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 12 0.30
7 28 0.70
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:54467672 original size:13 final size:13
Alignment explanation
Indices: 54467616--54467666 Score: 84
Period size: 13 Copynumber: 3.8 Consensus size: 13
54467606 TTTGAGTAAA
54467616 AAAAATGAAAATG
1 AAAAATGAAAATG
54467629 AAAAATGAAAATG
1 AAAAATGAAAATG
*
54467642 AAAAATGAAAAATA
1 AAAAATG-AAAATG
54467656 AAAAATGAAAA
1 AAAAATGAAAA
54467667 GTAAAATGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:54469076 original size:87 final size:87
Alignment explanation
Indices: 54468955--54470970 Score: 394
Period size: 87 Copynumber: 22.9 Consensus size: 87
54468945 TGAAGCCAGA
* * *
54468955 GATCTTATCTCCCTG-AGATTACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTA
* *
54469019 CAGTGAAGCAGATTAAAATAAAG
65 CAGTGGAGCAGATTAAAATACAG
* * * * * * * *
54469042 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCA-GGTCTTATCTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTAC
* ** *
54469105 AGTGGAGTAGACCGAAGAATTTCA-
66 AGTGGAGCAGA-TTAA-AA-TACAG
* * * * * * *
54469129 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCT-CCTTAAGATT
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA-CGATCCTATCTCCCTGAAG-TT
* * ** * *
54469193 ACAGCGGAGTAGA-TCGAAGACAC
64 ACAGTGGAGCAGATTAAAATACAG
* * * * * ** * * * *
54469216 TATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGA-TCGAAGACACGATCCT-ATCTCCCTGAAGTT
** * ***
54469280 ACAGCAGAGTAGA-TCGCAT-CAG
64 ACAGTGGAGCAGATTAAAATACAG
* * * * * * * *
54469302 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AAATTTCAGGTCTTATCTCCCTGATG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA---C-GATCCTATCTCCCTGAAG
** *
54469365 TTACAGTGGAGCAGATT-AAAGCCCG
62 TTACAGTGGAGCAGATTAAAATACAG
*
54469390 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
1 -GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTT
*
54469454 ACAGTGGAGC-GTATTAAAATAAAG
64 ACAGTGGAGCAG-ATTAAAATACAG
* ** * * * * *
54469478 GATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCA-TCA-GGTCTTATCTCCCT-AAGGTTA
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAA-GTTA
* * ** *
54469540 CAGTAGAGTAGACCGAAGAATTTCA-
65 CAGTGGAGCAGA-TTAA-AA-TACAG
* * * * * * * *
54469565 GATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAAGTTT
1 GATCTTATCTCCC-TGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTA
* * * *
54469629 TAGTAGAGTAGATCACATCAGATTGA-AG
65 CAGTGGAGCAGATTA-A--A-A-T-ACAG
* * * * ** * * * * *
54469657 CCGATAATCCTATCTTCCTGAAGTTATAGTGGAGTGGAT-TAAAATCAAGGATCTTATCTCTCTG
1 --G---ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGA-C-ACGATCCTATCTCCCTG
* ** ** ***
54469721 AAGTTAGAGCAGAATAGA-TCGCAT-CAG
59 AAGTTACAGTGGAGCAGATTAAAATACAG
* * * * * * * *
54469748 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AAATTTTAGATCTTATCTCCCTGAGG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA----CGATCCTATCTCCCTGAAG
* * **
54469811 TTACAGTGGAGTAGATT-GAAGCCAG
62 TTACAGTGGAGCAGATTAAAATACAG
* * * *
54469836 AGATCTTATTTCCCTG-AGATTACAGCGGAGCAGATTGAAGATA-GTAATTCTATCTCCCTG-AG
1 -GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACACG--ATCCTATCTCCCTGAAG
** * ** * *
54469898 ATTACAACGAAGCAGA-TCGAAGACAC
62 -TTACAGTGGAGCAGATTAAAATACAG
* * * * * ** * * * * *
54469924 TATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGA-TCGAAGACACGATCCTATCTCCCTGAAGTTA
** * ***
54469989 CAGCAGAGTAGA-TCGCAT-CAG
65 CAGTGGAGCAGATTAAAATACAG
* * * * * *
54470010 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA---C-GATCCTATCTCCCTGAAG
* * **
54470073 TTACAGTGGGGCAGATT-GAAGCCAG
62 TTACAGTGGAGCAGATTAAAATACAG
* * *
54470098 AGATCTTATCTCCCT-AAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTT
1 -GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTT
* *
54470162 ACAGTGGAGCGGATTAAAATAAAG
64 ACAGTGGAGCAGATTAAAATACAG
* * * * * ** * * *
54470186 GATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TTA-GGTCTTATCTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTAC
* ** *
54470249 AGTGGAGTAGACCGAAAAATTTCA-
66 AGTGGAGCAGA--TTAAAA-TACAG
* * * * * *
54470273 GATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAG-CCCGAGATCTTATCTCCTTG-AGAT
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAC--GATCCTATCTCCCTGAAG-T
* ** * *
54470336 TACAGCGGAGCAGA-TCGAAGACAC
63 TACAGTGGAGCAGATTAAAATACAG
* * * * ** * * * * *
54470360 TATCCTATTTCCCTGAAGTTACAGTGGAGC-GTATTAAAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAG-A-TCGAAGACACGATCCTATCTCCCTGAAGTT
*** * ***
54470424 ACAGCAAAGTAGA-TCGCAT-CAG
64 ACAGTGGAGCAGATTAAAATACAG
* * * *
54470446 G-TCTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATC-CCCTTGA
1 GATCTTATCTCCCTGAA-GTTACAGCGGAGCAGATCGAAGACA---C-GATCCTATCTCCC-TGA
* * ** *
54470507 GGTTACAGTGGAGCAGATT-GAAGCCAA
60 AGTTACAGTGGAGCAGATTAAAATACAG
* * * * * *
54470534 GATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCACATCAGATTGA-AGCCGATAATCCTACCT
1 GATCTTATCTCCCTGAAGTTACAG-CG-G-AG--CAGATC-GA-AGACA--CG---ATCCTATCT
* * **
54470598 TCCTGAAGTTATAGTGGAGTGGATTAAAAT-CAAG
54 CCCTGAAGTTACAGTGGAGCAGATTAAAATAC-AG
* * * * * * * * *
54470632 GATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCA-TCA-GGTCTTATCTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTAC
* ** *
54470695 AGTGGAGTAGACCGAAGAATTTCA-
66 AGTGGAGCAGA-TTAA-AA-TACAG
* * * * * * * *
54470719 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGGTTA
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA-CGATCCTATCTCCCTGAAGTTA
* *
54470784 CAGCGGAGCAGATTGAAGAT--AG
65 CAGTGGAGCAGATT-AAAATACAG
* * * * ** * * * * *
54470806 TAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
1 -GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGA-TCGAAGACACGATCCTATCTCCCTGAAGT
** * ***
54470870 TACAGCAGAGTAGA-TCGCAT-CAG
63 TACAGTGGAGCAGATTAAAATACAG
* * * * *
54470893 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAAG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA---C-GATCCTATCTCCCTGAAG
*
54470956 TTGCAGTGGAGCAGA
62 TTACAGTGGAGCAGA
54470971 CGAAAAATAC
Statistics
Matches: 1415, Mismatches: 378, Indels: 272
0.69 0.18 0.13
Matches are distributed among these distances:
83 7 0.00
84 15 0.01
85 228 0.16
86 37 0.03
87 582 0.41
88 157 0.11
89 65 0.05
90 177 0.13
91 13 0.01
92 4 0.00
93 5 0.00
94 5 0.00
95 5 0.00
96 6 0.00
97 50 0.04
98 59 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACACGATCCTATCTCCCTGAAGTTAC
AGTGGAGCAGATTAAAATACAG
Found at i:54469150 original size:131 final size:131
Alignment explanation
Indices: 54469003--54470796 Score: 706
Period size: 131 Copynumber: 13.6 Consensus size: 131
54468993 GACACTATCC
* * * ** * *
54469003 TATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
*
54469068 GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
66 GAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
54469133 T
131 T
* *
54469134 TATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCT-CCTTAAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAG-GATCTTATCTCCCTGAAG-TTACAG
* ** * * * ** ** **
54469197 CGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAA
64 CGGAGTAGATCGAA-TCA-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
54469259 GGATCT
127 -GATCT
* * * ** * * * * *
54469265 CATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
* * * ** ***
54469327 GAGTAGACCGAAAAATTTCAGGTCTTATCTCCCTGATGTTACAGTGGAGCAGA--TTA-AAGCCC
66 GAGTAGATCG---AA--TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
54469389 GAGATCT
126 -AGATCT
* * * ** ** * *
54469396 TATCTCCCTGAGATTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
* ** * * * *** * *
54469460 GAGCGTA-TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATC---GCA--TCA
66 GA--GTAGATCGAAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
*
54469519 GGTCT
127 GATCT
* * * ** * *
54469524 TATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTCA-GATCTTATC-CCCTTGAGGTTAC
1 TATCTCCCTGAGGTTACAGTGGAGCAGA--TTAGAA-TCCAGGATCTTATCTCCC-TGAAGTTAC
* * * * * * * ** *
54469587 AGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAAGTTTTAGTAGAGTAGATCAC-ATCAG-
62 AGCGGAGTAGATCGAA-TC-AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGA-C-CGA--AGA
* * *
54469650 ATTGAAGCCGATAATCC
121 ATT----TC-A-GATCT
* * * ** * * * * *
54469667 TATCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTAGAGCA
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
* * * *
54469732 GAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTTAGATC
66 GAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
54469797 T
131 T
* * *
54469798 TATCTCCCTGAGGTTACAGTGGAGTAGATT-GAAGCCAGAGATCTTATTTCCCTG-AGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAG-GATCTTATCTCCCTGAAG-TTACAG
* * * * ** * * *
54469861 CGGAGCAGATTGAAGAT-A-GTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAG-A--
64 CGGAGTAGATCG-A-ATCAGGT--CT-TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
* *
54469921 -CACTATCC
124 TCA-GATCT
* * * * ** * *
54469929 TATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
*
54469994 GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
66 GAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
54470059 T
131 T
* *
54470060 TATCTCCCTGAGGTTACAGTGGGGCAGATT-GAAGCCAGAGATCTTATCTCCCT-AAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAG-GATCTTATCTCCCTGAAG-TTACAG
* ** * * * ** ** **
54470123 CGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAA
64 CGGAGTAGATCGAA-TCA-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
54470185 GGATCT
127 -GATCT
* * * ** * * * * * *
54470191 CATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-TAGG-TCTTATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
* * * * ** **
54470253 GAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAG---CCC
66 GAGTAGATCG---AA--TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
54470315 GAGATCT
126 -AGATCT
* * * * ** ** * * *
54470322 TATCTCCTTGAGATTACAGCGGAGCAGA-TCGAAGACACTATCCTATTTCCCTGAAGTTACAGTG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
* ** * * * *** * *
54470386 GAGCGTA-TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATC---GCA--TCA
66 GA--GTAGATCGAAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
*
54470445 GGTCT
127 GATCT
* * ** * *
54470450 TATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCTTATC-CCCTTGAGGTTAC
1 TATCTCCCTGAGGTTACAGTGGAGCAGA--TTAGAA-TCCAGGATCTTATCTCCC-TGAAGTTAC
* * * * * * * * *
54470513 AGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCAC-ATCAG-
62 AGCGGAGTAGATCGAA-TC-AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGA-C-CGA--AGA
* * *
54470576 ATTGAAGCCGATAATCC
121 ATT----TC-A-GATCT
* * * * ** * * * * *
54470593 TACCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCA
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
*
54470658 GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
66 GAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
54470723 T
131 T
* * *
54470724 TATCTCCCTGAGGTTACAGTGGAGTAGATT-GAAGCCAGAGATCTTATCTCCCTGAGGTTACAGC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAG-GATCTTATCTCCCTGAAGTTACAGC
*
54470788 GGAGCAGAT
65 GGAGTAGAT
54470797 TGAAGATAGT
Statistics
Matches: 1223, Mismatches: 327, Indels: 226
0.69 0.18 0.13
Matches are distributed among these distances:
128 137 0.11
129 21 0.02
130 117 0.10
131 577 0.47
132 37 0.03
133 104 0.09
134 27 0.02
135 8 0.01
136 5 0.00
137 8 0.01
138 4 0.00
139 57 0.05
140 6 0.00
141 61 0.05
142 6 0.00
143 48 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (131 bp):
TATCTCCCTGAGGTTACAGTGGAGCAGATTAGAATCCAGGATCTTATCTCCCTGAAGTTACAGCG
GAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
T
Found at i:54469283 original size:218 final size:218
Alignment explanation
Indices: 54468905--54469896 Score: 1450
Period size: 218 Copynumber: 4.5 Consensus size: 218
54468895 ATCAGTGAAT
* * * *
54468905 ATTTCAGATCTTATCTCACTGAGGTCACAGTGGAGTAAATTGAAGCCAGAGATCTTATCTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* * * *
54468970 AGATTACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAA
66 AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
54469035 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*
54469100 GTTACAGTGGAGTAGACCGAAGA
196 GTTACAGTGGAGTAGACCGAAAA
* *
54469123 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTA
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* *
54469188 AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAA
66 AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
*
54469253 AATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
54469318 GTTACAGTGGAGTAGACCGAAAA
196 GTTACAGTGGAGTAGACCGAAAA
* * * *
54469341 ATTTCAGGTCTTATCTCCCTGATGTTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
*
54469406 AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAA
66 AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
* *
54469471 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
* *
54469536 GTTACAGTAGAGTAGACCGAAGA
196 GTTACAGTGGAGTAGACCGAAAA
*
54469559 ATTTCAGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-AGATCTTATCTCTCT
1 ATTTCAGATCTTATCTCCC-TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCT
* * * * * * * *
54469622 GAAGTTTTAGTAGAGTAGATCACATCAGATTGA-AGCCGATAATCCTATCTTCCTGAAGTTATAG
65 G-AG-ATTA-CAGCG--GAGCAGATC-GA-AGACA--C--T-ATCCTATCTCCCTGAAGTTACAG
* * * *
54469686 TGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTAGAGCAGAATAGATCGCATCAGGTC
118 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTC
54469751 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAA
183 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAA
* * *
54469787 ATTTTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATTTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* * * *
54469852 AGATTACAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGA
66 AGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA
54469897 GATTACAACG
Statistics
Matches: 694, Mismatches: 64, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
217 18 0.03
218 450 0.65
219 18 0.03
220 3 0.00
222 9 0.01
223 6 0.01
224 8 0.01
225 1 0.00
226 3 0.00
227 4 0.01
228 157 0.23
229 17 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
GTTACAGTGGAGTAGACCGAAAA
Found at i:54469859 original size:44 final size:44
Alignment explanation
Indices: 54469792--54470974 Score: 302
Period size: 44 Copynumber: 26.9 Consensus size: 44
54469782 GAAAAATTTT
* * * * *
54469792 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * *
54469836 AGATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* *
54469880 TA-AT-TCTATCTCCCTGAGATTACAACGAAGCAGATCGAAGACA-
1 -AGATCT-TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * * *
54469923 CTATCCTATCTCCCTGA-AGTTACAGTGAAGCGGAT-TAAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * *
54469966 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * *
54470010 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * * *
54470054 AGATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* *
54470098 AGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * * *
54470141 CTATCCTATCTCCTTGA-AGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * **
54470184 AGGATCTCATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TTAG
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
54470228 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AAATTTC
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * *
54470272 AGATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCCG
1 AGATCTTATCTCCCTGA-GATTACAGCGGAGCAGATCGAAGACAG
*
54470316 AGATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * *
54470359 CTATCCTATTTCCCTGA-AGTTACAGTGGAGC-GTAT-TAAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAG-ATCGAAGACAG
* ** * * *
54470402 AGGATCTTATCTCTCTGA-AGTTACAGCAAAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
54470446 -G-TCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * *
54470490 AGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-
1 AGATCTTATCTCCC-TGAGATTACAGCGGAGCAGATCGAAGACAG
* * * * * *
54470533 AGATCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCACATCAGATTGAAGCCG
1 AGATCTTATCTCCCTGAGA-TTACAG-CG-G-AG--CAGATC-GA-AG-A-CAG
* * * * * * ** * *
54470586 ATAATCCTACCTTCCTGA-AGTTATAGTGGAGTGGAT-TAAAATCA-
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGA-CAG
* * * * * *
54470630 AGGATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * *
54470674 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * * *
54470718 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * *
54470762 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * * * * * *
54470806 TA-ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAAATAA
1 -AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * * * *
54470849 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * *
54470893 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* *
54470937 AGATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGA-CGAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAA
54470975 AAATACCAAT
Statistics
Matches: 837, Mismatches: 221, Indels: 161
0.69 0.18 0.13
Matches are distributed among these distances:
41 145 0.17
42 23 0.03
43 105 0.13
44 345 0.41
45 23 0.03
46 157 0.19
47 5 0.01
48 4 0.00
49 4 0.00
50 1 0.00
51 2 0.00
52 2 0.00
53 2 0.00
54 19 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
Found at i:54469971 original size:262 final size:262
Alignment explanation
Indices: 54469663--54470138 Score: 817
Period size: 262 Copynumber: 1.8 Consensus size: 262
54469653 GAAGCCGATA
* * * * * *
54469663 ATCCTATCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTAG
1 ATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
*
54469728 AGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTTA
66 AGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA
* * *
54469793 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATTTCCCTGAGATTA
131 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA
*
54469858 CAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAGACA
196 CAGCGGAGCAGATCGAAGATAGTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAGACA
54469923 CT
261 CT
54469925 ATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* *
54469990 AGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
66 AGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA
*
54470055 GATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA
131 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA
*
54470120 CAGCGGAGTAGATCGAAGA
196 CAGCGGAGCAGATCGAAGA
54470139 CACTATCCTA
Statistics
Matches: 199, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
262 199 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (262 bp):
ATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
AGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA
CAGCGGAGCAGATCGAAGATAGTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAGACA
CT
Found at i:54470110 original size:218 final size:218
Alignment explanation
Indices: 54469795--54470970 Score: 1715
Period size: 218 Copynumber: 5.4 Consensus size: 218
54469785 AAATTTTAGA
** * * * *
54469795 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCA---GAGATCTTATTTCCCTGAGATT
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGGTT
* ** * *
54469857 ACAGCGGAGCAGATTGAAGATAGTA-AT-TCTATCTCCCTGAGATTACAACGAAGCAGATCGAAG
65 ACAGTGGAGCAGATTGAAGCCAG-AGATCT-TATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
*
54469920 ACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
128 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
54469985 GTTACAGCAGAGTAGATCGCATCAGG
193 GTTACAGCAGAGTAGATCGCATCAGG
54470011 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
* * *
54470076 CAGTGGGGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
* *
54470141 CTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTT
131 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
*
54470206 ACAGCAGAGTAGATCGCATTAGG
196 ACAGCAGAGTAGATCGCATCAGG
* *
54470229 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
* *
54470294 CAGTGGAGCAGATTGAAGCCCGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
* *
54470359 CTATCCTATTTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTT
131 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
*
54470424 ACAGCAAAGTAGATCGCATCAGG
196 ACAGCAGAGTAGATCGCATCAGG
*
54470447 TCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATC-CCCTTGAGGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCC-TGAGGTT
* * * *
54470511 ACAGTGGAGCAGATTGAAGCCA-AGATCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCACATC
65 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA-TTACAG-CG-G-AG--CAGATC
* * * * * *
54470574 AGATTGA-AGCCGATAATCCTACCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTT
124 -GA-AGACA--C--T-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTT
*
54470638 ATCTCTCTAAAGTTACAGCAGAGTAGATCGCATCAGG
182 ATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
54470675 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
* * * *
54470740 CAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
*
54470805 GTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
131 CT-ATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
54470869 TTACAGCAGAGTAGATCGCATCAGG
194 TTACAGCAGAGTAGATCGCATCAGG
* *
54470894 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
54470959 CAGTGGAGCAGA
66 CAGTGGAGCAGA
54470971 CGAAAAATAC
Statistics
Matches: 867, Mismatches: 69, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
215 1 0.00
216 36 0.04
217 24 0.03
218 443 0.51
219 155 0.18
220 2 0.00
222 7 0.01
223 6 0.01
224 6 0.01
225 1 0.00
226 2 0.00
227 2 0.00
228 158 0.18
229 24 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (218 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ACAGCAGAGTAGATCGCATCAGG
Found at i:54470655 original size:708 final size:705
Alignment explanation
Indices: 54469080--54470549 Score: 2112
Period size: 708 Copynumber: 2.1 Consensus size: 705
54469070 GTAGATCGCA
* * ** * *
54469080 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTG
* * * * * * * * *
54469144 AGGTTACAGTGGAGCAGATTGAAGCCAGAG--ATCTTATCTCCTTAAGATTACAGCGGAGTAGAT
63 AGATTACAGAGGAGCAGATTGAAG--AGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGAT
* * * * * *
54469207 CGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCT
126 CGAAAACACGATCCTATCTCCCTAAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCT
54469272 CTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
191 CTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
* * * * *
54469337 AAAAATTTCAGGTCTTATCTCCCTGATGTTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTC
256 AAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTC
*
54469402 CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTA
321 CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGA
*
54469467 TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCC
386 TTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCC
*
54469532 TAAGGTTACAGTAGAGTAGACCGAAGAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAG
451 TAAGGTTACAGTAGAGTAGACCGAAAAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAG
* * * *
54469597 ATTGAAGCCAAGATCTTATCTCTCTGAAGTTTTAGTAGAGTAGATCACATCAGATTGAAGCCGAT
516 ATTGAAGCCAAGATCTTATCTCTCTGAAGTATTAGCAGAG-AGAGCACATCAGATAGAA-CC-AT
* * *
54469662 AATCCTATCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTA
578 AATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
* *
54469727 GAGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATT
643 CAGCAGAATAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
* * *
54469790 TTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATTTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
* * * * *
54469855 TTACAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAG
66 TTACAGAGGAGCAGATTGAAGAGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGATCGAAA
* *
54469920 ACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
131 ACACGATCCTATCTCCCTAAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
54469985 GTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
196 GTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
* *
54470050 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCCAGAGATCTTATCTCCCTAA
261 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* *
54470115 GATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAA
326 GATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
* * *
54470180 ATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGG
391 ATAAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGG
* *
54470245 TTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCC-TGATGTTACAGTGGAGCAGATTG
456 TTACAGTAGAGTAGACCGAAAAATTTCAGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTG
* * *
54470309 AAGCCCGAGATCTTATCTC-CTTG-AG-ATTA-CAGCG-GAGCAGATC-GA-AG-A-CACT-ATC
520 AAG-CCAAGATCTTATCTCTC-TGAAGTATTAGCAGAGAGAGCACATCAGATAGAACCA-TAATC
*
54470364 CTAT-TTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
582 CTATCTT-CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
*
54470428 CA-AAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATT
646 CAGAA-TAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
*
54470488 TCAGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-AGATCTTATCTCTCTGA
1 TCAGATCTTATCTCCC-TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
54470550 AGTTATAGTA
Statistics
Matches: 695, Mismatches: 55, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
697 22 0.03
698 154 0.22
699 2 0.00
701 1 0.00
702 1 0.00
703 2 0.00
704 7 0.01
706 6 0.01
707 3 0.00
708 439 0.63
709 19 0.03
710 38 0.05
711 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (705 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
TTACAGAGGAGCAGATTGAAGAGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGATCGAAA
ACACGATCCTATCTCCCTAAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
GATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
ATAAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGG
TTACAGTAGAGTAGACCGAAAAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGA
AGCCAAGATCTTATCTCTCTGAAGTATTAGCAGAGAGAGCACATCAGATAGAACCATAATCCTAT
CTTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAA
TAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
Found at i:54470701 original size:926 final size:926
Alignment explanation
Indices: 54468910--54470829 Score: 3570
Period size: 926 Copynumber: 2.1 Consensus size: 926
54468900 TGAATATTTC
* * * * * * ** ** *
54468910 AGATCTTATCTCACTGAGGTCACAGTGGAGTAAATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
54468975 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAA
66 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAA
54469040 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
131 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
54469105 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
196 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
*
54469170 AGAGATCTTATCTCCTTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
261 AGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
54469235 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
326 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
*
54469300 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGGTCTTATCTCCCTGATG
391 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
54469365 TTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
456 TTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
54469430 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
521 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
54469495 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAA
586 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAA
54469560 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
651 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
* *
54469625 GTTTTAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTATCTTCCTGAAGTTATAGTGGA
716 GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
* *
54469690 GTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTAGAGCAGAATAGATCGCATCAGGTCTTAT
781 GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTAT
*
54469755 CTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTTAGATCTTATCTCCCTGAGGTTACAGTGG
846 CTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
54469820 AGTAGATTGAAGCCAG
911 AGTAGATTGAAGCCAG
* *
54469836 AGATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
*
54469901 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAA
66 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAA
54469966 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
131 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
*
54470031 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCC
196 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
54470096 AGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
261 AGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
*
54470161 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATT
326 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
54470226 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
391 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
* *
54470291 TTACAGTGGAGCAGATTGAAGCCCGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAG
456 TTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
*
54470356 ACACTATCCTATTTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
521 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
*
54470421 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAA
586 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAA
54470486 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
651 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
54470551 GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
716 GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
*
54470616 GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCATCAGGTCTTAT
781 GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTAT
*
54470681 CTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
846 CTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
54470746 AGTAGATTGAAGCCAG
911 AGTAGATTGAAGCCAG
*
54470762 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
54470827 ACA
66 ACA
54470830 GTGGAGCGGA
Statistics
Matches: 962, Mismatches: 32, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
926 962 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (926 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
AGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
TTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAA
TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTAT
CTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
AGTAGATTGAAGCCAG
Found at i:54470768 original size:708 final size:702
Alignment explanation
Indices: 54469080--54470836 Score: 1975
Period size: 708 Copynumber: 2.5 Consensus size: 702
54469070 GTAGATCGCA
* * ** * *
54469080 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTG
* * * * * * * * *
54469144 AGGTTACAGTGGAGCAGATTGAAGCCAGAG--ATCTTATCTCCTTAAGATTACAGCGGAGTAGAT
63 AGATTACAGAGGAGCAGATTGAAG--AGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGAT
* * * * * * * * *
54469207 CGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCT
126 CGAAAACACGATCCTATCTCCCTAAAGTTACAGAGAAGCAGATTAAAATAAAGGATCTTATCTCC
* *
54469272 CTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
191 CTGAAGTTACAGCAGAGTAGACCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
** * * * * *
54469337 AAAAATTTCAGGTCTTATCTCCCTGATGTTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTC
256 AAGCA---GAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTC
*
54469402 CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTA
318 CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGA
*
54469467 TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCC
383 TTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCC
*
54469532 TAAGGTTACAGTAGAGTAGACCGAAGAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAG
448 TAAGGTTACAGTAGAGTAGACCGAAAAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAG
* * * *
54469597 ATTGAAGCCAAGATCTTATCTCTCTGAAGTTTTAGTAGAGTAGATCACATCAGATTGAAGCCGAT
513 ATTGAAGCCAAGATCTTATCTCTCTGAAGTATTAGCAGAG-AGAGCACATCAGATAGAA-CC-AT
* * *
54469662 AATCCTATCTTCCTGAAGTTATAGTGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTA
575 AATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
* *
54469727 GAGCAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATT
640 CAGCAGAATAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
* * *
54469790 TTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATTTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
* * * * *
54469855 TTACAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGAGATTACAACGAAGCAGATCGAAG
66 TTACAGAGGAGCAGATTGAAGAGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGATCGAAA
* * * * *
54469920 ACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
131 ACACGATCCTATCTCCCTAAAGTTACAGAGAAGCAGATTAAAATAAAGGATCTTATCTCCCTGAA
* * *
54469985 GTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
196 GTTACAGCAGAGTAGACCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGCA
* * *
54470050 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCCAGAGATCTTATCTCCCTAA
261 ---GAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* *
54470115 GATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAA
323 GATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
* * *
54470180 ATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATTAGGTCTTATCTCCCTGAGG
388 ATAAAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGG
* *
54470245 TTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCC-TGATGTTACAGTGGAGCAGATTG
453 TTACAGTAGAGTAGACCGAAAAATTTCAGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTG
* * *
54470309 AAGCCCGAGATCTTATCTC-CTTG-AG-ATTA-CAGCG-GAGCAGATC-GA-AG-A-CACT-ATC
517 AAG-CCAAGATCTTATCTCTC-TGAAGTATTAGCAGAGAGAGCACATCAGATAGAACCA-TAATC
*
54470364 CTAT-TTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
579 CTATCTT-CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
*
54470428 CA-AAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATT
643 CAGAA-TAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
*
54470488 TCAGATCTTATC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-AGATCTTATCTCTCTGA-
1 TCAGATCTTATCTCCC-TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAG
* * * * **
54470550 AGTTATAGTAGAGTAGATCACATCAGATTGAAGCCGA-TAATCCTACCTTCCTGA-AGTTATAGT
65 A-TTACAG-AG-G-AG-------CAGATTGAAG-AGAGTAATCCTACCTCCCTGAGA-TTACAAC
* ** * * * * * *** *
54470613 GGAGTGGAT-TAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAG-AGTAGA-TCGCAT-CAG
117 GAAGCAGATCGAAAA-C-ACGATCCTATCTCCCTAAAGTTACAG-AGAAGCAGATTAAAATAAAG
* ** *
54470674 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
179 GATCTTATCTCCCTGAAGTTACAGCAGAGTAGACC---GAA--TCAGGTCTTATCTCCCTGAGGT
** * *
54470738 TACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGA
239 TACAGTGGAGTAGACCGAAG-CAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
* * *
54470803 TAGTA-ATCCTATCTCCCTGAGATTACAGTGGAGC
303 CAG-AGATCTTATCTCCCTGAGATTACAGCGGAGC
54470837 GGATTAAAAT
Statistics
Matches: 913, Mismatches: 101, Indels: 68
0.84 0.09 0.06
Matches are distributed among these distances:
696 1 0.00
697 27 0.03
698 155 0.17
699 3 0.00
700 2 0.00
701 1 0.00
702 1 0.00
703 2 0.00
704 7 0.01
705 28 0.03
706 13 0.01
707 41 0.04
708 532 0.58
709 21 0.02
710 77 0.08
711 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (702 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
TTACAGAGGAGCAGATTGAAGAGAGTAATCCTACCTCCCTGAGATTACAACGAAGCAGATCGAAA
ACACGATCCTATCTCCCTAAAGTTACAGAGAAGCAGATTAAAATAAAGGATCTTATCTCCCTGAA
GTTACAGCAGAGTAGACCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGCA
GAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
TACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
AAGGATCTCATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTA
CAGTAGAGTAGACCGAAAAATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGC
CAAGATCTTATCTCTCTGAAGTATTAGCAGAGAGAGCACATCAGATAGAACCATAATCCTATCTT
CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAATAG
ATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATT
Found at i:54471152 original size:174 final size:174
Alignment explanation
Indices: 54470927--54471358 Score: 783
Period size: 174 Copynumber: 2.5 Consensus size: 174
54470917 GGAGTAGACC
54470927 GAAGAATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCT
1 GAAG-ATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCT
* *
54470992 CTCTGAAGTTGCAGTGGAGTGGATGAAAACGATGAATCATATACCTCTGAAGTTACAGTAGGTCA
65 CCCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTGAAGTTACAGTAGGTCA
54471057 AATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
130 AATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
*
54471102 GAAGATTTTAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
1 GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
* *
54471167 CCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGA
66 CCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTGAAGTTACAGTAGGTCAA
54471232 ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
131 ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
* *
54471276 GAAGATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAAATACCAATTGTGTCTC
1 GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
*
54471341 CCTGAAGTTGGAGTGGAG
66 CCTGAAGTTGCAGTGGAG
54471359 AAGACGAAAA
Statistics
Matches: 248, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
174 244 0.98
175 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (174 bp):
GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
CCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTGAAGTTACAGTAGGTCAA
ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
Found at i:54471175 original size:44 final size:44
Alignment explanation
Indices: 54471117--54471789 Score: 220
Period size: 44 Copynumber: 15.6 Consensus size: 44
54471107 TTTTAGATCT
54471117 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
* ** * ** *
54471161 TGTCTCCCTGAAGTTGCAGTGGAGTGGATGAAAACA-ATGAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAA-ATACCAATCG
* * ** * * *
54471205 TATAC-CTCTGAAGTTGCAGT--AG--GTCGAATTGGAT-CAAACCT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGACGAA--AAATACCAATCG
* * ** * ** *
54471246 TATCTCCCTGAAGTCGTAGTGGAGCAGGTTG-AAGATTTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-GACGAAAAATACCA-ATCG
* *
54471291 TATCTCCCTGAAGTTACAGTGGAGCAGACGAAAAATACCAATTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
* * *
54471335 TGTCTCCCTGAAGTTGGAGTGGAGAAGACGAAAAATACCAATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
* * * ** * ** ** *
54471379 TGTCTCCCTGAAGTTGCAATAGAGTGGATGAAAACGATGAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
* * ** * * *
54471423 TATAC-CTCTGAAGTTGCAGT--AG--GTCGAATTGGAT-CAAAACT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGACGAA--AAATACCAATCG
* * * * ** * * *
54471464 TATCTCCCTAAAATCGTAGTGGAGCAGGTTG-AAGATACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-GACGAAAAATACCAATCG
* * ** * *
54471508 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATA--GATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAA--ATACCAATCG
* * * *
54471552 TATCTCTCTGAAGTTGCAGTAGAGCAGATC---ACAT-CCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAAATACCAATCG
*
54471593 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATA--AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACG-AA-AAATACCAATCG
* * ** *
54471637 TATCTCCCTTAAGTTACAGTGGAGCAGA-TTAAAAT-CACAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATAC-CAATCG
* * * * * * *
54471680 TATCTCTCTGAAGTTACAGTAGAGTAGATCG---CAT--CAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAAATACCA-ATCG
* ** * *
54471721 TATCTCCCTGAGGTTATAGTGGAGCAGACGAAAGAA-ATCAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAA-AATACCAATCG
54471765 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
54471790 GGATTAAAAC
Statistics
Matches: 465, Mismatches: 116, Indels: 96
0.69 0.17 0.14
Matches are distributed among these distances:
40 17 0.04
41 95 0.20
42 8 0.02
43 40 0.09
44 254 0.55
45 42 0.09
46 9 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCG
Found at i:54471301 original size:926 final size:923
Alignment explanation
Indices: 54468910--54471315 Score: 2897
Period size: 926 Copynumber: 2.6 Consensus size: 923
54468900 TGAATATTTC
* * * * * * ** ** *
54468910 AGATCTTATCTCACTGAGGTCACAGTGGAGTAAATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
** * * *
54468975 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAAATAA
66 ACAACGAAGCAGATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGAGAAGCAGATTAAAATAA
* * * * *
54469040 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
131 AGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGACCGAATCAGATCTTATCTCCCTGAAGTTAC
* * ** * * *
54469105 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
196 AGTGGAGCAGACCGAAAAATACCAGATCGTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACC
* * * * * *
54469170 AGAGATCTTATCTCCTTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
261 AGAGATCATATCTCCCTAAGATTACAGCAGAGTAAATCG-AGACAC-AACCTATCTCCCTGAAGT
* * * *
54469235 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCG-CAT
324 CACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCCCTGAAGTTACAGCAGAGCAGATCGAAAT
** * * * * * *
54469299 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGGTCTTATCTCCCTGAT
389 -AAATCGTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAAAATATCAGATCATATCTCCCTGAA
* * * * *
54469364 GTTACAGTGGAGCAGATTAAAGCCCGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA
453 GTTACAGTGGAGCAGATT-GAGACCGAAACCTTATCTCCCTGAGAGTACAGCGGAGCAGATCGAA
*
54469429 GACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGA
517 GACACGATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGA
54469494 AGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGA
582 AGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGA
54469559 ATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGA
647 ATTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGA
* *
54469624 AGTTTTAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTATCTTCCTGAAGTTATAGTGG
712 AGTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGG
* *
54469689 AGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTAGAGCAGAATAGATCGCATCAGGTCTTA
777 AGTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTA
*
54469754 TCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTTAGATCTTATCTCCCTGAGGTTACAGTG
842 TCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
54469819 GAGTAGATTGAAGCCAG
907 GAGTAGATTGAAGCCAG
* *
54469836 AGATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATTCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
** * * * *
54469901 ACAACGAAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAA
66 ACAACGAAGCAGATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGAGAAGCAGATTAAAATAA
* * * * *
54469966 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
131 AGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGACCGAATCAGATCTTATCTCCCTGAAGTTAC
* * ** * * * *
54470031 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGGGCAGATTGAAGCC
196 AGTGGAGCAGACCGAAAAATACCAGATCGTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACC
* * * * *
54470096 AGAGATCTTATCTCCCTAAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGT
261 AGAGATCATATCTCCCTAAGATTACAGCAGAGTAAATCG-AGACAC-AACCTATCTCCCTGAAGT
* * * * *
54470161 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATT
324 CACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCCCTGAAGTTACAGCAGAGCAGATCGAAAT
** * * * * *
54470226 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
389 AAATCGTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAAAATATCAGATCATATCTCCCTGAAG
* * * * *
54470291 TTACAGTGGAGCAGATTGAAGCCCGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAG
454 TTACAGTGGAGCAGATTG-AGACCGAAACCTTATCTCCCTGAGAGTACAGCGGAGCAGATCGAAG
* *
54470356 ACACTATCCTATTTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
518 ACACGATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAA
*
54470421 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAA
583 GTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAA
54470486 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
648 TTTCAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAA
54470551 GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
713 GTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGA
*
54470616 GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCATCAGGTCTTAT
778 GTGGATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTAT
*
54470681 CTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
843 CTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGG
54470746 AGTAGATTGAAGCCAG
908 AGTAGATTGAAGCCAG
*
54470762 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
** * * * * * * * ***
54470827 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG-AGTAGA-TCGCAT
66 ACAACGAAGCAGA-TAAAAGAAACGATCCTATCTCCCTGAAGTTACAG-AGAAGCAGATTAAAAT
* * **
54470890 -CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTG
129 AAAGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGACC---GAA--TCAGATCTTATCTCCCTG
* * * * **
54470953 AAGTTGCAGTGGAGCAGA-CGAAAAATACCA-ATCGTGTCTCTCTGAAGTTGCAGTGGAGTGGA-
189 AAGTTACAGTGGAGCAGACCGAAAAATACCAGATCGTATCTCCCTGAAGTTACAGTGGAGCAGAT
* * * *
54471015 TGAAAAC-GATGAATCATATAC-CTCTGAAG-TTACAGTAG-GTCAAATTG-GATCA-AACCTTA
254 TGAAACCAGA-G-ATCATAT-CTCCCT-AAGATTACAGCAGAGT-AAATCGAGA-CACAACC-TA
** * ** * * *
54471074 TCTCCCTGAAGTCGTAGTGGAGCAGG-TTGAAGATTTTA-GATCTTATCTCCCTGAAGTTGCAGT
312 TCTCCCTGAAGTCACAGTGGAGC-GGATT-AA-AATAAAGGATCTCATCTCCCTGAAGTTACAGC
* * * * *
54471137 GGAGCAGA-CGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAGTGGAGTGGA-TGAAAACA-AT
374 AGAGCAGATCG--AAATA--AATCGTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAAA-ATAT
* * * * *
54471199 GA-ATCATATAC-CTCTGAAGTTGCAGTAGG-TC-GAATTG-GATC-AAACCTTATCTCCCTGA-
434 CAGATCATAT-CTCCCTGAAGTTACAGT-GGAGCAG-ATTGAGACCGAAACCTTATCTCCCTGAG
* * * *
54471257 AGT-CGTAGTGGAGCAGGTTGAAGATTTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGC
496 AGTAC--AGCGGAGCAGATCGAAGA---CACGATCCTATCTCCCTGAAGTTACAGTGGAGC
54471316 AGACGAAAAA
Statistics
Matches: 1324, Mismatches: 124, Indels: 64
0.88 0.08 0.04
Matches are distributed among these distances:
922 1 0.00
923 2 0.00
924 60 0.05
925 34 0.03
926 1036 0.78
927 108 0.08
928 24 0.02
929 59 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (923 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATT
ACAACGAAGCAGATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGAGAAGCAGATTAAAATAA
AGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGACCGAATCAGATCTTATCTCCCTGAAGTTAC
AGTGGAGCAGACCGAAAAATACCAGATCGTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACC
AGAGATCATATCTCCCTAAGATTACAGCAGAGTAAATCGAGACACAACCTATCTCCCTGAAGTCA
CAGTGGAGCGGATTAAAATAAAGGATCTCATCTCCCTGAAGTTACAGCAGAGCAGATCGAAATAA
ATCGTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAAAATATCAGATCATATCTCCCTGAAGTT
ACAGTGGAGCAGATTGAGACCGAAACCTTATCTCCCTGAGAGTACAGCGGAGCAGATCGAAGACA
CGATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTT
CAGATCTTATCCCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAAGTT
ATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTACCTTCCTGAAGTTATAGTGGAGTG
GATTAAAATCAAGGATCTTATCTCTCTAAAGTTACAGCAGAATAGATCGCATCAGGTCTTATCTC
CCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGT
AGATTGAAGCCAG
Found at i:54471343 original size:218 final size:217
Alignment explanation
Indices: 54471119--54471532 Score: 729
Period size: 218 Copynumber: 1.9 Consensus size: 217
54471109 TTAGATCTTA
* * *
54471119 TCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
*
54471184 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAACCTTAT
66 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
* * * *
54471249 CTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTCAGATCTTATCTCCCTGAAGTTACAGTGGA
131 CTCCCTAAAATCGTAGTGGAGCAGGTTGAAGA-TACAAATCTTATCTCCCTGAAGTTACAGTGGA
54471314 GCAGACGAAAAATACCAATTGTG
195 GCAGACGAAAAATACCAATTGTG
*
54471337 TCTCCCTGAAGTTGGAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
1 TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
*
54471402 GTGGATGAAAACGATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
66 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
54471467 CTCCCTAAAATCGTAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACAGTGGAG
131 CTCCCTAAAATCGTAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACAGTGGAG
54471532 C
196 C
54471533 GGATTAAAAC
Statistics
Matches: 186, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
217 32 0.17
218 154 0.83
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (217 bp):
TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
CTCCCTAAAATCGTAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACAGTGGAG
CAGACGAAAAATACCAATTGTG
Found at i:54471595 original size:129 final size:129
Alignment explanation
Indices: 54471462--54471877 Score: 482
Period size: 129 Copynumber: 3.2 Consensus size: 129
54471452 TGGATCAAAA
* * ** * *
54471462 CTTATCTCCCTAAAATCGTAGTGGAGCAGGTTG-AAGATACAAATCTTATCTCCCTGAAGTTACA
1 CTTATCTCCCTAAAATTGCAGTGGAGCA-GACGAAAGAAACAAATCATATCTCCCTGAAGTTACA
* * * *
54471526 GTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAAT
65 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAAT
* * * * *
54471591 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATAAATCCTATCTCCCTTAAGTTACAG
1 CTTATCTCCCTAAAATTGCAGTGGAGCAGACGAAAGAAACAAATCATATCTCCCTGAAGTTACAG
* * *
54471656 TGGAGCAGATTAAAATCACA-ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT-CAGGT
66 TGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCA-AT
* ** ** *
54471719 CTTATCTCCCTGAGGTTATAGTGGAGCAGACGAAAGAAATC-AATCATATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAATTGCAGTGGAGCAGACGAAAGAAA-CAAATCATATCTCCCTGAAGTTACA
* * * * *
54471783 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGTAACAAAT
65 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAAT
* *
54471848 CTTATCTCCCTGAAGA-TGCAGTAGAGCAGA
1 CTTATCTCCCT-AAAATTGCAGTGGAGCAGA
54471878 TTGAAGACCG
Statistics
Matches: 244, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
127 2 0.01
128 113 0.46
129 126 0.52
130 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (129 bp):
CTTATCTCCCTAAAATTGCAGTGGAGCAGACGAAAGAAACAAATCATATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAAT
Found at i:54471742 original size:128 final size:128
Alignment explanation
Indices: 54471502--54471877 Score: 520
Period size: 128 Copynumber: 2.9 Consensus size: 128
54471492 TTGAAGATAC
* *
54471502 AAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
1 AAATCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * *
54471567 GCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAAT
66 ACAGTAGAGTAGATCGCAT-CAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAAT
* * * *
54471631 AAATCCTATCTCCCTTAAGTTACAGTGGAGCAGATTAAAATCACA-ATCTTATCTCTCTGAAGTT
1 AAATCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
54471695 ACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTATAGTGGAGCAGACGAAAGAAAT
66 ACAGTAGAGTAGATCGCATCA-ATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAAT
* * * *
54471759 CAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAATT
1 AAATCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * * *
54471824 ACAGTAGAGTAGATCGTAACAAATCTTATCTCCCTGAAGATGCAGTAGAGCAGA
66 ACAGTAGAGTAGATCGCATC-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
54471878 TTGAAGACCG
Statistics
Matches: 216, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
127 2 0.01
128 112 0.52
129 101 0.47
130 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (128 bp):
AAATCATATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
ACAGTAGAGTAGATCGCATCAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAAT
Found at i:54471813 original size:44 final size:43
Alignment explanation
Indices: 54471503--54471879 Score: 248
Period size: 44 Copynumber: 8.8 Consensus size: 43
54471493 TGAAGATACA
* *
54471503 AATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
* * * * * *
54471546 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATC-C
1 A-ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
* ** * *
54471588 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-C
* * *
54471632 AATCCTATCTCCCTTAAGTTACAGTGGAGCAGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
* * * *** *
54471675 AATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCATCA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
** * * ** *
54471716 GGTCTTATCTCCCTGAGGTTATAGTGGAGCAGACGAAAGA-AATC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-C
* * *
54471760 AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
* * * * * ***
54471803 AGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGTAA-CA-
1 A-ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
* * *
54471845 AATCTTATCTCCCTGAAGATGCAGTAGAGCAGATT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
54471880 GAAGACCGTT
Statistics
Matches: 252, Mismatches: 70, Indels: 26
0.72 0.20 0.07
Matches are distributed among these distances:
41 83 0.33
42 9 0.04
43 41 0.16
44 119 0.47
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAC
Found at i:54471868 original size:85 final size:85
Alignment explanation
Indices: 54470675--54471879 Score: 333
Period size: 85 Copynumber: 13.9 Consensus size: 85
54470665 TCGCATCAGG
* * * * * * *
54470675 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATC-AA-AA---CAAATCTTATCTCCCTGAAGTTG
* * * *
54470740 CAGTGGAGTAGATTGAAGCCAGAGA
61 CAGTGGAGCAGATTAAAACCACAGA
* ** * ** * *
54470765 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-AGATTAC
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGA-TCAA-A-ACAAATCTTATCTCCCTGAAG-TTGC
* * *
54470829 AGTGGAGCGGATTAAAA-TAAAGGA
62 AGTGGAGCAGATTAAAACCACA-GA
* * * ** * ** * *
54470853 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTG
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTG
* ** ***
54470918 GAGTAGACCGAAGAATTTCAGA
66 GAGCAGA-TTAA-AACCACAGA
* * * * * *
54470940 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAAATACCAATCGTGTCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATC---AAA-ACAAATCTTATCTCCCTGAAGTTGC
** * * *
54471004 AGTGGAGTGGATGAAAACGA-TGAA
62 AGTGGAGCAGATTAAAACCACAG-A
* * * *** * * * *
54471028 TCATATAC-CTCTGAAGTTACAGTAG-GTCAAATTGGATCAAACCTTATCTCCCTGAAGTCGTAG
1 TCTTAT-CTCCCTGAAGTTACAGTAGAG-CAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAG
* * ****
54471091 TGGAGCAGGTTGAAGATTTTAGA
64 TGGAGCAGATT-AAAACCACAGA
* * * * *
54471114 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAAATACCAATCGTGTCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATC---AAA-ACAAATCTTATCTCCCTGAAGTTGC
** *
54471178 AGTGGAGTGGATGAAAA-CA-ATGAA
62 AGTGGAGCAGATTAAAACCACA-G-A
* * * *** * * * *
54471202 TCATATAC-CTCTGAAGTTGCAGTAG-GTC-GAATTGGATCAAACCTTATCTCCCTGAAGTCGTA
1 TCTTAT-CTCCCTGAAGTTACAGTAGAG-CAG-ATCAAAACAAATCTTATCTCCCTGAAGTTGCA
* * ***
54471264 GTGGAGCAGGTTGAAGATTTCAGA
63 GTGGAGCAGATT-AAAACCACAGA
* * *
54471288 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CGAAAAATACCAAT-TGTGTCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATC---AAA-ACAAATCT-TATCTCCCTGAAGTTG
* * ** **
54471351 GAGTGGAGAAGACGAAAAATACCA-A
61 CAGTGGAGCAGATTAAAACCA-CAGA
* * * * ** * * *
54471376 TCGTGTCTCCCTGAAGTTGCAATAGAGTGGATGAAAACGATGAATCATATAC-CTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAAC-A--AATCTTAT-CTCCCTGAAGTTGC
* ** *
54471440 AGTAGG-TC-GAATT-GGATCA-A-A
62 AGT-GGAGCAG-ATTAAAACCACAGA
* * * *** * * * *
54471461 ACTTATCTCCCTAAAATCGTAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTAGAGCA-GATCAA-A-ACAAATCTTATCTCCCTGAAGTTGCA
* *
54471526 GTGGAGCGGATTAAAACCATAGA
63 GTGGAGCAGATTAAAACCACAGA
* * * * *
54471549 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTG
** * * *
54471614 GAGCAGACGAAAGA-AATAAA
66 GAGCAGATTAAA-ACCACAGA
* * * * * *
54471634 TCCTATCTCCCTTAAGTTACAGTGGAGCAGATTAAAATCACAATCTTATCTCTCTGAAGTTACAG
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAA-CA-AATCTTATCTCCCTGAAGTTGCAG
* * *
54471699 T--AG-AG--TAGATCGCATCAGG
64 TGGAGCAGATTAAAAC-CA-CAGA
* * * * *
54471718 TCTTATCTCCCTGAGGTTATAGTGGAGCAGA-CGAAAGAAATCAATCATATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATC-AAA-ACA--AATCTTATCTCCCTGAAGTTGC
*
54471782 AGTGGAGCGGATTAAAACCACAGA
62 AGTGGAGCAGATTAAAACCACAGA
* * * * ** * *
54471806 TCTTATCTCTCTAAAATTACAGTAGAGTAGATCGTAACAAATCTTATCTCCCTGAAGATGCAGTA
1 TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTG
54471871 GAGCAGATT
66 GAGCAGATT
54471880 GAAGACCGTT
Statistics
Matches: 794, Mismatches: 247, Indels: 153
0.66 0.21 0.13
Matches are distributed among these distances:
82 2 0.00
83 1 0.00
84 37 0.05
85 251 0.32
86 74 0.09
87 80 0.10
88 218 0.27
89 67 0.08
90 63 0.08
91 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAACCACAGA
Found at i:54472352 original size:20 final size:21
Alignment explanation
Indices: 54472306--54472352 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
54472296 AAACAGACCT
*
54472306 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
54472327 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
54472347 AACCCA
1 AACCCA
54472353 GCCCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:54473319 original size:18 final size:18
Alignment explanation
Indices: 54473292--54473348 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
54473282 TTTAACCCCT
*
54473292 TTTTAGCAT-TTTTATTA
1 TTTTATCATATTTTATTA
* *
54473309 TTTTCTTCATTATTTTAATA
1 TTTT-ATCA-TATTTTATTA
*
54473329 TTTTATCATCTTTTATTA
1 TTTTATCATATTTTATTA
54473347 TT
1 TT
54473349 ATTGTTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 4 0.13
18 12 0.39
19 4 0.13
20 11 0.35
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATCATATTTTATTA
Found at i:54474061 original size:110 final size:110
Alignment explanation
Indices: 54473864--54474160 Score: 405
Period size: 110 Copynumber: 2.7 Consensus size: 110
54473854 TTCAAAAAAC
* * * *
54473864 AAAAATTTTTCAAATAAGGCAACGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
* * *
54473929 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
54473974 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
54474039 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
* ** * ** * * ** * * *
54474084 TAAAAATTTCGAAGTAAGATAATATTTTGTGTTTGGAAATTTAAGGAAACGTACCCTAAGGTGTT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
*
54474149 GGGTTTCGATTT
66 GGGTGTCGATTT
54474161 CTCGTTTAAC
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 166 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (110 bp):
AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
Found at i:54475545 original size:24 final size:22
Alignment explanation
Indices: 54475499--54475546 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
54475489 TTAACCTTCT
*
54475499 ACAAATAATTTATAAACCTTAA
1 ACAAATAATTTATAAACCCTAA
*
54475521 ACAAATAAATTTGTTAAACCCTAA
1 ACAAAT-AATTT-ATAAACCCTAA
54475545 AC
1 AC
54475547 TTACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 11 0.50
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (22 bp):
ACAAATAATTTATAAACCCTAA
Found at i:54475669 original size:35 final size:37
Alignment explanation
Indices: 54475630--54475700 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
54475620 GCTAATACTA
*
54475630 AACCCTAAACT-AACCCAAAATTCTT-TTTTCTTTTT
1 AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTTT
* *
54475665 AACCCTAAACTGACCCCAAACTTCTTCTTTGCTTTT
1 AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTT
54475701 CTTCTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 11 0.35
36 12 0.39
37 8 0.26
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.39
Consensus pattern (37 bp):
AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTTT
Found at i:54477354 original size:13 final size:14
Alignment explanation
Indices: 54477321--54477358 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
54477311 TGAAACAGGG
54477321 GAGAAAGAAAGAAA
1 GAGAAAGAAAGAAA
*
54477335 GAAAAAGAAA-AAA
1 GAGAAAGAAAGAAA
54477348 GAGAAAGAAAG
1 GAGAAAGAAAG
54477359 GAAAAACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAGAAAGAAAGAAA
Found at i:54479535 original size:20 final size:21
Alignment explanation
Indices: 54479512--54479558 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
54479502 TTCTTTTCTT
*
54479512 TTTTTTCCTCTTTCC-TTTTC-
1 TTTTTTCCT-TTCCCATTTTCA
*
54479532 TTTTATCCTTTCCCATTTTCA
1 TTTTTTCCTTTCCCATTTTCA
54479553 TTTTTT
1 TTTTTT
54479559 TTTTCTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTCCTTTCCCATTTTCA
Found at i:54481541 original size:6 final size:6
Alignment explanation
Indices: 54481530--54481576 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
54481520 ATCAATTAAT
* * *
54481530 AATTAC AATTAC AATTAC AATTAC AATTAT AATTAT AATTAT AATTA
1 AATTAC AATTAC AATTAC AATTAC AATTAC AATTAC AATTAC AATTA
54481577 TTTTATTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (6 bp):
AATTAC
Found at i:54481577 original size:6 final size:6
Alignment explanation
Indices: 54481523--54481577 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
54481513 TTCTAAAATC
* * * *
54481523 AATTAAT AATTAC AATTAC AATTAC AATTAC AATTAT AATTAT AATTAT
1 AATT-AT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
54481572 AATTAT
1 AATTAT
54481578 TTTATTGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 42 0.91
7 4 0.09
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTAT
Found at i:54481577 original size:18 final size:18
Alignment explanation
Indices: 54481523--54481577 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
54481513 TTCTAAAATC
*
54481523 AATTAATAATTACAATTAC
1 AATT-ATAATTACAATTAT
*
54481542 AATTACAATTACAATTAT
1 AATTATAATTACAATTAT
*
54481560 AATTATAATTATAATTAT
1 AATTATAATTACAATTAT
54481578 TTTATTGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 28 0.88
19 4 0.12
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTATAATTACAATTAT
Found at i:54483505 original size:14 final size:12
Alignment explanation
Indices: 54483480--54483512 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
54483470 ATATATATTT
54483480 TAAAAAATTATA
1 TAAAAAATTATA
*
54483492 TAAAAAATAATA
1 TAAAAAATTATA
54483504 TAAAAAATT
1 TAAAAAATT
54483513 TAATACGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:54483516 original size:14 final size:13
Alignment explanation
Indices: 54483480--54483517 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
54483470 ATATATATTT
54483480 TAAAAAATT-ATA
1 TAAAAAATTAATA
54483492 TAAAAAA-TAATA
1 TAAAAAATTAATA
54483504 TAAAAAATTTAATA
1 TAAAAAA-TTAATA
54483518 CGGACGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 17 0.74
14 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:54484892 original size:105 final size:104
Alignment explanation
Indices: 54484718--54484911 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 104
54484708 GTGTCTAAGC
* * * *
54484718 CGTGTAACTCACTGTTTATGACTTAGGACCGCACAGCCAGGGACATGGGTGTGTGCCCAGGTCGT
1 CGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAGGGACATAGGTGTGTGCCCAGCTCGT
* *
54484783 GTGAGTCATACGGGCAAAGACATGTGCGTTTGTCTAGAT
66 GTGAGCCACACGGGCAAAGACATGTGCGTTTGTCTAGAT
** ** *
54484822 CGTGTAACTCACTGTTTATGTTTTAGAACCACATGGGCAGAGGACATAGGTGTGTGCCCAAGCT-
1 CGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAG-GGACATAGGTGTGTGCCC-AGCTC
*
54484886 GTGTGAGCCACACGGGCAAGGACATG
64 GTGTGAGCCACACGGGCAAAGACATG
54484912 GGCCTGTGCC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
104 33 0.43
105 40 0.53
106 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (104 bp):
CGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAGGGACATAGGTGTGTGCCCAGCTCGT
GTGAGCCACACGGGCAAAGACATGTGCGTTTGTCTAGAT
Found at i:54484931 original size:105 final size:104
Alignment explanation
Indices: 54484716--54484931 Score: 236
Period size: 105 Copynumber: 2.1 Consensus size: 104
54484706 GTGTGTCTAA
* * * *
54484716 GCCGTGTAACTCACTGTTTATGACTTAGGACCGCACAGCCAGGGACATGGGTGTGTGCCCAGGTC
1 GCCGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAGGGACATAGGTGTGTGCCCAGCTC
* * * * * * *
54484781 GTGTGAGTCATACGGGCAAAGACATGTGCGTTTGTCTAG
66 GTGTGAGCCACACGGGCAAAGACATGGGCCTGTGCCCAG
** ** ** *
54484820 ATCGTGTAACTCACTGTTTATGTTTTAGAACCACATGGGCAGAGGACATAGGTGTGTGCCCAAGC
1 GCCGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAG-GGACATAGGTGTGTGCCC-AGC
*
54484885 T-GTGTGAGCCACACGGGCAAGGACATGGGCCTGTGCCCAG
64 TCGTGTGAGCCACACGGGCAAAGACATGGGCCTGTGCCCAG
54484925 GCCGTGT
1 GCCGTGT
54484932 GAGCCACATG
Statistics
Matches: 89, Mismatches: 21, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
104 33 0.37
105 53 0.60
106 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (104 bp):
GCCGTGTAACTCACTGTTTATGACTTAGAACCACACAGCCAGGGACATAGGTGTGTGCCCAGCTC
GTGTGAGCCACACGGGCAAAGACATGGGCCTGTGCCCAG
Found at i:54484967 original size:42 final size:42
Alignment explanation
Indices: 54484850--54484973 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
54484840 TGTTTTAGAA
* * * *
54484850 CCACATGGGCAGAGGACATAGGTGTGTGCCCAAGCTGTGTGAG
1 CCACATGGGCA-AGGACATGGGCGTGTGCCCAGGCCGTGTGAG
* *
54484893 CCACACGGGCAAGGACATGGGCCTGTGCCCAGGCCGTGTGAG
1 CCACATGGGCAAGGACATGGGCGTGTGCCCAGGCCGTGTGAG
* * *
54484935 CCACATGGACAAGGACATGGGCGTATGTCCAGGCC-TGTG
1 CCACATGGGCAAGGACATGGGCGTGTGCCCAGGCCGTGTG
54484974 GCTATGAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 4 0.06
42 56 0.80
43 10 0.14
ACGTcount: A:0.22, C:0.26, G:0.36, T:0.16
Consensus pattern (42 bp):
CCACATGGGCAAGGACATGGGCGTGTGCCCAGGCCGTGTGAG
Found at i:54492563 original size:36 final size:36
Alignment explanation
Indices: 54492522--54492707 Score: 237
Period size: 36 Copynumber: 4.9 Consensus size: 36
54492512 CTTTGGCTAT
54492522 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAC
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAC
* * *
54492558 ACTTATCTGATCAAGAGACAAAGCGATAAGTGGTAGCTTTAGCTAC
1 ACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T---TAC
*
54492604 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAC
*
54492640 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAC
54492676 ACTTATCTGATCAAGTGAAAAAGTGATAAGTG
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTG
54492708 GTAGCTTAGC
Statistics
Matches: 133, Mismatches: 7, Indels: 20
0.83 0.04 0.12
Matches are distributed among these distances:
36 96 0.72
39 3 0.02
40 1 0.01
42 1 0.01
43 3 0.02
46 29 0.22
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (36 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAC
Found at i:54492618 original size:82 final size:81
Alignment explanation
Indices: 54492481--54492707 Score: 319
Period size: 82 Copynumber: 2.9 Consensus size: 81
54492471 TTTGAGTACT
* *
54492481 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTGGCTATACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTA-ACTTATCTGATCAAGTGAAAAAGT
54492546 GATAAGTGTTACACTTA
65 GATAAGTGTTACACTTA
* *
54492563 TCTGATCAAGAGACAAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTA-ACTTATCTGATCAAGTGAAAAAGT
*
54492628 GATAAGTGTTATACTTA
65 GATAAGTGTTACACTTA
*
54492645 TCTGATCAAGTGAAAAAGTGATAA---GT-G--TTA--T-ACTTATCTGATCAAGTGAAAAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTAACTTATCTGATCAAGTGAAAAAGTG
54492701 ATAAGTG
66 ATAAGTG
54492708 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
72 32 0.23
74 1 0.01
76 3 0.02
78 1 0.01
79 2 0.01
82 98 0.72
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTAACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGTTACACTTA
Found at i:54492655 original size:21 final size:20
Alignment explanation
Indices: 54492627--54492692 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
54492617 AGTGAAAAAG
54492627 TGATAAGTGTTATACTTATC
1 TGATAAGTGTTATACTTATC
* **
54492647 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGTTATACTTATC
54492663 TGATAAGTGTTATACTTATC
1 TGATAAGTGTTATACTTATC
54492683 TGATCAAGTG
1 TGAT-AAGTG
54492693 AAAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
TGATAAGTGTTATACTTATC
Found at i:54492656 original size:118 final size:115
Alignment explanation
Indices: 54492519--54492750 Score: 383
Period size: 118 Copynumber: 2.0 Consensus size: 115
54492509 TAGCTTTGGC
*
54492519 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTATCTGATCAAGAGACAAAGCGA
1 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTATCTGATCAAGAGAAAAAGCGA
*
54492584 TAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
66 TAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGAAAAA-TGATAAGTGT
* * *
54492637 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTATACTTATCTGATCAAGTGAAAAAGTGA
1 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTATCTGATCAAGAGAAAAAGCGA
*
54492702 TAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGACAAATGATAAGTG
66 TAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGTG
54492751 ATCATACGTA
Statistics
Matches: 108, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
115 9 0.08
116 7 0.06
117 20 0.19
118 72 0.67
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (115 bp):
TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTATCTGATCAAGAGAAAAAGCGA
TAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGTGT
Found at i:54502768 original size:9 final size:9
Alignment explanation
Indices: 54502754--54502784 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
54502744 GTTAAACGAA
54502754 TCGAGTTAT
1 TCGAGTTAT
*
54502763 TCGAGTTAA
1 TCGAGTTAT
54502772 TCGAGTTAT
1 TCGAGTTAT
54502781 TCGA
1 TCGA
54502785 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:54504523 original size:178 final size:172
Alignment explanation
Indices: 54504213--54504596 Score: 395
Period size: 178 Copynumber: 2.2 Consensus size: 172
54504203 AAATGGGACC
* *
54504213 TTGTTTGGTCTCTGAGAAAGGATGGAAAAAGGAAAAGTTTGGTTAGAAAATGGATGGGAAAATAC
1 TTGTTTGGTCTCTGAGAAAGGATGGAAAATGGAAAAGTTTGGTTAAAAAATGGATGGGAAAATAC
* * *
54504278 AGTGAATTTAGTCTTTACAGTTCAGATTTTTACTACATACGAAAGTTGGGTTATAAGTATATAAT
66 AGTGAATATAGTCATTAAAGTTCAGATTTTTACTACATACGAAAGTTGGGTTATAAGTATATAAT
* *
54504343 GATTTATTATT-ATGCTTTATCTGAACTGAAT-GAAAAGGAAAGT
131 GA-TTATT-TTGATGCTTTATCTGAACCGAATAGAAAAGG-AACT
54504386 TTGTTTGGTCTCTGAGAAAGGAATGGAAAAT-GAGAAA-TTTGGGTTAAAAAATGGATGGGAAAA
1 TTGTTTGGTCTCTGAGAAAGG-ATGGAAAATGGA-AAAGTTT-GGTTAAAAAATGGATGGGAAAA
* * ** ** *
54504449 TATAG-GAAATACAGATAGTCATTAAAGTTCAGATTTTTATTGAGTTTTG-AAGTTGGGTTCTAT
63 TACAGTG-AAT----ATAGTCATTAAAGTTCAGATTTTTACT-ACATACGAAAGTTGGGTTATA-
* * * * *
54504512 GGT-TGTAATGATTATTTTGATGCTTTATTTGAACCGAATAGAAATGGCACT
121 AGTATATAATGATTATTTTGATGCTTTATCTGAACCGAATAGAAAAGGAACT
* * *
54504563 CTGTTTGGTCACTGAGAAAGGGATAGAAAATGGA
1 TTGTTTGGTCTCTGAGAAA-GGATGGAAAATGGA
54504597 TAGGAAAATA
Statistics
Matches: 175, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
173 27 0.15
174 39 0.22
176 2 0.01
177 50 0.29
178 52 0.30
179 5 0.03
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (172 bp):
TTGTTTGGTCTCTGAGAAAGGATGGAAAATGGAAAAGTTTGGTTAAAAAATGGATGGGAAAATAC
AGTGAATATAGTCATTAAAGTTCAGATTTTTACTACATACGAAAGTTGGGTTATAAGTATATAAT
GATTATTTTGATGCTTTATCTGAACCGAATAGAAAAGGAACT
Found at i:54506102 original size:29 final size:29
Alignment explanation
Indices: 54506021--54506171 Score: 133
Period size: 30 Copynumber: 5.1 Consensus size: 29
54506011 ATTATTTTTG
* *
54506021 CATTTCGACCCCTAAACTTTTCTAAAATTT
1 CATTTCAACCCCTAAACTTTT-TAAAATTA
* *
54506051 CATTTTC-ACCACTAAAATTTTTTAAAATTA
1 CA-TTTCAACCCCT-AAACTTTTTAAAATTA
* *
54506081 TAATTCAACCCCTAAACTTTTTAAAATTA
1 CATTTCAACCCCTAAACTTTTTAAAATTA
** * *
54506110 CATTTTGATCCCTAAACTTTCTAAAAATTA
1 CATTTCAACCCCTAAACTTT-TTAAAATTA
* * *
54506140 CATTTTAACCCTTAAACTTTCTCAAAATTA
1 CATTTCAACCCCTAAACTTT-TTAAAATTA
54506170 CA
1 CA
54506172 CTTTTGCCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
29 33 0.33
30 56 0.56
31 11 0.11
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (29 bp):
CATTTCAACCCCTAAACTTTTTAAAATTA
Found at i:54506114 original size:59 final size:58
Alignment explanation
Indices: 54506028--54506189 Score: 166
Period size: 59 Copynumber: 2.7 Consensus size: 58
54506018 TTGCATTTCG
* * *
54506028 ACCCCTAAACTTTTCTAAAATTTCATTTTCACCACTAAAATTTTTTAAAATTATAATTCA
1 ACCCCTAAACTTTT-TAAAATTACATTTT-ACCACTAAAATTTTTAAAAATTACAATTCA
* * * *
54506088 ACCCCTAAACTTTTTAAAATTACATTTTGATCC-CTAAACTTTCTAAAAATTACATTTTA
1 ACCCCTAAACTTTTTAAAATTACATTTT-A-CCACTAAAATTTTTAAAAATTACAATTCA
* * *
54506147 ACCCTTAAACTTTCTCAAAATTACACTTTTGCCAC-AAAATTTT
1 ACCCCTAAACTTT-TTAAAATTACA-TTTTACCACTAAAATTTT
54506190 GCTGCATTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
59 54 0.64
60 27 0.32
61 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (58 bp):
ACCCCTAAACTTTTTAAAATTACATTTTACCACTAAAATTTTTAAAAATTACAATTCA
Found at i:54506420 original size:29 final size:29
Alignment explanation
Indices: 54506361--54506424 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
54506351 GGAGTAAGCA
*
54506361 AAAAAAAAAGAAAAAAAACAAATTTTGAGC
1 AAAAAAAAAGAAAAAAAACAAA-TTAGAGC
54506391 AAAAAAAAAGAAAGAAAAA-AAA-TAGCAGC
1 AAAAAAAAAGAAA-AAAAACAAATTAG-AGC
54506420 AAAAA
1 AAAAA
54506425 CACTAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 2 0.06
29 8 0.26
30 16 0.52
31 5 0.16
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAACAAATTAGAGC
Found at i:54506503 original size:20 final size:21
Alignment explanation
Indices: 54506478--54506518 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
54506468 ATCTCCCATT
*
54506478 GCCAAAGAAAAGC-AAATCAA
1 GCCAAAAAAAAGCAAAATCAA
*
54506498 GCCAAAAAAAATCAAAATCAA
1 GCCAAAAAAAAGCAAAATCAA
54506519 AAACCCCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.63, C:0.20, G:0.10, T:0.07
Consensus pattern (21 bp):
GCCAAAAAAAAGCAAAATCAA
Found at i:54506689 original size:6 final size:7
Alignment explanation
Indices: 54506669--54506693 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54506659 TTGAACGAAG
54506669 AAGAAAA
1 AAGAAAA
54506676 AAGAAAA
1 AAGAAAA
54506683 AAGAAAA
1 AAGAAAA
54506690 AAGA
1 AAGA
54506694 GGAAGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:54507015 original size:25 final size:25
Alignment explanation
Indices: 54506950--54507008 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
54506940 CCAGCCCAGC
*
54506950 AGAGAGAAAACAAAAAGAAAAAAAG
1 AGAGAAAAAACAAAAAGAAAAAAAG
*
54506975 AGAGAAAAAAGAAAAAGAAAAAAAG
1 AGAGAAAAAACAAAAAGAAAAAAAG
54507000 AG-GAAAAAA
1 AGAGAAAAAA
54507009 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (25 bp):
AGAGAAAAAACAAAAAGAAAAAAAG
Found at i:54507021 original size:25 final size:25
Alignment explanation
Indices: 54506950--54507024 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
54506940 CCAGCCCAGC
* * *
54506950 AGAGAGAAAACAAAAAGAAAAAAAG
1 AGAGAAAAAAGAAAAAAAAAAAAAG
*
54506975 AGAGAAAAAAGAAAAAGAAAAAAAG
1 AGAGAAAAAAGAAAAAAAAAAAAAG
54507000 AG-GAAAAAA-ATAAAAAATAAAAAAG
1 AGAGAAAAAAGA-AAAAAA-AAAAAAG
54507025 GAGTTCAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 12 0.27
25 32 0.71
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (25 bp):
AGAGAAAAAAGAAAAAAAAAAAAAG
Found at i:54507196 original size:21 final size:21
Alignment explanation
Indices: 54507172--54507211 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
54507162 GCATTTATAT
54507172 TTTTAATTTAATTTAATTTAA
1 TTTTAATTTAATTTAATTTAA
*
54507193 TTTTAATTTAATTTTATTT
1 TTTTAATTTAATTTAATTT
54507212 TAAATACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATTTAATTTAATTTAA
Found at i:54507199 original size:11 final size:11
Alignment explanation
Indices: 54507172--54507214 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
54507162 GCATTTATAT
54507172 TTTTAATTTAA
1 TTTTAATTTAA
54507183 -TTTAATTTAA
1 TTTTAATTTAA
54507193 TTTTAATTTAA
1 TTTTAATTTAA
*
54507204 TTTTATTTTAA
1 TTTTAATTTAA
54507215 ATACTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:54507199 original size:16 final size:16
Alignment explanation
Indices: 54507173--54507214 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
54507163 CATTTATATT
54507173 TTTAA-TTTAATTTAA
1 TTTAATTTTAATTTAA
54507188 TTTAATTTTAATTTAA
1 TTTAATTTTAATTTAA
*
54507204 TTTTATTTTAA
1 TTTAATTTTAA
54507215 ATACTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATTTTAATTTAA
Found at i:54507213 original size:5 final size:5
Alignment explanation
Indices: 54507173--54507211 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
54507163 CATTTATATT
*
54507173 TTTAA TTTAA TTTAA TTTAA TTTTAA TTTAA TTTTA TTT
1 TTTAA TTTAA TTTAA TTTAA -TTTAA TTTAA TTTAA TTT
54507212 TAAATACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
TTTAA
Found at i:54507398 original size:19 final size:20
Alignment explanation
Indices: 54507370--54507416 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
54507360 AAATTATATT
54507370 TTTC-AAAA-TTTT-TCGTG
1 TTTCAAAAATTTTTCTCGTG
54507387 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAATTTTTCTCGTG
54507408 TTTCAAAAA
1 TTTCAAAAA
54507417 ATATTCGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 4 0.15
20 12 0.46
21 6 0.23
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTCAAAAATTTTTCTCGTG
Found at i:54507680 original size:18 final size:18
Alignment explanation
Indices: 54507659--54507983 Score: 242
Period size: 18 Copynumber: 18.4 Consensus size: 18
54507649 AAAAATCTAT
* *
54507659 TTTTCAAAAGTTTTCATG
1 TTTTCAAAAATTTTCGTG
**
54507677 TTTTCAAAAAATTCCCGTG
1 TTTTC-AAAAATTTTCGTG
* **
54507696 TTTT-AAAAATTTCCACG
1 TTTTCAAAAATTTTCGTG
*
54507713 TTTTCAAAAATTTTTGTG
1 TTTTCAAAAATTTTCGTG
**
54507731 TTTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
54507749 TTTTCAAAAATTTT-GATG
1 TTTTCAAAAATTTTCG-TG
*
54507767 -TTTCAAAAATTTCCGTG
1 TTTTCAAAAATTTTCGTG
54507784 TTTT-AAAAA-TTTCTGTG
1 TTTTCAAAAATTTTC-GTG
*
54507801 TTTTCAAAAATTTTCGTA
1 TTTTCAAAAATTTTCGTG
** **
54507819 TTTAAAAAAAAATTCGTG
1 TTTTCAAAAATTTTCGTG
* * **
54507837 CTAT-AAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
*
54507854 TTTTCAAAAA-TTCCGATG
1 TTTTCAAAAATTTTCG-TG
*
54507872 -TTTCAAAAATTTTCATG
1 TTTTCAAAAATTTTCGTG
*
54507889 TTTTCAAAAA-TTCCG-G
1 TTTTCAAAAATTTTCGTG
*** *
54507905 AGATCCAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
54507923 TTTTCTAAAAATTTCCGTG
1 TTTTC-AAAAATTTTCGTG
*
54507942 -TTTCAAAAATTTTCGTT
1 TTTTCAAAAATTTTCGTG
*
54507959 TTTTCACAAA-TTTCTGTG
1 TTTTCAAAAATTTTC-GTG
54507977 TTTTCAA
1 TTTTCAA
54507984 CGACTCTAGT
Statistics
Matches: 236, Mismatches: 54, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
16 10 0.04
17 88 0.37
18 110 0.47
19 28 0.12
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:54507732 original size:35 final size:36
Alignment explanation
Indices: 54507659--54507813 Score: 142
Period size: 35 Copynumber: 4.4 Consensus size: 36
54507649 AAAAATCTAT
* * * ***
54507659 TTTTCAAAAGTTTTCATGTTTTCAAAAAATTCCCGTG
1 TTTTCAAAAATTTCCACGTTTTC-AAAAATTTTTGTG
54507696 TTTT-AAAAATTTCCACGTTTTCAAAAATTTTTGTG
1 TTTTCAAAAATTTCCACGTTTTCAAAAATTTTTGTG
*
54507731 TTTTCAAAAA--TCCTCGTGTTTTCAAAAA-TTTTGATG
1 TTTTCAAAAATTTCCAC--GTTTTCAAAAATTTTTG-TG
** *
54507767 -TTTCAAAAATTTCCGTGTTTT-AAAAATTTCTGTG
1 TTTTCAAAAATTTCCACGTTTTCAAAAATTTTTGTG
54507801 TTTTCAAAAATTT
1 TTTTCAAAAATTT
54507814 TCGTATTTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
34 11 0.11
35 49 0.49
36 33 0.33
37 7 0.07
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (36 bp):
TTTTCAAAAATTTCCACGTTTTCAAAAATTTTTGTG
Found at i:54507827 original size:35 final size:34
Alignment explanation
Indices: 54507643--54507983 Score: 130
Period size: 35 Copynumber: 9.7 Consensus size: 34
54507633 TCATGTTTTT
* * *
54507643 TTTTAAAAAA-ATCTAT-TTTTCAAAAGTTTTCATG
1 TTTTAAAAAATTTCTGTGTTTTCAAAAATTTTC--G
* * *
54507677 TTTTCAAAAAATTCCCGTGTTTT-AAAAATTTCCACG
1 TTTT-AAAAAATTTCTGTGTTTTCAAAAATTT--TCG
* * **
54507713 TTTTCAAAAATTTTTGTGTTTTCAAAAATCCTCGTG
1 TTTTAAAAAATTTCTGTGTTTTCAAAAATTTTC--G
* *
54507749 TTTTCAAAAATTT-TGATG-TTTCAAAAATTTCCG
1 TTTTAAAAAATTTCTG-TGTTTTCAAAAATTTTCG
*
54507782 TGTTTTAAAAATTTCTGTGTTTTCAAAAATTTTCG
1 T-TTTAAAAAATTTCTGTGTTTTCAAAAATTTTCG
* * * **
54507817 TATTTAAAAAAAAATTC-GTGCTAT-AAAAATCCTCGTG
1 T-TTT--AAAAAATTTCTGTGTTTTCAAAAATTTTC--G
* *
54507854 TTTTCAAAAA-TTCCGATG-TTTCAAAAATTTTCATG
1 TTTTAAAAAATTTCTG-TGTTTTCAAAAATTTTC--G
* * *** *
54507889 TTTTCAAAAA-TTCCG-GAGATCCAAAATTTTCGTG
1 TTTTAAAAAATTTCTGTGTTTTCAAAAATTTTC--G
* *
54507923 TTTTCTAAAAATTTCCGTG-TTTCAAAAATTTTCG
1 TTTT-AAAAAATTTCTGTGTTTTCAAAAATTTTCG
* *
54507957 TTTTTTCACAAATTTCTGTGTTTTCAA
1 --TTTTAAAAAATTTCTGTGTTTTCAA
54507984 CGACTCTAGT
Statistics
Matches: 240, Mismatches: 41, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
33 6 0.03
34 44 0.18
35 104 0.43
36 70 0.29
37 15 0.06
38 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (34 bp):
TTTTAAAAAATTTCTGTGTTTTCAAAAATTTTCG
Found at i:54507828 original size:88 final size:87
Alignment explanation
Indices: 54507644--54507983 Score: 257
Period size: 88 Copynumber: 3.9 Consensus size: 87
54507634 CATGTTTTTT
* * * *
54507644 TTTAAAAAAATCT-AT-TTTTCAAAAGTTTTCATGTTTTCAAAAAATTCCCGTGTTTTAAAAATT
1 TTTAAAAAAATCTCGTGTTTTCAAAA-ATTTCGTGTTTTC-AAAAATTTCCGTGTTTTAAAAATT
* * * *
54507707 TCCACGTTTTCAAAAATTTTTGTG
64 TCTATGTTTTCAAAAATTTTCGTA
** *
54507731 TTTTCAAAAATCCTCGTGTTTTCAAAAATTTTGATG-TTTCAAAAATTTCCGTGTTTTAAAAATT
1 TTTAAAAAAAT-CTCGTGTTTTCAAAAATTTCG-TGTTTTCAAAAATTTCCGTGTTTTAAAAATT
*
54507795 TCTGTGTTTTCAAAAATTTTCGTA
64 TCTATGTTTTCAAAAATTTTCGTA
* * * *
54507819 TTTAAAAAAAAAT-TCGTGCTAT-AAAAATCCTCGTGTTTTCAAAAA-TTCCGATGTTTCAAAAA
1 TTT--AAAAAAATCTCGTGTTTTCAAAAAT-TTCGTGTTTTCAAAAATTTCCG-TGTTTTAAAAA
* *
54507881 TTT-TCATGTTTTCAAAAA-TTCCGGA
62 TTTCT-ATGTTTTCAAAAATTTTCGTA
** ** * * * * *
54507906 GATCCAAAATTTTCGTGTTTTCTAAAAATTTCCGTG-TTTCAAAAATTTTCGTTTTTTCACAAAT
1 TTTAAAAAAATCTCGTGTTTTC-AAAAATTT-CGTGTTTTCAAAAATTTCCGTGTTTT-AAAAAT
*
54507970 TTCTGTGTTTTCAA
63 TTCTATGTTTTCAA
54507984 CGACTCTAGT
Statistics
Matches: 201, Mismatches: 35, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
85 5 0.02
86 7 0.03
87 43 0.21
88 120 0.60
89 9 0.04
90 17 0.08
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (87 bp):
TTTAAAAAAATCTCGTGTTTTCAAAAATTTCGTGTTTTCAAAAATTTCCGTGTTTTAAAAATTTC
TATGTTTTCAAAAATTTTCGTA
Found at i:54507845 original size:70 final size:70
Alignment explanation
Indices: 54507699--54507957 Score: 194
Period size: 70 Copynumber: 3.7 Consensus size: 70
54507689 TCCCGTGTTT
** * ** * ** * *
54507699 TAAAAATTTCCACGTTTTCAAAAATTTTTGTGTTTTCAAAAATCCTCGTGTTTTCAAAAATTTTG
1 TAAAAATTTCCGTGTTTTCAAAAATTTCTGTGTTTTCAAAAATTTTCGTATTTAAAAAAAATTCG
*
54507764 ATGTT
66 ATGTA
54507769 TCAAAAATTTCCGTGTTTT-AAAAATTTCTGTGTTTTCAAAAATTTTCGTATTTAAAAAAAAATT
1 T-AAAAATTTCCGTGTTTTCAAAAATTTCTGTGTTTTCAAAAATTTTCGTATTT-AAAAAAAATT
54507833 CG-TGCTA
64 CGATG-TA
* * * * **
54507840 TAAAAA-TCCTCGTGTTTTCAAAAA-TTCCGATG-TTTCAAAAATTTTCATGTTT-TCAAAAATT
1 TAAAAATTTC-CGTGTTTTCAAAAATTTCTG-TGTTTTCAAAAATTTTCGTATTTAAAAAAAATT
54507901 CCGGA-G-A
64 -C-GATGTA
* * *
54507908 TCCAAAATTTTCGTGTTTTCTAAAAATTTCCGTG-TTTCAAAAATTTTCGT
1 T-AAAAATTTCCGTGTTTTC-AAAAATTTCTGTGTTTTCAAAAATTTTCGT
54507958 TTTTTCACAA
Statistics
Matches: 155, Mismatches: 21, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
68 9 0.06
69 16 0.10
70 93 0.60
71 37 0.24
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (70 bp):
TAAAAATTTCCGTGTTTTCAAAAATTTCTGTGTTTTCAAAAATTTTCGTATTTAAAAAAAATTCG
ATGTA
Found at i:54507875 original size:17 final size:17
Alignment explanation
Indices: 54507855--54507952 Score: 69
Period size: 17 Copynumber: 5.6 Consensus size: 17
54507845 ATCCTCGTGT
54507855 TTTCAAAAATTCCGATG
1 TTTCAAAAATTCCGATG
*
54507872 TTTCAAAAATTTTC-ATG
1 TTTCAAAAA-TTCCGATG
54507889 TTTTCAAAAATTCCGGA-G
1 -TTTCAAAAATTCC-GATG
* * * *
54507907 ATCCAAAATTTTCG-TG
1 TTTCAAAAATTCCGATG
54507923 TTTTCTAAAAATTTCCG-TG
1 -TTTC-AAAAA-TTCCGATG
54507942 TTTCAAAAATT
1 TTTCAAAAATT
54507953 TTCGTTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
16 4 0.06
17 31 0.49
18 21 0.33
19 7 0.11
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (17 bp):
TTTCAAAAATTCCGATG
Found at i:54508056 original size:18 final size:18
Alignment explanation
Indices: 54508030--54508091 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
54508020 TTAATTTGTA
*
54508030 TTTCGAAAAATTCTCGTG
1 TTTCAAAAAATTCTCGTG
*
54508048 TTTC-AAAAATTGTCGTG
1 TTTCAAAAAATTCTCGTG
** *
54508065 TTAAAAAAAATTTTCGTG
1 TTTCAAAAAATTCTCGTG
54508083 TTTCAAAAA
1 TTTCAAAAA
54508092 TTTCGTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
TTTCAAAAAATTCTCGTG
Found at i:54508057 original size:17 final size:16
Alignment explanation
Indices: 54508030--54508097 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 16
54508020 TTAATTTGTA
54508030 TTTCGAAAAATTCTCGTG
1 TTTC-AAAAATT-TCGTG
54508048 TTTCAAAAATTGTCGTG
1 TTTCAAAAATT-TCGTG
**
54508065 TTAAAAAAAATTTTCGTG
1 TT-TCAAAAA-TTTCGTG
54508083 TTTCAAAAATTTCGT
1 TTTCAAAAATTTCGT
54508098 TTTTTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.14
17 19 0.44
18 16 0.37
19 2 0.05
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (16 bp):
TTTCAAAAATTTCGTG
Found at i:54508137 original size:34 final size:35
Alignment explanation
Indices: 54508072--54508142 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
54508062 GTGTTAAAAA
* *
54508072 AAATTTTCGTGTTTCAAAAATTTCGTTTTTTTTTT
1 AAATTTTCGTGCTTCAAAAATTTCGTGTTTTTTTT
54508107 AAATTTT-GTGCTTC-AAAATTCTCGTGTTTTTTTT
1 AAATTTTCGTGCTTCAAAAATT-TCGTGTTTTTTTT
54508141 AA
1 AA
54508143 TTCTCATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 6 0.18
34 20 0.61
35 7 0.21
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (35 bp):
AAATTTTCGTGCTTCAAAAATTTCGTGTTTTTTTT
Found at i:54514448 original size:13 final size:13
Alignment explanation
Indices: 54514432--54514471 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
54514422 CAAACAAAAC
54514432 AAAAA-AAAAGCAA
1 AAAAAGAAAAG-AA
54514445 AAAAAGAAAAG-A
1 AAAAAGAAAAGAA
54514457 AAAAAG-AAAGAA
1 AAAAAGAAAAGAA
54514469 AAA
1 AAA
54514472 TCAAGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 5 0.20
14 5 0.20
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:54516469 original size:21 final size:21
Alignment explanation
Indices: 54516440--54516483 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
54516430 AGGTATGTAT
*
54516440 AATACATATATATGTGGTGCG
1 AATACATATATAAGTGGTGCG
* *
54516461 AATATATATATAAGTGGTTCG
1 AATACATATATAAGTGGTGCG
54516482 AA
1 AA
54516484 GGTATGTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (21 bp):
AATACATATATAAGTGGTGCG
Found at i:54517006 original size:41 final size:41
Alignment explanation
Indices: 54516957--54517065 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 41
54516947 GACTTTAAGT
* * *
54516957 CTAGCAGGCTACGTGTCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
54516998 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
54517039 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
54517066 TTTAAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:54518315 original size:78 final size:76
Alignment explanation
Indices: 54518227--54519130 Score: 1036
Period size: 78 Copynumber: 11.8 Consensus size: 76
54518217 TCAAGAAATA
* ** * *
54518227 TTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
54518292 GCCGAGGTATTTT
66 GCCGAGGTA--TT
*
54518305 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
54518369 ATGCCGAGGTATT
66 --GCCGAGGTATT
* * * * *
54518382 TCTTTTATATTTCTGTTTTTCAAAAATTAACTCATAATGCAAGAAGTGAGTTGAGCCTCGGGTCA
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
54518447 CGCTGAGG-A--
65 CGCCGAGGTATT
* * * ** *
54518456 ATTTTCAATTTTTGTTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
54518521 ATGCCGAGGTATT
66 --GCCGAGGTATT
54518534 TCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
54518599 CACGCCGAGGTATT
63 CACGCCGAGGTATT
*
54518613 CTTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
1 -TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
54518676 CATGTCGAGGTATT
65 C--GCCGAGGTATT
*
54518690 TCTTTTAAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 T-TTTTAAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
54518755 TCATGCTGAGGTA--
62 TCACGCCGAGGTATT
* * * *
54518768 TTTTTCAATTTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
1 TTTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
54518833 ACGTCGAGGTA--
64 ACGCCGAGGTATT
* * * *
54518844 TTTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCG
1 TTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
*
54518909 CACGCTGAGGTA--
63 CACGCCGAGGTATT
* *
54518921 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGAGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
54518985 GTCGAGGTA--
66 GCCGAGGTATT
* * * **
54518994 TTTTTCAATTTCTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
54519059 GTCGAGGTA--
66 GCCGAGGTATT
* * * *
54519068 TTTTTCAA-TTCTTGCTTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTG-GGCTCGGGT
1 TTTTTAAATTTC-TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
54519131 TGCACTCCGA
Statistics
Matches: 731, Mismatches: 68, Indels: 57
0.85 0.08 0.07
Matches are distributed among these distances:
73 67 0.09
74 82 0.11
75 95 0.13
76 119 0.16
77 57 0.08
78 172 0.24
79 86 0.12
80 8 0.01
81 41 0.06
82 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (76 bp):
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
GCCGAGGTATT
Found at i:54518630 original size:230 final size:224
Alignment explanation
Indices: 54518228--54519130 Score: 1054
Period size: 230 Copynumber: 3.9 Consensus size: 224
54518218 CAAGAAATAT
* * * *
54518228 TTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATG
1 TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
* *
54518293 CCGAGGTATTTTTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
66 CCGAGGTA----TTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
54518358 GCCTC-GGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATTAACTCATAATGC
127 GCCTCGGGTCACACGCCGAGGTATTT-TTTTA-ATTTCTGTTTTTCAAAAATCAACTCATATTGC
* *
54518422 AAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGAA
190 GAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGAA
* * *
54518457 TTTTCAATTTTTGTTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA
1 TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACA
*
54518522 TGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
64 TGCCGAGGTA--T-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
54518587 AGCCTCGGGTCACACGCCGAGGTATTCTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
126 AGCCTCGGGTCACACGCCGAGGTATT-TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
* *
54518652 GAGAGGTGAGTTGAGCCTC-GGACACATG-TCGAGGTATTTC
190 GAGAGGTGAGTTGAGCCTCGGGTCAC--GCT-GAGG-A---A
* * *
54518692 TTTTAAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTT---TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
* * *
54518757 ATGCTGAGGTATTTTTCAATTTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 ATGCCGAGGTATTTTTAAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * * *
54518822 AGCCTCGAGT--CACGTCGAGGTA-TTTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGC
126 AGCCTCGGGTCACACGCCGAGGTATTTTTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGC
* *
54518884 GAGAGGTGAGTTAAGCCTCGGGTCGCACGCTGAGGTA
190 GAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGAA
* * * * *
54518921 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGAGTCACG
1 TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
* * *
54518986 TCGAGGTATTTTTCAATTTCTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 CCGAGGTATTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** * * * *
54519051 CAAGT--CACGTCGAGGTA-TTTTTCAA-TTCTTGCTTTTCAAAAAAATCAACTCATATTGCTAG
131 CGGGTCACACGCCGAGGTATTTTTTTAATTTC-TGTTTTTC--AAAAATCAACTCATATTGCGAG
*
54519112 AGGTGAGTTG-GGCTCGGGT
193 AGGTGAGTTGAGCCTCGGGT
54519131 TGCACTCCGA
Statistics
Matches: 608, Mismatches: 42, Indels: 53
0.86 0.06 0.08
Matches are distributed among these distances:
223 2 0.00
224 76 0.12
225 31 0.05
226 68 0.11
229 83 0.14
230 104 0.17
231 56 0.09
232 40 0.07
233 34 0.06
234 2 0.00
235 61 0.10
236 11 0.02
238 40 0.07
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (224 bp):
TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
CCGAGGTATTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGGGTCACACGCCGAGGTATTTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCGGGTCACGCTGAGGAA
Found at i:54519366 original size:30 final size:30
Alignment explanation
Indices: 54519335--54519490 Score: 208
Period size: 30 Copynumber: 5.2 Consensus size: 30
54519325 ATTATTTTTG
* *
54519335 CATTTTGACCCCTAAACTTT-TCTAAAATTG
1 CATTTTAACCCCTAAACTTTCTC-AAAATTA
*
54519365 CATTTTAACCACTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
* * *
54519395 CATTTCAACCCCTAAAATTT-TTAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
**
54519424 CATTTTAACATCTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
54519454 CATTTTAACCCCTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
54519484 CACTTTT
1 CA-TTTT
54519491 GCCCCAAAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
29 24 0.22
30 79 0.72
31 6 0.06
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTCTCAAAATTA
Found at i:54519428 original size:59 final size:59
Alignment explanation
Indices: 54519342--54519490 Score: 219
Period size: 59 Copynumber: 2.5 Consensus size: 59
54519332 TTGCATTTTG
*
54519342 ACCCCTAAACTTTTCTAAAATTGCATTTTAACCA-CTAAACTTTCTCAAAATTACATTTCA
1 ACCCCTAAACTTTT-TAAAATTACATTTTAA-CATCTAAACTTTCTCAAAATTACATTTCA
* *
54519402 ACCCCTAAAATTTTTAAAATTACATTTTAACATCTAAACTTTCTCAAAATTACATTTTA
1 ACCCCTAAACTTTTTAAAATTACATTTTAACATCTAAACTTTCTCAAAATTACATTTCA
*
54519461 ACCCCTAAACTTTCTCAAAATTACACTTTT
1 ACCCCTAAACTTT-TTAAAATTACA-TTTT
54519491 GCCCCAAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
58 2 0.02
59 52 0.64
60 23 0.28
61 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (59 bp):
ACCCCTAAACTTTTTAAAATTACATTTTAACATCTAAACTTTCTCAAAATTACATTTCA
Found at i:54520320 original size:25 final size:25
Alignment explanation
Indices: 54520261--54520319 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
54520251 TCAGCCCAGC
*
54520261 AGAGAGAAAACAAAAAGAAAAAAAG
1 AGAGAAAAAACAAAAAGAAAAAAAG
*
54520286 AGAGAAAAAAGAAAAAGAAAAAAAG
1 AGAGAAAAAACAAAAAGAAAAAAAG
54520311 AG-GAAAAAA
1 AGAGAAAAAA
54520320 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (25 bp):
AGAGAAAAAACAAAAAGAAAAAAAG
Found at i:54520326 original size:25 final size:25
Alignment explanation
Indices: 54520261--54520330 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
54520251 TCAGCCCAGC
* *
54520261 AGAGAGAAAACAAAAAGAAAAAAAG
1 AGAGAAAAAAAAAAAAGAAAAAAAG
*
54520286 AGAGAAAAAAGAAAAAGAAAAAAAG
1 AGAGAAAAAAAAAAAAGAAAAAAAG
*
54520311 AG-GAAAAAAAATAAA-AAAAA
1 AGAGAAAAAAAAAAAAGAAAAA
54520331 TAAAAAGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.12
24 11 0.27
25 25 0.61
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (25 bp):
AGAGAAAAAAAAAAAAGAAAAAAAG
Found at i:54520499 original size:5 final size:5
Alignment explanation
Indices: 54520489--54520518 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
54520479 CATTTATATT
*
54520489 TTTAA TTTAA TTTAA TTTAA TTTAT TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
54520519 ATACTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:54520716 original size:20 final size:18
Alignment explanation
Indices: 54520674--54520739 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
54520664 AAATTATATT
54520674 TTTC-AAAATTTTTCGTG
1 TTTCAAAAATTTTTCGTG
54520691 TCTTCAAAAATTTTTCTTGTG
1 T-TTCAAAAATTTTTC--GTG
* * *
54520712 TTTCAAAAAATCTTCGCG
1 TTTCAAAAATTTTTCGTG
54520730 TTTTCAAAAA
1 -TTTCAAAAA
54520740 AATAAGGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 5 0.12
19 19 0.46
20 12 0.29
21 4 0.10
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTTTTCGTG
Found at i:54520989 original size:18 final size:18
Alignment explanation
Indices: 54520968--54521292 Score: 170
Period size: 17 Copynumber: 18.4 Consensus size: 18
54520958 AAAAATCTAT
*
54520968 TTTTCAAAAGTTTTCATG
1 TTTTCAAAAATTTTCATG
* *
54520986 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCATG
**
54521005 TTTT-AAAAATTTTCGCG
1 TTTTCAAAAATTTTCATG
*
54521022 TTTTCAAAAATTTTTATG
1 TTTTCAAAAATTTTCATG
** *
54521040 TTTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCATG
*
54521058 TTTTCAAAAATTTTGATG
1 TTTTCAAAAATTTTCATG
* *
54521076 -TTTCAAAAATTTCCGTG
1 TTTTCAAAAATTTTCATG
*
54521093 TTTT-AAAAA-TTTCTGTG
1 TTTTCAAAAATTTTC-ATG
*
54521110 TTTTCAAATATTTTC--G
1 TTTTCAAAAATTTTCATG
* ** *
54521126 TATTTAAAAAAAATTCGTG
1 T-TTTCAAAAATTTTCATG
* ** *
54521145 TTGT-AAAAATCCTCGTG
1 TTTTCAAAAATTTTCATG
* **
54521162 TTTTCAAAAATTCTGGTG
1 TTTTCAAAAATTTTCATG
*
54521180 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCATG
* *
54521197 TTTTCAAAAA-TTCCAAAG
1 TTTTCAAAAATTTTC-ATG
* * *
54521215 --ATCCAAAATTTTCGTG
1 TTTTCAAAAATTTTCATG
* *
54521231 TTTTCTAAAAATTTCCGTG
1 TTTTC-AAAAATTTTCATG
* *
54521250 -TTTCAAAAATTTTCTTTT
1 TTTTCAAAAATTTTC-ATG
* * *
54521268 TTTTCACAAATTTCCGTG
1 TTTTCAAAAATTTTCATG
54521286 TTTTCAA
1 TTTTCAA
54521293 CGACTCTAGT
Statistics
Matches: 236, Mismatches: 53, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
16 12 0.05
17 94 0.40
18 87 0.37
19 43 0.18
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTCAAAAATTTTCATG
Found at i:54521014 original size:17 final size:18
Alignment explanation
Indices: 54520968--54521375 Score: 206
Period size: 18 Copynumber: 23.1 Consensus size: 18
54520958 AAAAATCTAT
* * *
54520968 TTTTCAAAAGTTTTCATG
1 TTTTCAAAAATTCTCGTG
54520986 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTCTCGTG
* *
54521005 TTTT-AAAAATTTTCGCG
1 TTTTCAAAAATTCTCGTG
* **
54521022 TTTTCAAAAATTTTTATG
1 TTTTCAAAAATTCTCGTG
*
54521040 TTTTCAAAAATCCTCGTG
1 TTTTCAAAAATTCTCGTG
*
54521058 TTTTCAAAAATT-TTGATG
1 TTTTCAAAAATTCTCG-TG
54521076 -TTTCAAAAATT-TCCGTG
1 TTTTCAAAAATTCT-CGTG
54521093 TTTT-AAAAATT-TCTGTG
1 TTTTCAAAAATTCTC-GTG
* * *
54521110 TTTTCAAATATTTTCGTA
1 TTTTCAAAAATTCTCGTG
** *
54521128 TTTAAAAAAAAT-TCGTG
1 TTTTCAAAAATTCTCGTG
* *
54521145 TTGT-AAAAATCCTCGTG
1 TTTTCAAAAATTCTCGTG
*
54521162 TTTTCAAAAATTCTGGTG
1 TTTTCAAAAATTCTCGTG
*
54521180 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTCTCGTG
**
54521197 TTTTCAAAAATTC-CAAAG
1 TTTTCAAAAATTCTC-GTG
* * *
54521215 --ATCCAAAATTTTCGTG
1 TTTTCAAAAATTCTCGTG
54521231 TTTTCTAAAAATT-TCCGTG
1 TTTTC-AAAAATTCT-CGTG
* * *
54521250 -TTTCAAAAATTTTCTTTT
1 TTTTCAAAAATTCTC-GTG
*
54521268 TTTTCACAAATT-TCCGTG
1 TTTTCAAAAATTCT-CGTG
** * *
54521286 TTTTCAACGACTCTAGTG
1 TTTTCAAAAATTCTCGTG
* * * *
54521304 -TTTCACAAATTGTCATT
1 TTTTCAAAAATTCTCGTG
* ***
54521321 TTTTTAAAAAAAAT--TG
1 TTTTCAAAAATTCTCGTG
54521337 TATTTCGAAAAATTCTCGTG
1 T-TTTC-AAAAATTCTCGTG
*
54521357 -TTTCAAAAATTGTCGTG
1 TTTTCAAAAATTCTCGTG
54521374 TT
1 TT
54521376 AAAATTTTTT
Statistics
Matches: 292, Mismatches: 70, Indels: 56
0.70 0.17 0.13
Matches are distributed among these distances:
16 17 0.06
17 109 0.37
18 126 0.43
19 38 0.13
20 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCAAAAATTCTCGTG
Found at i:54521042 original size:35 final size:35
Alignment explanation
Indices: 54520968--54521289 Score: 224
Period size: 35 Copynumber: 9.1 Consensus size: 35
54520958 AAAAATCTAT
* * *
54520968 TTTTCAAAAGTTTTCATGTTTTCAAAAAATTCTCGTG
1 TTTT-AAAAATTTTCGTGTTTTC-AAAAATTTTCGTG
* **
54521005 TTTTAAAAATTTTCGCGTTTTCAAAAATTTTTATG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTG
**
54521040 TTTTCAAAAATCCTCGTGTTTTCAAAAATTTT-GATG
1 TTTT-AAAAATTTTCGTGTTTTCAAAAATTTTCG-TG
* *
54521076 TTTCAAAAATTTCCGTGTTTT-AAAAA-TTTCTGTG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTC-GTG
* * * **
54521110 TTTTCAAATATTTTCGT-ATTTAAAAAAAATTCGTG
1 TTTT-AAAAATTTTCGTGTTTTCAAAAATTTTCGTG
* ** * *
54521145 TTGTAAAAATCCTCGTGTTTTCAAAAATTCTGGTG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTG
* * **
54521180 TTTCAAAAATTTTCGTGTTTTCAAAAA-TTCCAAAG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTC-GTG
* ** *
54521215 -ATCCAAAATTTTCGTGTTTTCTAAAAATTTCCGTG
1 TTTTAAAAATTTTCGTGTTTTC-AAAAATTTTCGTG
* * * * *
54521250 TTTCAAAAATTTTCTTTTTTTTCACAAATTTCCGTG
1 TTTTAAAAATTTTC-GTGTTTTCAAAAATTTTCGTG
54521286 TTTT
1 TTTT
54521290 CAACGACTCT
Statistics
Matches: 224, Mismatches: 48, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
33 3 0.01
34 42 0.19
35 92 0.41
36 77 0.34
37 10 0.04
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTG
Found at i:54521243 original size:19 final size:19
Alignment explanation
Indices: 54521219--54521290 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
54521209 CCAAAGATCC
*
54521219 AAAATTTTCGTGTTTTCTA
1 AAAATTTCCGTGTTTTCTA
54521238 AAAATTTCCGTG-TTTC-A
1 AAAATTTCCGTGTTTTCTA
* * *
54521255 AAAATTTTC-TTTTTTTTCA
1 AAAATTTCCGTGTTTTCT-A
*
54521274 CAAATTTCCGTGTTTTC
1 AAAATTTCCGTGTTTTC
54521291 AACGACTCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 4 0.10
19 19 0.46
20 5 0.12
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.51
Consensus pattern (19 bp):
AAAATTTCCGTGTTTTCTA
Found at i:54521360 original size:18 final size:17
Alignment explanation
Indices: 54521339--54521434 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 17
54521329 AAAAATTGTA
54521339 TTTCGAAAAATTCTCGTG
1 TTTC-AAAAATTCTCGTG
*
54521357 TTTCAAAAATTGTCGTG
1 TTTCAAAAATTCTCGTG
* *
54521374 -TT-AAAATTTTTTTTTCGTG
1 TTTCAAAA----ATTCTCGTG
* *
54521393 TTTCTAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
54521410 TTTCAAAAATT-TCGTT
1 TTTCAAAAATTCTCGTG
*
54521426 TTTTAAAAA
1 TTTCAAAAA
54521435 AAAAATTTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
15 4 0.06
16 14 0.22
17 30 0.47
18 4 0.06
19 7 0.11
20 2 0.03
21 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:54521407 original size:17 final size:17
Alignment explanation
Indices: 54521385--54521433 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
54521375 TAAAATTTTT
54521385 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCTAAAA
54521402 TTTTCGTGTTTC-AAAA
1 TTTTCGTGTTTCTAAAA
* *
54521418 ATTTCGT-TTTTTAAAA
1 TTTTCGTGTTTCTAAAA
54521434 AAAAAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 3 0.10
16 14 0.48
17 12 0.41
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (17 bp):
TTTTCGTGTTTCTAAAA
Found at i:54522200 original size:14 final size:15
Alignment explanation
Indices: 54522178--54522254 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
54522168 CAATCAAACA
54522178 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
54522192 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
54522207 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
54522227 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
54522241 ACAGAAAA-CATTTT
1 CCAGAAAATCATTTT
54522255 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:54522219 original size:20 final size:20
Alignment explanation
Indices: 54522194--54522233 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
54522184 AATATTTTCC
*
54522194 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
54522214 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
54522234 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:54522239 original size:34 final size:35
Alignment explanation
Indices: 54522182--54522248 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
54522172 CAAACACCAG
*
54522182 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
54522217 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
54522249 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:54522255 original size:14 final size:14
Alignment explanation
Indices: 54522217--54522256 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
54522207 ACAGAAAAGT
*
54522217 AAAACATTTTCCAG
1 AAAACATTTTACAG
*
54522231 AAATCATTTTACAG
1 AAAACATTTTACAG
54522245 AAAACATTTTAC
1 AAAACATTTTAC
54522257 TGGCAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:54522541 original size:26 final size:26
Alignment explanation
Indices: 54522507--54522572 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
54522497 TATATTCGAT
*
54522507 TCGATTCGATTCGAATTCCATCTCAC
1 TCGACTCGATTCGAATTCCATCTCAC
54522533 TCGACTCGATTCGAATTCCATCTCAC
1 TCGACTCGATTCGAATTCCATCTCAC
54522559 TCGACTCGATTCGA
1 TCGACTCGATTCGA
54522573 GAAAACTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.32
Consensus pattern (26 bp):
TCGACTCGATTCGAATTCCATCTCAC
Found at i:54529668 original size:42 final size:42
Alignment explanation
Indices: 54529599--54529752 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
54529589 TGTTTTAGAA
* * * * *
54529599 CCACACGGGTAGAGGACAAGAGTGTGTGCTTAGGCTGTGTGAG
1 CCACACGGGCA-AGGACATGGGCGTGTGCTCAGGCTGTGTGAG
54529642 CCACACGGGCAAGGACATGGGCGTGTGCTCAGGCTGTGTGAG
1 CCACACGGGCAAGGACATGGGCGTGTGCTCAGGCTGTGTGAG
* * * *
54529684 CCACACGAGCAAGGACATGGGCGTGTGCCCATGCCGTGTGAG
1 CCACACGGGCAAGGACATGGGCGTGTGCTCAGGCTGTGTGAG
* * *
54529726 CCACATGGACAAGGACATGGGCATGTG
1 CCACACGGGCAAGGACATGGGCGTGTG
54529753 TCTAGGCCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
42 88 0.90
43 10 0.10
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (42 bp):
CCACACGGGCAAGGACATGGGCGTGTGCTCAGGCTGTGTGAG
Found at i:54530752 original size:8 final size:9
Alignment explanation
Indices: 54530728--54530753 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
54530718 ACATAAAACT
54530728 CTTAAAAAA
1 CTTAAAAAA
54530737 CTTAAAAAA
1 CTTAAAAAA
54530746 CTTAAAAA
1 CTTAAAAA
54530754 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (9 bp):
CTTAAAAAA
Found at i:54534058 original size:20 final size:20
Alignment explanation
Indices: 54534033--54534086 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
54534023 AAAATTTATG
*
54534033 AAACACGAGATTTTTTTTGA
1 AAACACGAGATTTTTTTTAA
**
54534053 AAACACGA-A-AATTTTTAA
1 AAACACGAGATTTTTTTTAA
54534071 AAACACGAGGATTTTT
1 AAACACGA-GATTTTT
54534087 GAGATACGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 14 0.54
19 1 0.04
20 9 0.35
21 2 0.08
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (20 bp):
AAACACGAGATTTTTTTTAA
Found at i:54534109 original size:35 final size:35
Alignment explanation
Indices: 54534046--54534302 Score: 207
Period size: 35 Copynumber: 7.3 Consensus size: 35
54534036 CACGAGATTT
* **
54534046 TTTTTGAAAACACGAAAATTTTTAAAAACACGAGGA
1 TTTTTG-AAACACGAAAAATTTTAAAAACACGAAAA
* * *
54534082 TTTTTGAGATACGAAAAATTTTGAAAACACGAAAA
1 TTTTTGAAACACGAAAAATTTTAAAAACACGAAAA
* * * *
54534117 TTTTTGAAA-ACCCAGAAATTTTTAAAACACGAGAAT
1 TTTTTGAAACA-CGAAAAATTTTAAAAACACGA-AAA
* *
54534153 TTTTTGAAACACCG--GAATTTTCAAAAACACGAAGA
1 TTTTTGAAACA-CGAAAAATTTT-AAAAACACGAAAA
* *
54534188 TTTTTGAAACACGAAAAATTTTGAAAACACGGAAA
1 TTTTTGAAACACGAAAAATTTTAAAAACACGAAAA
* * *
54534223 TTTTTGAAACATGGAAATTTTTAGAAAACACGAAAA
1 TTTTTGAAACACGAAAAATTTTA-AAAACACGAAAA
* * * ** **
54534259 ATTTTGAAAAATTG-AATTTTTTAAAAACACGGGAA
1 TTTTTGAAACA-CGAAAAATTTTAAAAACACGAAAA
54534294 TTTTTGAAA
1 TTTTTGAAA
54534303 ACATGAAATT
Statistics
Matches: 182, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
34 3 0.02
35 114 0.63
36 60 0.33
37 5 0.03
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTTTGAAACACGAAAAATTTTAAAAACACGAAAA
Found at i:54534141 original size:71 final size:70
Alignment explanation
Indices: 54534046--54534302 Score: 242
Period size: 71 Copynumber: 3.6 Consensus size: 70
54534036 CACGAGATTT
* * *
54534046 TTTTTGAAAACACGAAAATTTTTAAAAACACGAGGATTTTTGAGATACGAAAAATTTT-GAAAAC
1 TTTTTGAAAACACGAAAATTTTTAAAAACACG-GAATTTTTGAAACACG-AAAATTTTAGAAAAC
54534110 ACGAAAA
64 ACGAAAA
* *
54534117 TTTTTGAAAAC-CCAGAAATTTTT-AAAACACGAGAATTTTTTGAAACACCG-GAATTTTCA-AA
1 TTTTTGAAAACACGA-AAATTTTTAAAAACACG-GAA-TTTTTGAAACA-CGAAAATTTT-AGAA
*
54534178 AACACGAAGA
61 AACACGAAAA
* * * *
54534188 TTTTTG-AAACACGAAAAATTTTGAAAACACGGAAATTTTTGAAACATGGAAATTTTTAGAAAAC
1 TTTTTGAAAACACGAAAATTTTTAAAAACACGG-AATTTTTGAAACA-CGAAAATTTTAGAAAAC
54534252 ACGAAAA
64 ACGAAAA
* * *
54534259 ATTTTGAAAA-ATTG-AATTTTTTAAAAACACGGGAATTTTTGAAA
1 TTTTTGAAAACA-CGAAAATTTTTAAAAACAC-GGAATTTTTGAAA
54534303 ACATGAAATT
Statistics
Matches: 155, Mismatches: 18, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
70 44 0.28
71 103 0.66
72 8 0.05
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (70 bp):
TTTTTGAAAACACGAAAATTTTTAAAAACACGGAATTTTTGAAACACGAAAATTTTAGAAAACAC
GAAAA
Found at i:54534316 original size:18 final size:17
Alignment explanation
Indices: 54534046--54534315 Score: 201
Period size: 18 Copynumber: 15.3 Consensus size: 17
54534036 CACGAGATTT
54534046 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACG-AAA
* *
54534064 TTTTTAAAAACACGAGGA
1 TTTTTGAAAACACGA-AA
* *
54534082 TTTTTG-AGATACGAAAA
1 TTTTTGAAAACACG-AAA
*
54534099 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACG-AAA
*
54534117 TTTTTGAAAACCCAGAAA
1 TTTTTGAAAACAC-GAAA
54534135 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGA-AA
*
54534152 TTTTTTG-AAACACCGGAA
1 -TTTTTGAAAACA-CGAAA
**
54534170 TTTTCAAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
54534188 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACG-AAA
*
54534205 ATTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
54534223 TTTTTG-AAACATGGAAA
1 TTTTTGAAAACA-CGAAA
54534240 TTTTTAGAAAACACGAAAA
1 TTTTT-GAAAACACG-AAA
* * *
54534259 ATTTTGAAAA-ATTGAAT
1 TTTTTGAAAACA-CGAAA
* *
54534276 TTTTTAAAAACACGGGAA
1 TTTTTGAAAACAC-GAAA
*
54534294 TTTTTGAAAACATGAAA
1 TTTTTGAAAACACGAAA
54534311 TTTTT
1 TTTTT
54534316 TTAAACACCT
Statistics
Matches: 199, Mismatches: 33, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
16 2 0.01
17 73 0.37
18 108 0.54
19 16 0.08
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:54534333 original size:35 final size:35
Alignment explanation
Indices: 54534206--54534339 Score: 96
Period size: 35 Copynumber: 3.8 Consensus size: 35
54534196 ACACGAAAAA
* * * *
54534206 TTTTGAAAACA-CGGAAATTTTTGAAACATGGAAAT
1 TTTTAAAAACACCGG-AATTTTTGAAAAATTGAATT
* *
54534241 TTTTAGAAAACA-CGAAAAATTTTGAAAAATTGAATT
1 TTTTA-AAAACACCG-GAATTTTTGAAAAATTGAATT
*
54534277 TTTTAAAAACACGGGAATTTTTGAAAACA-TGAAATT
1 TTTTAAAAACACCGGAATTTTTGAAAA-ATTG-AATT
* * * *
54534313 TTTT-TAAACACCTGACTTTTTTAAAAA
1 TTTTAAAAACACCGGAATTTTTGAAAAA
54534340 GAAACAATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
34 1 0.01
35 40 0.50
36 39 0.49
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTTAAAAACACCGGAATTTTTGAAAAATTGAATT
Found at i:54534484 original size:21 final size:20
Alignment explanation
Indices: 54534458--54534498 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
54534448 GTTACCTTAA
54534458 TTTTGAAAACACGAGAAATTT
1 TTTTGAAAACACGA-AAATTT
*
54534479 TTTTGAAGACACGAAAATTT
1 TTTTGAAAACACGAAAATTT
54534499 GGAAACCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
TTTTGAAAACACGAAAATTT
Found at i:54534883 original size:5 final size:5
Alignment explanation
Indices: 54534859--54534909 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
54534849 ACAAATTGAA
* *
54534859 TTTT- TTTTC TCTTC TTTT- TTCTTT TTTTC TTTTC TTTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC -TTTTC TTTTC TTTTC
54534909 T
1 T
54534910 GCTGGGCTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
4 6 0.15
5 27 0.68
6 7 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:54534885 original size:19 final size:19
Alignment explanation
Indices: 54534861--54534902 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
54534851 AAATTGAATT
54534861 TTTTTTCTCTTCT-TTTTTC
1 TTTTTT-TCTTCTCTTTTTC
*
54534880 TTTTTTTCTTTTCTTTTTC
1 TTTTTTTCTTCTCTTTTTC
54534899 TTTT
1 TTTT
54534903 CTTTTCTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTTCTTCTCTTTTTC
Found at i:54534885 original size:20 final size:19
Alignment explanation
Indices: 54534860--54534902 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
54534850 CAAATTGAAT
54534860 TTTTTTTCTCTTCTTTTTTC
1 TTTTTTTCTCTTC-TTTTTC
*
54534880 TTTTTTTCTTTTCTTTTTC
1 TTTTTTTCTCTTCTTTTTC
54534899 TTTT
1 TTTT
54534903 CTTTTCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTCTTCTTTTTC
Found at i:54534896 original size:11 final size:11
Alignment explanation
Indices: 54534862--54534907 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
54534852 AATTGAATTT
54534862 TTTTTCTCTTC
1 TTTTTCTCTTC
54534873 TTTTT-TCTT-
1 TTTTTCTCTTC
*
54534882 TTTTTCTTTTC
1 TTTTTCTCTTC
*
54534893 TTTTTCTTTTC
1 TTTTTCTCTTC
54534904 TTTT
1 TTTT
54534908 CTGCTGGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 5 0.16
10 7 0.22
11 20 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTCTTC
Found at i:54534961 original size:26 final size:25
Alignment explanation
Indices: 54534908--54534966 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
54534898 CTTTTCTTTT
*
54534908 CTGCTGGGCTGCCTGCTGTGGGCTG
1 CTGCTGGGCTGCCTGCTGTGGGCCG
* * *
54534933 CTGTTGGGCTGCGCTGGTTTGGGCCG
1 CTGCTGGGCTGC-CTGCTGTGGGCCG
54534959 CTGCTGGG
1 CTGCTGGG
54534967 TAGGCTGGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.00, C:0.25, G:0.46, T:0.29
Consensus pattern (25 bp):
CTGCTGGGCTGCCTGCTGTGGGCCG
Found at i:54535126 original size:8 final size:8
Alignment explanation
Indices: 54535113--54535144 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
54535103 ATTATTTTTC
54535113 TTTTTCTT
1 TTTTTCTT
54535121 TTTTTCTT
1 TTTTTCTT
*
54535129 TTTTTCTC
1 TTTTTCTT
54535137 TTTTTCTT
1 TTTTTCTT
54535145 CCTTCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:54535150 original size:15 final size:15
Alignment explanation
Indices: 54535107--54535183 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
54535097 TGCTTTATTA
*
54535107 TTTTTCTTTTTCTT-
1 TTTTTCTTCTTCTTC
*
54535121 TTTTTCTT-TTTTTC
1 TTTTTCTTCTTCTTC
*
54535135 TCTTT-TTCTTCCTTC
1 TTTTTCTTCTT-CTTC
54535150 TTCTTTCTTCTTCTTC
1 TT-TTTCTTCTTCTTC
*
54535166 TTGTTCTTCTTCTTC
1 TTTTTCTTCTTCTTC
54535181 TTT
1 TTT
54535184 ACGCATTGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.12
14 14 0.27
15 18 0.35
16 9 0.17
17 5 0.10
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTCTTCTTCTTC
Found at i:54535152 original size:3 final size:3
Alignment explanation
Indices: 54535110--54535182 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
54535100 TTTATTATTT
* * * *
54535110 TTC TTT TTC TT- TTT TTC TT- TTT TTC -TC TTT TTC TTCC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC
*
54535153 TTTC TTC TTC TTC TTG TTC TTC TTC TTC TT
1 -TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
54535183 TACGCATTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 6 0.11
3 45 0.79
4 6 0.11
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:54535172 original size:9 final size:9
Alignment explanation
Indices: 54535110--54535182 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
54535100 TTTATTATTT
54535110 TTCTTTTTC
1 TTCTTTTTC
54535119 TT-TTTTTC
1 TTCTTTTTC
54535127 TT-TTTTTC
1 TTCTTTTTC
54535135 -TCTTTTTC
1 TTCTTTTTC
*
54535143 TTCCTTCTTC
1 TT-CTTTTTC
*
54535153 TTTCTTCTTC
1 -TTCTTTTTC
*
54535163 TTCTTGTTC
1 TTCTTTTTC
*
54535172 TTCTTCTTC
1 TTCTTTTTC
54535181 TT
1 TT
54535183 TACGCATTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
7 1 0.02
8 20 0.35
9 21 0.37
10 13 0.23
11 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:54535288 original size:16 final size:16
Alignment explanation
Indices: 54535267--54535298 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54535257 TCCTTTCTTC
*
54535267 CTCTCCTTTCTCTTTT
1 CTCTCCTATCTCTTTT
54535283 CTCTCCTATCTCTTTT
1 CTCTCCTATCTCTTTT
54535299 TTTCGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (16 bp):
CTCTCCTATCTCTTTT
Found at i:54535602 original size:29 final size:28
Alignment explanation
Indices: 54535554--54535660 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
54535544 TTTGAGAAAG
**
54535554 TTTAGGGGTCAAAACATAATTTCAAAAAT
1 TTTAGGGGT-AAAATGTAATTTCAAAAAT
* * * *
54535583 TTTATGGATCAAAATGTAATTTTATGAAA-
1 TTTAGGGGT-AAAATGTAATTTCA-AAAAT
* *
54535612 TTTAGGGGTTAAATGCAATTTCAAAAAT
1 TTTAGGGGTAAAATGTAATTTCAAAAAT
54535640 TTTAGGGGTTAAAATGTAATT
1 TTTAGGGG-TAAAATGTAATT
54535661 CTTTATTTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
27 3 0.05
28 19 0.31
29 36 0.59
30 3 0.05
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (28 bp):
TTTAGGGGTAAAATGTAATTTCAAAAAT
Found at i:54535632 original size:28 final size:28
Alignment explanation
Indices: 54535571--54535652 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
54535561 GTCAAAACAT
* * * *
54535571 AATTTCAAAAATTTTATGGATCAAAATGT
1 AATTTCAAAAATTTTAGGGGT-TAAATGC
* *
54535600 AATTTTATGAAA-TTTAGGGGTTAAATGC
1 AATTTCA-AAAATTTTAGGGGTTAAATGC
54535628 AATTTCAAAAATTTTAGGGGTTAAA
1 AATTTCAAAAATTTTAGGGGTTAAA
54535653 ATGTAATTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.07
28 24 0.56
29 13 0.30
30 3 0.07
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (28 bp):
AATTTCAAAAATTTTAGGGGTTAAATGC
Found at i:54537990 original size:9 final size:9
Alignment explanation
Indices: 54537946--54538051 Score: 65
Period size: 9 Copynumber: 11.3 Consensus size: 9
54537936 GTTTTTATTA
54537946 TTATAAA-T
1 TTATAAATT
*
54537954 TTATAAGTT
1 TTATAAATT
*
54537963 TATATCAATT
1 T-TATAAATT
*
54537973 ATA-ATAATT
1 TTATA-AATT
54537982 TTATAAATT
1 TTATAAATT
54537991 TTATAAATT
1 TTATAAATT
* *
54538000 TTATGATTT
1 TTATAAATT
54538009 TTATAGAAATT
1 TTAT--AAATT
* *
54538020 TAATATATTT
1 TTATA-AATT
54538030 TTATAAAATT
1 TTAT-AAATT
54538040 TTA-AATATT
1 TTATAA-ATT
54538049 TTA
1 TTA
54538052 GATATGTTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
8 8 0.11
9 41 0.55
10 19 0.25
11 7 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (9 bp):
TTATAAATT
Found at i:54537994 original size:20 final size:19
Alignment explanation
Indices: 54537971--54538051 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
54537961 TTTATATCAA
54537971 TTATAATAATTTTATAAATT
1 TTATAA-AATTTTATAAATT
* *
54537991 TTAT-AAATTTTATGATTT
1 TTATAAAATTTTATAAATT
* *
54538009 TTATAGAAATTTAATATATTT
1 TTATA-AAATTTTATA-AATT
54538030 TTATAAAATTTTA-AATATT
1 TTATAAAATTTTATAA-ATT
54538049 TTA
1 TTA
54538052 GATATGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 16 0.31
19 7 0.14
20 19 0.37
21 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTATAAAATTTTATAAATT
Found at i:54538003 original size:29 final size:30
Alignment explanation
Indices: 54537971--54538051 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 30
54537961 TTTATATCAA
54537971 TTATAATAATTTTATAAATTTTATA-AATT
1 TTATAATAATTTTATAAATTTTATATAATT
* * *
54538000 TTATGAT--TTTTATAGAAATTTAATATATTT
1 TTATAATAATTTTAT--AAATTTTATATAATT
54538030 TTATAA-AATTTTA-AATATTTTA
1 TTATAATAATTTTATAA-ATTTTA
54538052 GATATGTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
27 6 0.15
28 2 0.05
29 20 0.49
30 8 0.20
31 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TTATAATAATTTTATAAATTTTATATAATT
Found at i:54547687 original size:4 final size:4
Alignment explanation
Indices: 54547687--54547737 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
54547677 CATATATATA
* * *
54547687 TATG TATG TTTG TATG TATG TATG TATA TATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
54547735 TAT
1 TAT
54547738 ATTGTGTGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:54549572 original size:23 final size:22
Alignment explanation
Indices: 54549520--54549583 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
54549510 ATAAATATAT
* *
54549520 AATAAAATTCAAAAAAATATTAT
1 AATAAAATT-AAAAAATTATTAA
* *
54549543 CACAAAATTATAAAAATTATTAA
1 AATAAAATTA-AAAAATTATTAA
54549566 AATAAAATTTAGAAAAAT
1 AATAAAA-TTA-AAAAAT
54549584 ATGGTAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.03
23 22 0.69
24 9 0.28
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAAATTAAAAAATTATTAA
Found at i:54549714 original size:20 final size:21
Alignment explanation
Indices: 54549691--54549734 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
54549681 AATTTTTTTT
*
54549691 AAAATTGA-TTAAAATTTGT-A
1 AAAATT-ATTTAAAAATTGTGA
54549711 AAAATTATTTAAAAATTGTGA
1 AAAATTATTTAAAAATTGTGA
54549732 AAA
1 AAA
54549735 CTATAACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 16 0.76
21 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAATTATTTAAAAATTGTGA
Found at i:54553953 original size:120 final size:120
Alignment explanation
Indices: 54553796--54554422 Score: 1069
Period size: 120 Copynumber: 5.2 Consensus size: 120
54553786 TATATTTAGA
* * * * *
54553796 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGT
*
54553861 AAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
* * * *
54553917 AAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATAATTTTAGT
1 AAAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTCAGT
* *
54553981 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
*
54554037 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
* *
54554102 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
54554157 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
54554222 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
54554277 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
*
54554342 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
54554397 AAAATATATTTAATAATAATTATGTT
1 AAAATATATTTAATAATAATTATGTT
54554423 TAAATATGAT
Statistics
Matches: 488, Mismatches: 15, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
119 5 0.01
120 477 0.98
121 6 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATCATATATTTTAATT
Found at i:54554399 original size:18 final size:17
Alignment explanation
Indices: 54554371--54554405 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54554361 ATTATTAAGA
*
54554371 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
54554388 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
54554406 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.