Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 20
Found at i:2966718 original size:76 final size:77
Alignment explanation
Indices: 2966561--2966711 Score: 215
Period size: 76 Copynumber: 2.0 Consensus size: 77
2966551 TATTTAAACA
* *
2966561 TTATATTT-TTTT--GTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAACTTTTAGGATAT
1 TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAACATTTAGAATAT
*
2966623 TATTTTTATATT
66 TATTATTATATT
**
2966635 TTATATTTGTTTTAGGTATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATAT
1 TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAACATTTAGAATAT
2966699 TA-TATTAT-TT
66 TATTATTATATT
2966709 TTA
1 TTA
2966712 GGTATTTTAG
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
74 13 0.19
75 9 0.13
76 28 0.41
77 19 0.28
ACGTcount: A:0.28, C:0.01, G:0.11, T:0.60
Consensus pattern (77 bp):
TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAACATTTAGAATAT
TATTATTATATT
Found at i:2966773 original size:63 final size:63
Alignment explanation
Indices: 2966635--2966755 Score: 201
Period size: 63 Copynumber: 1.9 Consensus size: 63
2966625 TTTTTATATT
2966635 TTATATT-TGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATA
1 TTATATTAT-TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATA
*
2966698 TTATATTATTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTATTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTA
2966756 AGACGTTTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
62 5 0.09
63 49 0.89
64 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (63 bp):
TTATATTATTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATA
Found at i:2967357 original size:17 final size:17
Alignment explanation
Indices: 2967332--2967384 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2967322 CTTTATCTCA
*
2967332 ATTTGTTTTATTTATTT
1 ATTTCTTTTATTTATTT
*
2967349 ATTTCTTTTATTTAATT
1 ATTTCTTTTATTTATTT
* *
2967366 CTTATCTTTTATTTTTTT
1 ATT-TCTTTTATTTATTT
2967384 A
1 A
2967385 AACAACTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTATTTATTT
Found at i:2970931 original size:58 final size:58
Alignment explanation
Indices: 2970852--2971125 Score: 365
Period size: 58 Copynumber: 4.7 Consensus size: 58
2970842 GAAGGAAATG
* * *
2970852 AAATAAATTCGACAATTTATTTTCCTTACAAAGTTAAAATCATTTTAGATTTCCAAGA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTTCCAAGA
* * * *
2970910 AAATAAATTCAACAATCTATTTCCCTTACAAAGTTAGAATTATTTAAGATTTTCAAGA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTTCCAAGA
* *
2970968 AAATAAATTCAACAATTTATTTTCCTTACGAAA-TTATAATCATTTAAGATTAT-CAAGG
1 AAATAAATTCAACAATTTATTTTCCTTAC-AAAGTTAGAATCATTTAAGATT-TCCAAGA
* * * * *
2971026 AAATAAATTCAACAATTTAATTTCGTTACAAAGTTGGAATCATTTAAGA-TTCTTAAGG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTTC-CAAGA
*
2971084 AAATAAATTCAACAATTTATTTTCCTTACGAAGTTAGAATCA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCA
2971126 ACACAAGATT
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
56 1 0.01
57 4 0.02
58 181 0.95
59 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (58 bp):
AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTTCCAAGA
Found at i:2974205 original size:123 final size:123
Alignment explanation
Indices: 2974050--2974470 Score: 641
Period size: 123 Copynumber: 3.4 Consensus size: 123
2974040 CAGTCAATGG
* * * *
2974050 ATCAATATTTCCAGAAGGAGATCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
2974115 ATCTGAAGAACTTATTCAACTTTATGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
* *
2974173 ATCAACATTTCTAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* ** * * * *
2974238 ATCTGAAGAACTTATTTAACTTTTTTATCGACTCTATCGCAAAATGAGATAGAGCAAC
66 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
* *
2974296 ATAAACATTTCCAAAAGGAGTTCGTAAT---AAGAACTCATCTGAAGATGAAGAAGAAGTTCATA
1 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
2974358 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATTACAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
* * *
2974416 ATCAACATTTCCAGAAGGAGTTTGTAATAAGAAGAACTCATCTGAAGAAGAAGAA
1 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAA
2974471 CTCATCTGAA
Statistics
Matches: 265, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
120 108 0.41
123 157 0.59
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (123 bp):
ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
Found at i:2974488 original size:142 final size:142
Alignment explanation
Indices: 2974324--2974605 Score: 492
Period size: 142 Copynumber: 2.0 Consensus size: 142
2974314 AGTTCGTAAT
* * *
2974324 AAGAACTCATCTGAAGATGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCTCGA
1 AAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGA
* * * *
2974389 CTCTATTACAGAAGGAGATAGAGCAGCATCAACATTTCCAGAAGGAGTTTGTAATAAGAAGAACT
66 CTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACT
2974454 CATCTGAAGAAG
131 CATCTGAAGAAG
2974466 AAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGA
1 AAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGA
*
2974531 CTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACT
66 CTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACT
2974596 CATCTGAAGA
131 CATCTGAAGA
2974606 GAAAGAGGAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (142 bp):
AAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGA
CTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACT
CATCTGAAGAAG
Found at i:2974492 original size:22 final size:19
Alignment explanation
Indices: 2974444--2974489 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2974434 AGTTTGTAAT
2974444 AAGAAGAACTCATCTGAAG
1 AAGAAGAACTCATCTGAAG
2974463 AAGAAGAACTCATCTGAAG
1 AAGAAGAACTCATCTGAAG
*
2974482 AGGAAGAA
1 AAGAAGAA
2974490 GAAGTCCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (19 bp):
AAGAAGAACTCATCTGAAG
Found at i:2974604 original size:123 final size:123
Alignment explanation
Indices: 2974463--2975262 Score: 1102
Period size: 123 Copynumber: 6.5 Consensus size: 123
2974453 TCATCTGAAG
* *
2974463 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* *
2974528 CGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGGAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGTAAT
* *
2974586 AAGAAGAACTCATCTGAAGAGAAAGAGGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* * *
2974651 CGACTCTATCACAGAATGAGATAGAGAAACATCAACATTTCCATAAGGAGTTCA-TAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTT-AGTAAT
* * * *
2974709 AAGAAGAACTCATCTGAAAAGGAAGAATAACTTCATAATCTGAAGAACTTATTCAACTTTTTTCT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* * * *
2974774 CGACTCTATCGCAGAAGGAGATAGAGCAGCATCAACGTTTCCAGAAGGAGTTCGTAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGTAAT
* *
2974832 AAGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* * *
2974897 CGACTCTATTACAGAAGGAGATAAAG-AAGCATCAACATTTCCAGAAGGAGTTCGTAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAA-CATCAACATTTCCAGAAGGAGTTAGTAAT
* * * *
2974955 AAGAATAACTCATCAGAAGAGGAAGAACAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* * * ** *
2975020 TGATTCTATCACAGAAAGAGATAGAGCAGGATCAAAATTTCCAGAAGGAGTTCA-TAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTT-AGTAAT
* ** * *
2975078 AAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATAATCTGATGAACTTATTCAACCTTTTGCT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
* ** * * ** *
2975143 CGATTCTATTGCAGAAGGAGATAGAACAGCATTTACATTTCCAGAAGGAGTTCGTAAT
66 CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGTAAT
** * *
2975201 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAATCTTTT
1 AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAA-CTTTT
2975263 GATAGATTCC
Statistics
Matches: 598, Mismatches: 72, Indels: 13
0.88 0.11 0.02
Matches are distributed among these distances:
122 1 0.00
123 591 0.99
124 6 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (123 bp):
AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCT
CGACTCTATCACAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAGTTAGTAAT
Found at i:2974897 original size:246 final size:246
Alignment explanation
Indices: 2974050--2975262 Score: 1540
Period size: 246 Copynumber: 4.9 Consensus size: 246
2974040 CAGTCAATGG
* * *
2974050 ATCAATATTTCCAGAAGGAGATCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
2974115 ATCTGAAGAACTTATTCAA-CTTTATGCTCGACTCTATCACAGAAGGAGATAGAGCAGCATCAAC
66 ATCTGAAGAACTTATTCAACCTTT-TGCTCGACTCTATTACAGAAGGAGATAGAGAAGCATCAAC
* * *
2974179 ATTTCTAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
130 ATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
* * * *
2974244 AGAACTTATTTAACTTTTTTATCGACTCTATCGCAAAATGAGATAGAGCAAC
195 AGAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAAC
* * *
2974296 ATAAACATTTCCAAAAGGAGTTCGTAAT---AAGAACTCATCTGAAGATGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
2974358 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATTACAGAAGGAGATAGAGCAGCATCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAGAGAAGCATCAACA
* * ** * **
2974423 TTTCCAGAAGGAGTTTGTAATAAGAAGAACTCATCTGAAGAAGAAGAACTCA-TCTGA-AGAGGA
131 TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAA-GAAGT-TCATA-A-TC
* * *
2974486 AGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGACTCTATCGCAGAAGGAGATA
192 TGAAGAA---C-TTAT-T------C------AACTTTTTTCTCGACTCTATCGCAGAAGGAGATA
2974551 GAGCAAC
240 GAGCAAC
* * * *
2974558 ATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACTCATCTGAAGAGAAAGAGGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
2974623 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAATGAGATAGAGAAACATCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAGAGAAGCATCAACA
* * * * *
2974688 TTTCCATAAGGAGTTCATAATAAGAAGAACTCATCTGAAAAGGAAGAATAACTTCATAATCTGAA
131 TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
*
2974753 GAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
196 GAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAAC
* *
2974804 ATCAACGTTTCCAGAAGGAGTTCGTAATAAGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
2974869 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAAAGAAGCATCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAGAGAAGCATCAACA
* * *
2974934 TTTCCAGAAGGAGTTCGTAATAAGAATAACTCATCAGAAGAGGAAGAACAAGTTCATAATCTGAA
131 TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
* * * * * * **
2974999 GAACTTATTCAACCTTTTGCTTGATTCTATCACAGAAAGAGATAGAGCAGG
196 GAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAAC
* * * **
2975050 ATCAAAATTTCCAGAAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * **
2975115 ATCTGATGAACTTATTCAACCTTTTGCTCGATTCTATTGCAGAAGGAGATAGA-ACAGCATTTAC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAGAGA-AGCATCAAC
**
2975179 ATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGA
130 ATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
* *
2975244 AGAGCTTGTTCAATCTTTT
195 AGAACTTATTCAA-CTTTT
2975263 GATAGATTCC
Statistics
Matches: 843, Mismatches: 95, Indels: 57
0.85 0.10 0.06
Matches are distributed among these distances:
243 136 0.16
244 7 0.01
245 7 0.01
246 469 0.56
247 4 0.00
248 1 0.00
249 3 0.00
250 1 0.00
252 1 0.00
258 1 0.00
259 3 0.00
260 1 0.00
262 61 0.07
263 6 0.01
264 5 0.01
265 137 0.16
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (246 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAGAGAAGCATCAACA
TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
GAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAAC
Found at i:2975159 original size:369 final size:369
Alignment explanation
Indices: 2974050--2975263 Score: 1643
Period size: 369 Copynumber: 3.2 Consensus size: 369
2974040 CAGTCAATGG
* * *
2974050 ATCAATATTTCCAGAAGGAGATCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
2974115 ATCTGAAGAACTTATTCAA-CTTTATGCTCGACTCTATCACAGAAGGAGATAGAGCAGCATCAAC
66 ATCTGAAGAACTTATTCAACCTTT-TGCTCGACTCTATCACAGAAGGAGATAGAGAAGCATCAAC
* * *
2974179 ATTTCTAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
130 ATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
* ** *
2974244 AGAACTTATTTAACTTTTTTATCGACTCTATCGCA-AAATGAGATAGAGCAACAT-AAACATTTC
195 AGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAA-GAGATAGAGCAACATCAAA-ATTTC
* **
2974307 CAAAAGGAGTTCGTAAT---AAGAACTCATCTGAAGATGAAGAAGAAGTTCATAATCTGAAGAAC
258 CAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATAATCTGAAGAAC
*
2974369 TTATTCAACTTTTTGCTCGACTCTATTACAGAAGGAGATAGAGCAGC
323 TTATTCAACTTTTTGCTCGACTCTATTGCAGAAGGAGATAGAGCAGC
*
2974416 ATCAACATTTCCAGAAGGAGTTTGTAATAAGAAGAACTCATCTGAAGAAGAAGAACTCATCTGAA
1 ATCAACATTTCCAGAAGGAGTTCG---T-------A---A--T----AAGAAGAACTCATCTGAA
* * * *
2974481 GAGGAAGAAGAAGTCCATAATCTGAAGAACTTATTCAACTTTTTACTCGACTCTATCGCAGAAGG
47 GAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGG
* * *
2974546 AGATAGAGCAA-CATCAACATTTCCAGAAGGAGTTAGGAATAAGAAGAACTCATCTGAAGAGAAA
112 AGATAGAG-AAGCATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAA
* *
2974610 GAGGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAATGAGATAG
176 GAAGAAGTTCATAATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAAGAGATAG
* * * * * *
2974675 AGAAACATCAACATTTCCATAAGGAGTTCATAATAAGAAGAACTCATCTGAAAAGGAAGAA-TAA
241 AGCAACATCAAAATTTCCAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAA
* *
2974739 CTTCATAATCTGAAGAACTTATTCAACTTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
306 C-TCATAATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATTGCAGAAGGAGATAGAGCAGC
* *
2974804 ATCAACGTTTCCAGAAGGAGTTCGTAATAAGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
2974869 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTACAGAAGGAGATAAAGAAGCATCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGAGAAGCATCAACA
* * *
2974934 TTTCCAGAAGGAGTTCGTAATAAGAATAACTCATCAGAAGAGGAAGAACAAGTTCATAATCTGAA
131 TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
* * * ** *
2974999 GAACTTATTCAACCTTTTGCTTGATTCTATCACAGAAAGAGATAGAGCAGGATCAAAATTTCCAG
196 GAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAAGAGATAGAGCAACATCAAAATTTCCAA
*
2975064 AAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATAATCTGATGAACTTA
261 AAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATAATCTGAAGAACTTA
* * *
2975129 TTCAACCTTTTGCTCGATTCTATTGCAGAAGGAGATAGAACAGC
326 TTCAACTTTTTGCTCGACTCTATTGCAGAAGGAGATAGAGCAGC
**
2975173 ATTTACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * *
2975238 ATAAGAAGAGCTTGTTCAATCTTTTG
66 ATCTGAAGAACTTATTCAACCTTTTG
2975264 ATAGATTCCA
Statistics
Matches: 743, Mismatches: 76, Indels: 55
0.85 0.09 0.06
Matches are distributed among these distances:
366 21 0.03
368 2 0.00
369 385 0.52
370 3 0.00
373 1 0.00
375 1 0.00
376 1 0.00
378 1 0.00
379 1 0.00
381 1 0.00
385 213 0.29
386 8 0.01
387 1 0.00
388 104 0.14
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (369 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGAGAAGCATCAACA
TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
GAACTTATTCAACTTTTTGCTCGACTCTATCACAGAAAGAGATAGAGCAACATCAAAATTTCCAA
AAGGAGTTCATAATAAGAAGAACTCATCTGAAGATGAAGAAGAAACTCATAATCTGAAGAACTTA
TTCAACTTTTTGCTCGACTCTATTGCAGAAGGAGATAGAGCAGC
Found at i:2975632 original size:3 final size:3
Alignment explanation
Indices: 2975617--2975695 Score: 70
Period size: 3 Copynumber: 26.7 Consensus size: 3
2975607 CCGTCATTCG
* * * * *
2975617 TAT TAT TAA TAT TAT TAG TAT T-T TAT CAA TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
2975664 AAT TAA TAT TAT TAA TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2975696 CGGGCTATAA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:2975647 original size:20 final size:20
Alignment explanation
Indices: 2975619--2975658 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2975609 GTCATTCGTA
*
2975619 TTATTAATATTATTAGTATT
1 TTATCAATATTATTAGTATT
*
2975639 TTATCAATATTATTATTATT
1 TTATCAATATTATTAGTATT
2975659 ATTAAAATTA
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:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATCAATATTATTAGTATT
Found at i:2977054 original size:30 final size:30
Alignment explanation
Indices: 2977006--2977064 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2976996 AGGATCTTTA
*
2977006 ATTTTGATATTTTACA-TTTTAATCCATAAT
1 ATTTTAATATTTTACATTTTTAA-CCATAAT
2977036 ATTTTAATAATTTT-CATTTTTAACCATAA
1 ATTTTAAT-ATTTTACATTTTTAACCATAA
2977065 GTTTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTTAATATTTTACATTTTTAACCATAAT
Found at i:2978680 original size:22 final size:22
Alignment explanation
Indices: 2978633--2978680 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
2978623 AATAAGAAAT
* *
2978633 TAAAATTTAATTATAATTCTAT
1 TAAAATTAAATTATAATTCTAA
*
2978655 TAAAATTAAATT-TAGATTTTAA
1 TAAAATTAAATTATA-ATTCTAA
2978677 TAAA
1 TAAA
2978681 TGAATAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAAATTAAATTATAATTCTAA
Found at i:2979516 original size:6 final size:6
Alignment explanation
Indices: 2979483--2979515 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2979473 GACACGTATT
*
2979483 ACCACG ACCACG ACCACG ACCACG ACCCCG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2979516 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.55, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2980160 original size:19 final size:19
Alignment explanation
Indices: 2980095--2980163 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
2980085 CTTAAGAAAC
2980095 AAAT-GCAACGAACTTGGAA
1 AAATCGCAACGAACTTGG-A
2980114 TAAATCGCAACGCGAACTTGGA
1 -AAATCGCAA--CGAACTTGGA
** *
2980136 CTATCGCAACGAATTTGGA
1 AAATCGCAACGAACTTGGA
2980155 AAATCGCAA
1 AAATCGCAA
2980164 TGCAAACTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
19 16 0.39
20 4 0.10
21 11 0.27
22 1 0.02
23 9 0.22
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGAACTTGGA
Found at i:2980172 original size:40 final size:42
Alignment explanation
Indices: 2980099--2980184 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 42
2980089 AGAAACAAAT
* *
2980099 GCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATC
1 GCAACGAACTTGGAATAAATCGCAACGCAAACTTAGACTATC
* *
2980141 GCAACGAATTTGG-A-AAATCGCAATGCAAACTTAGACTATC
1 GCAACGAACTTGGAATAAATCGCAACGCAAACTTAGACTATC
2980181 GCAA
1 GCAA
2980185 TGTGAATATG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 27 0.68
41 1 0.03
42 12 0.30
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (42 bp):
GCAACGAACTTGGAATAAATCGCAACGCAAACTTAGACTATC
Found at i:2987096 original size:90 final size:89
Alignment explanation
Indices: 2986915--2987088 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
2986905 TCCATAATAT
*
2986915 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGATTAG
* *
2986980 GGTAACTTCGATATAAGAGGATTA
66 GGTAACTTAGATATAAAAGGATTA
*
2987004 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGATTA
*
2987068 GGGTAACTTAGCTATAAAAGG
65 GGGTAACTTAGATATAAAAGG
2987089 GTGTATTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 39 0.49
90 40 0.51
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTAATATGATTAG
GGTAACTTAGATATAAAAGGATTA
Found at i:2988359 original size:18 final size:19
Alignment explanation
Indices: 2988316--2988364 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2988306 CTCTTCTGGG
*
2988316 GAGTATCGATGCTCTGCCAT
1 GAGTATCGATACTCT-CCAT
*
2988336 GGGTATCGATACTCT-CAT
1 GAGTATCGATACTCTCCAT
2988354 GAGTATCGATA
1 GAGTATCGATA
2988365 GCAAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 13 0.50
20 13 0.50
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (19 bp):
GAGTATCGATACTCTCCAT
Found at i:2999216 original size:29 final size:28
Alignment explanation
Indices: 2999165--2999220 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
2999155 CTAACTGTTG
*
2999165 AAAATTACACTTTAGTTCCTGAACTTTTT
1 AAAATTACACTTTAGGTCCTGAA-TTTTT
*
2999194 AAAATTACCCTTT-GGTCCTTGAATTTT
1 AAAATTACACTTTAGGTCC-TGAATTTT
2999221 CCAAACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.45
Consensus pattern (28 bp):
AAAATTACACTTTAGGTCCTGAATTTTT
Found at i:3002611 original size:14 final size:13
Alignment explanation
Indices: 3002594--3002626 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
3002584 GTGCCCACTG
3002594 TTATTTTTTTATTA
1 TTATTTTTTT-TTA
3002608 TTATTTTTTTTTA
1 TTATTTTTTTTTA
3002621 TT-TTTT
1 TTATTTT
3002627 AACAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTTTA
Found at i:3003596 original size:39 final size:39
Alignment explanation
Indices: 3003553--3003627 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
3003543 TTTATAAAAA
*
3003553 CCATGATAAACACTATCATACATAATAGTCATATCAAAG
1 CCATGATAAACAATATCATACATAATAGTCATATCAAAG
3003592 CCATGATAAACAATATCATACATAATAGTCATATCA
1 CCATGATAAACAATATCATACATAATAGTCATATCA
3003628 TATTCTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (39 bp):
CCATGATAAACAATATCATACATAATAGTCATATCAAAG
Found at i:3003627 original size:18 final size:18
Alignment explanation
Indices: 3003566--3003629 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
3003556 TGATAAACAC
3003566 TATCATACATAATAGTCA
1 TATCATACATAATAGTCA
* * **
3003584 TATCAAAGCCATGATAAACAA
1 TATCATA--CATAATAGTC-A
3003605 TATCATACATAATAGTCA
1 TATCATACATAATAGTCA
3003623 TATCATA
1 TATCATA
3003630 TTCTTTTTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 14 0.40
19 7 0.20
20 7 0.20
21 7 0.20
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (18 bp):
TATCATACATAATAGTCA
Found at i:3003807 original size:19 final size:19
Alignment explanation
Indices: 3003747--3003799 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
3003737 GTTTCTGAAC
* *
3003747 TCATAACAT-ATTTCAGAT
1 TCATAACTTAATTTCATAT
3003765 TCATAACTTAATTTCATAT
1 TCATAACTTAATTTCATAT
* *
3003784 TCATAGCTTATTTTCA
1 TCATAACTTAATTTCA
3003800 ACTTCATACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (19 bp):
TCATAACTTAATTTCATAT
Found at i:3009625 original size:81 final size:81
Alignment explanation
Indices: 3009512--3009844 Score: 490
Period size: 81 Copynumber: 4.1 Consensus size: 81
3009502 AAGTCTTTAG
* * *
3009512 TCTTTTACCCAAAGGTATTTAATCTTTCATCTAACTCGCATAATTGACAATTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAATTTTCTGTCAAATGC
3009577 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* ** *
3009593 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTGGCATAATTGACTCCTTTT-TGTCCAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC-AATTTTCTGTCAAATG
3009657 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
*
3009674 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACA-TTTATGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-ATTTTCTGTCAAATG
3009738 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * ** *
3009755 TTTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAATTTTCTGTCAAATGC
* * *
3009820 AAAGATAGACCATTAA
66 ACAGCTAGGCCATTAA
3009836 TCTTTTACT
1 TCTTTTACT
3009845 TAAAAATAGT
Statistics
Matches: 228, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
80 3 0.01
81 221 0.97
82 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAATTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:3016437 original size:81 final size:81
Alignment explanation
Indices: 3016324--3016656 Score: 492
Period size: 81 Copynumber: 4.1 Consensus size: 81
3016314 AAGTCTTTAT
*
3016324 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGA
3016389 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
3016405 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTAACATCTTTCTATT-AAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCT-TTCAAATG
* *
3016469 CACAACTAGGCCATTAA
65 AACAGCTAGGCCATTAA
* * * *
3016486 TCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAACGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGA
3016551 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
3016567 TCTTTTAGTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTT-TTGTCAAAT-
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTT-TCAAATG
* *
3016630 ACACAGCTTGGCCATTTA
65 A-ACAGCTAGGCCATTAA
3016648 TCTTTTACT
1 TCTTTTACT
3016657 TAAGAACAGT
Statistics
Matches: 226, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
80 2 0.01
81 222 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGA
ACAGCTAGGCCATTAA
Found at i:3018903 original size:44 final size:45
Alignment explanation
Indices: 3018853--3018941 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 45
3018843 TCATACATAA
*
3018853 TAGTCATATAATATTCTTTTTCA-TCATATACAATGCAAAACTTT
1 TAGTCATATAATATTCTTTTTCATTCATATACAATACAAAACTTT
* *
3018897 TAGTCATATCATATTCTTTTTCATTCATATATAATACAAAACTTT
1 TAGTCATATAATATTCTTTTTCATTCATATACAATACAAAACTTT
3018942 CATATCTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 22 0.54
45 19 0.46
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (45 bp):
TAGTCATATAATATTCTTTTTCATTCATATACAATACAAAACTTT
Found at i:3018957 original size:13 final size:13
Alignment explanation
Indices: 3018937--3018996 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
3018927 ATAATACAAA
*
3018937 ACTTTCATATCTC
1 ACTTTCATATTTC
* *
3018950 ATTTTCATCTTTC
1 ACTTTCATATTTC
3018963 ACTTTCATA-TTC
1 ACTTTCATATTTC
*
3018975 ACTTTCACATTTC
1 ACTTTCATATTTC
*
3018988 ATTTTCATA
1 ACTTTCATA
3018997 ATCTGTACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 11 0.29
13 27 0.71
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTTCATATTTC
Found at i:3018987 original size:25 final size:26
Alignment explanation
Indices: 3018937--3019016 Score: 92
Period size: 25 Copynumber: 3.0 Consensus size: 26
3018927 ATAATACAAA
*
3018937 ACTTTCATATCTCATTTTCATC-TTTC
1 ACTTTCATATCTCACTTTCA-CATTTC
3018963 ACTTTCATAT-TCACTTTCACATTTC
1 ACTTTCATATCTCACTTTCACATTTC
* *
3018988 ATTTTCATAATCTGTACTTTCACATTTC
1 ACTTTCAT-ATCT-CACTTTCACATTTC
3019016 A
1 A
3019017 GAACTCATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.02
25 19 0.40
26 12 0.26
27 1 0.02
28 14 0.30
ACGTcount: A:0.24, C:0.25, G:0.01, T:0.50
Consensus pattern (26 bp):
ACTTTCATATCTCACTTTCACATTTC
Found at i:3020408 original size:17 final size:18
Alignment explanation
Indices: 3020386--3020419 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3020376 AAATGAACAT
*
3020386 CATTTACAA-AACATGTA
1 CATTTAAAACAACATGTA
3020403 CATTTAAAACAACATGT
1 CATTTAAAACAACATGT
3020420 TATAATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (18 bp):
CATTTAAAACAACATGTA
Found at i:3021170 original size:31 final size:31
Alignment explanation
Indices: 3021104--3021173 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
3021094 ATCAACCCCA
* *
3021104 TAACTTT-TCAAAATTATCAAATATGTCCCC
1 TAACTTTCTCAAAAGTATCAAATATGTCCAC
*
3021134 CAACTTTCTCAAAAGT-TCAAATATGTCCAAC
1 TAACTTTCTCAAAAGTATCAAATATGTCC-AC
3021165 TAACTTTCT
1 TAACTTTCT
3021174 AAAGCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (31 bp):
TAACTTTCTCAAAAGTATCAAATATGTCCAC
Found at i:3023428 original size:289 final size:279
Alignment explanation
Indices: 3022915--3023469 Score: 923
Period size: 289 Copynumber: 2.0 Consensus size: 279
3022905 ATATATATAA
*
3022915 ACACACATATTATACATATAATGTTGTTAGAACCAAACCATAATAATTATGAAAACAAACTAAGA
1 ACACACATATTATACATATAATGTTGTTAGAACCAAACCAAAATAATTATGAAAACAAACTAAGA
3022980 TCAAATCATCAAGAACAAGAAATACTAGATTTGCAAAAGCTTACATGGATTAATTGATACATTGA
66 TCAAATCATCAAGAACAAGAAATACTAGATTTGCAAAAGCTTACATGGATTAATTGATACATTGA
*
3023045 AATCCTTTAATCTTTCTTTTGTTGTTAGATTCAAACAATATAAAAGTATCTTGAGTATAAACTCT
131 AATCCTTTAATATTTCTTTTGTTGTTAGATTCAAACAATATAAAAGTATCTTGAGTATAAACTCT
* *
3023110 CTGACGGGGATAAAAGTAAATATGAGATAATATATTTCTTGGAGACCAGAACCCCTTTATGGTTG
196 CTGACGGGGATAAAAGTAAATACGAGATAATATATTTCTTAGAGACCAGAACCCCTTTATGGTTG
3023175 ATTTAATCAACACACACAC
261 ATTTAATCAACACACACAC
*
3023194 ACACACATATTATCCATATAATGTTGTTAGAACCAAACCAAAATAATTATGAAAACAAACTAAGA
1 ACACACATATTATACATATAATGTTGTTAGAACCAAACCAAAATAATTATGAAAACAAACTAAG-
*
3023259 TCAAATCATGTCAAATCATCAAGAACAAGAAATACTAGATTTGCAAAA-TTGTACATGGATTAAT
65 -------A--TCAAATCATCAAGAACAAGAAATACTAGATTTGCAAAAGCT-TACATGGATTAAT
*
3023323 TGATACATTGAAATCCTTTAATATTTCTTTTGTTGTTAGATTCAAAGAATATAAAAGTATCTTGA
120 TGATACATTGAAATCCTTTAATATTTCTTTTGTTGTTAGATTCAAACAATATAAAAGTATCTTGA
* *
3023388 GTATAAACTCTCTGACGGGGATAAAAGTAAATACGAGATAATCTATTTCTTAGAGACCATAACCC
185 GTATAAACTCTCTGACGGGGATAAAAGTAAATACGAGATAATATATTTCTTAGAGACCAGAACCC
3023453 CTTTATGGTTGATTTAA
250 CTTTATGGTTGATTTAA
3023470 ATATCAATTA
Statistics
Matches: 256, Mismatches: 9, Indels: 12
0.92 0.03 0.04
Matches are distributed among these distances:
279 62 0.24
287 1 0.00
288 1 0.00
289 192 0.75
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (279 bp):
ACACACATATTATACATATAATGTTGTTAGAACCAAACCAAAATAATTATGAAAACAAACTAAGA
TCAAATCATCAAGAACAAGAAATACTAGATTTGCAAAAGCTTACATGGATTAATTGATACATTGA
AATCCTTTAATATTTCTTTTGTTGTTAGATTCAAACAATATAAAAGTATCTTGAGTATAAACTCT
CTGACGGGGATAAAAGTAAATACGAGATAATATATTTCTTAGAGACCAGAACCCCTTTATGGTTG
ATTTAATCAACACACACAC
Found at i:3027528 original size:13 final size:13
Alignment explanation
Indices: 3027510--3027534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3027500 TTACCATTGA
3027510 GAAATCCAATTTT
1 GAAATCCAATTTT
3027523 GAAATCCAATTT
1 GAAATCCAATTT
3027535 ATGTAAGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
GAAATCCAATTTT
Found at i:3037316 original size:36 final size:36
Alignment explanation
Indices: 3037276--3037357 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
3037266 GTGCTTGTGG
3037276 TGCTGAAAGGCGAAAAGATAGCTGCAAACTTGTACA
1 TGCTGAAAGGCGAAAAGATAGCTGCAAACTTGTACA
3037312 TGCTGAAAGGCGAAAAGATAGCTGCAAACTTGTACA
1 TGCTGAAAGGCGAAAAGATAGCTGCAAACTTGTACA
3037348 TGCTGAAAGG
1 TGCTGAAAGG
3037358 AGAGACTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (36 bp):
TGCTGAAAGGCGAAAAGATAGCTGCAAACTTGTACA
Found at i:3041784 original size:18 final size:18
Alignment explanation
Indices: 3041761--3041796 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3041751 TAGGTTTTAT
3041761 TTCAATCTAACCCGATTC
1 TTCAATCTAACCCGATTC
3041779 TTCAATCTAACCCGATTC
1 TTCAATCTAACCCGATTC
3041797 GAAAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (18 bp):
TTCAATCTAACCCGATTC
Found at i:3047506 original size:16 final size:16
Alignment explanation
Indices: 3047485--3047519 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3047475 AGCTAAAATG
3047485 AAAATA-AAAAAAGATA
1 AAAATACAAAAAAGA-A
3047501 AAAATACAAAAAAGAA
1 AAAATACAAAAAAGAA
3047517 AAA
1 AAA
3047520 GAAAAGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATACAAAAAAGAA
Found at i:3050811 original size:16 final size:16
Alignment explanation
Indices: 3050790--3050824 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3050780 AGCTAAAATG
3050790 AAAATA-AAAAAAGATA
1 AAAATACAAAAAAGA-A
3050806 AAAATACAAAAAAGAA
1 AAAATACAAAAAAGAA
3050822 AAA
1 AAA
3050825 GAAAAGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATACAAAAAAGAA
Found at i:3052500 original size:16 final size:16
Alignment explanation
Indices: 3052479--3052513 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3052469 AGCTAAAATG
3052479 AAAATA-AAAAAAGATA
1 AAAATACAAAAAAGA-A
3052495 AAAATACAAAAAAGAA
1 AAAATACAAAAAAGAA
3052511 AAA
1 AAA
3052514 GAAAAGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATACAAAAAAGAA
Found at i:3053929 original size:6 final size:6
Alignment explanation
Indices: 3053918--3053951 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
3053908 CTTAATTGCG
3053918 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
3053952 AATTCGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:3055885 original size:16 final size:16
Alignment explanation
Indices: 3055864--3055898 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3055854 AGCTAAAATG
3055864 AAAATA-AAAAAAGATA
1 AAAATACAAAAAAGA-A
3055880 AAAATACAAAAAAGAA
1 AAAATACAAAAAAGAA
3055896 AAA
1 AAA
3055899 GAAAAGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATACAAAAAAGAA
Found at i:3057389 original size:21 final size:21
Alignment explanation
Indices: 3057365--3057410 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
3057355 TTTGATCAAT
3057365 TAAAATTATCCCTAAAAATCA
1 TAAAATTATCCCTAAAAATCA
3057386 TAAAATTATCCCTAAAAATCA
1 TAAAATTATCCCTAAAAATCA
3057407 TAAA
1 TAAA
3057411 CAATGTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATTATCCCTAAAAATCA
Found at i:3060711 original size:6 final size:6
Alignment explanation
Indices: 3060700--3060726 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3060690 GCAAATATTG
3060700 AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAA
3060727 AATTCGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:3062397 original size:6 final size:6
Alignment explanation
Indices: 3062387--3062419 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
3062377 CTTAATTGCG
*
3062387 AAATTG AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
3062420 AATTCAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:3062477 original size:21 final size:21
Alignment explanation
Indices: 3062453--3062498 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
3062443 TTTGATCAAT
3062453 TAAAATTATCCCTAAAAATCA
1 TAAAATTATCCCTAAAAATCA
3062474 TAAAATTATCCCTAAAAATCA
1 TAAAATTATCCCTAAAAATCA
3062495 TAAA
1 TAAA
3062499 CAAAGTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATTATCCCTAAAAATCA
Found at i:3069848 original size:20 final size:20
Alignment explanation
Indices: 3069823--3069860 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3069813 GAATGCTAGA
*
3069823 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
3069843 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
3069861 TAAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:3070515 original size:23 final size:23
Alignment explanation
Indices: 3070453--3070521 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
3070443 CATTATTATA
*
3070453 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
3070476 CGGCAC-TCTGGTACAATTCTACG
1 TGGCACTTC-GGTGCAATTCTACG
*
3070499 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
3070522 AGTTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.92
24 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:3070992 original size:2 final size:2
Alignment explanation
Indices: 3070987--3071017 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3070977 TATATATATA
3070987 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3071018 AGATTATCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3076675 original size:20 final size:20
Alignment explanation
Indices: 3076650--3076687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3076640 GAATGCTAGA
*
3076650 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
3076670 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
3076688 TAAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:3077317 original size:23 final size:23
Alignment explanation
Indices: 3077281--3077348 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
3077271 ATTATTATAT
*
3077281 GGCACTACGATGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
3077304 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
3077327 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
3077349 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:3077804 original size:2 final size:2
Alignment explanation
Indices: 3077792--3077824 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3077782 TGTATAGACT
*
3077792 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3077825 GTAGATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3084757 original size:53 final size:53
Alignment explanation
Indices: 3084687--3084849 Score: 299
Period size: 53 Copynumber: 3.1 Consensus size: 53
3084677 ATTGCACCTA
*
3084687 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
3084740 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* *
3084793 AGTGCCGAAATGGTAATTCGCAAACTCATTATGAATTTCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
3084846 AGTG
1 AGTG
3084850 TCGATAGTAC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 107 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
Found at i:3092559 original size:218 final size:221
Alignment explanation
Indices: 3092175--3092733 Score: 723
Period size: 218 Copynumber: 2.5 Consensus size: 221
3092165 TTCAGAGAAG
* * ** * * *
3092175 ATTGAATTAGGGTAAACTTGTTCTATTATCACTCATGGAATATTAAATCTTGAAAGAGAACGATC
1 ATTGAATCAGGGTAGACTTGTTCCGTTGTCACTCAGGGAATATTAAATCTTGAAAGAG-AGGATC
* * * * * * *
3092240 TATTTTGCTTCTTCTAAGGGAATATTAGATCTGGGAAAGTTGATTCATTGAATTAGGGTAGACTT
65 TGTTTCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGATAGACTT
* ** *
3092305 GTTTCGCTGTCACTCAGGGAATATCAAATATTGAAAGAGA-GGATCATGTTTCGTTTCTTCTGAG
130 GTTCCGCTGTCACTCAGGGAATATCAAATATTGAAAGAGATGGATC-TGTACCGCTTCTTCTGAG
3092369 GGAATATCAGATCTGGGAAAGTTGATAA
194 GGAATATCAGATCTGGGAAAGTTGATAA
* * *
3092397 ATTGAATCAGGGTAGATTTGTTCCGTTGTCACTCAGGGAATATCAAATCTT-AAA-AGA-GATAT
1 ATTGAATCAGGGTAGACTTGTTCCGTTGTCACTCAGGGAATATTAAATCTTGAAAGAGAGGATCT
* * * * *
3092459 GTTTCGCTTATTCTGAGGGAATATCAGATATGAGAAAATTGATCCATTGAATCAGGATAGATTTG
66 GTTTCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGATAGACTTG
* *
3092524 TTCCGCTGTCACTCAGGGAATATTAAATCTTGAAAGAGATGGATCTGTACCGCTTCTTCTGAGGG
131 TTCCGCTGTCACTCAGGGAATATCAAATATTGAAAGAGATGGATCTGTACCGCTTCTTCTGAGGG
**
3092589 AATATCAGATCTGGGAAAGTTGATCC
196 AATATCAGATCTGGGAAAGTTGATAA
* * * *
3092615 TTTAAATC-GGGTAGACTTGTTTCGCTGTCACTCAGGGAATATTAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAGGGTAGACTTGTTCCGTTGTCACTCAGGGAATATTAAATCTTGAAAGAGA-GGATC
* * *
3092679 TGTTCCGCTTCTTTTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTAAATCA
65 TGTTTCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCA
3092734 AGATTGAACC
Statistics
Matches: 289, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
217 38 0.13
218 143 0.49
219 9 0.03
220 2 0.01
221 54 0.19
222 43 0.15
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (221 bp):
ATTGAATCAGGGTAGACTTGTTCCGTTGTCACTCAGGGAATATTAAATCTTGAAAGAGAGGATCT
GTTTCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGATAGACTTG
TTCCGCTGTCACTCAGGGAATATCAAATATTGAAAGAGATGGATCTGTACCGCTTCTTCTGAGGG
AATATCAGATCTGGGAAAGTTGATAA
Found at i:3092662 original size:110 final size:110
Alignment explanation
Indices: 3092203--3092733 Score: 701
Period size: 111 Copynumber: 4.8 Consensus size: 110
3092193 TGTTCTATTA
* * * * * *
3092203 TCACTCATGGAATATTAAATCTTGAAAGAGAACGATCTATTTTGCTTCTTCTAAGGGAATATTAG
1 TCACTCAGGGAATATTAAATCTTGAAAGAG-AGGATCTGTTTCGCTTCTTCTGAGGGAATATCAG
* * * *
3092268 ATCTGGGAAAGTTGATTCATTGAATTAGGGTAGACTTGTTTCGCTG
65 ATCTGGGAAAGTTGATCCATTAAATCAGGGTAGACTTGTTCCGCTG
* * *
3092314 TCACTCAGGGAATATCAAATATTGAAAGAGAGGATCATGTTTCGTTTCTTCTGAGGGAATATCAG
1 TCACTCAGGGAATATTAAATCTTGAAAGAGAGGATC-TGTTTCGCTTCTTCTGAGGGAATATCAG
** * * *
3092379 ATCTGGGAAAGTTGATAAATTGAATCAGGGTAGATTTGTTCCGTTG
65 ATCTGGGAAAGTTGATCCATTAAATCAGGGTAGACTTGTTCCGCTG
* * *
3092425 TCACTCAGGGAATATCAAATCTT-AAA-AGA-GATATGTTTCGCTTATTCTGAGGGAATATCAGA
1 TCACTCAGGGAATATTAAATCTTGAAAGAGAGGATCTGTTTCGCTTCTTCTGAGGGAATATCAGA
* * * * * *
3092487 TATGAGAAAATTGATCCATTGAATCAGGATAGATTTGTTCCGCTG
66 TCTGGGAAAGTTGATCCATTAAATCAGGGTAGACTTGTTCCGCTG
**
3092532 TCACTCAGGGAATATTAAATCTTGAAAGAGATGGATCTGTACCGCTTCTTCTGAGGGAATATCAG
1 TCACTCAGGGAATATTAAATCTTGAAAGAGA-GGATCTGTTTCGCTTCTTCTGAGGGAATATCAG
* *
3092597 ATCTGGGAAAGTTGATCCTTTAAATC-GGGTAGACTTGTTTCGCTG
65 ATCTGGGAAAGTTGATCCATTAAATCAGGGTAGACTTGTTCCGCTG
* *
3092642 TCACTCAGGGAATATTAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCTTTTGAGGGAATATCAG
1 TCACTCAGGGAATATTAAATCTTGAAAGAGA-GGATCTGTTTCGCTTCTTCTGAGGGAATATCAG
3092707 ATCTGGGAAAGTTGATCCATTAAATCA
65 ATCTGGGAAAGTTGATCCATTAAATCA
3092734 AGATTGAACC
Statistics
Matches: 371, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
107 87 0.23
108 6 0.02
109 6 0.02
110 111 0.30
111 161 0.43
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (110 bp):
TCACTCAGGGAATATTAAATCTTGAAAGAGAGGATCTGTTTCGCTTCTTCTGAGGGAATATCAGA
TCTGGGAAAGTTGATCCATTAAATCAGGGTAGACTTGTTCCGCTG
Found at i:3100782 original size:21 final size:21
Alignment explanation
Indices: 3100758--3100799 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3100748 TTGTTCAGAG
*
3100758 GTAATACCAATAGTTGGAGCT
1 GTAATACCAATAGTTGAAGCT
3100779 GTAATACCAATAGTTGAAGCT
1 GTAATACCAATAGTTGAAGCT
3100800 TTTCCACGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (21 bp):
GTAATACCAATAGTTGAAGCT
Found at i:3101734 original size:22 final size:22
Alignment explanation
Indices: 3101688--3101735 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
3101678 ATCAACCCTG
3101688 TTTCTTCTAGCTCCATTATCTT
1 TTTCTTCTAGCTCCATTATCTT
*
3101710 TTTCTT-TAGCATCTCATTTTCTT
1 TTTCTTCTAGC-TC-CATTATCTT
3101733 TTT
1 TTT
3101736 GAAGACTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 11 0.48
ACGTcount: A:0.12, C:0.23, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTCTTCTAGCTCCATTATCTT
Found at i:3104480 original size:15 final size:15
Alignment explanation
Indices: 3104460--3104489 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3104450 AGCACCCCCA
3104460 CAATCGCCCAAAAAT
1 CAATCGCCCAAAAAT
3104475 CAATCGCCCAAAAAT
1 CAATCGCCCAAAAAT
3104490 TGGTACCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.07, T:0.13
Consensus pattern (15 bp):
CAATCGCCCAAAAAT
Found at i:3106577 original size:37 final size:36
Alignment explanation
Indices: 3106502--3106578 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
3106492 TTTTTATATT
*
3106502 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
3106538 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
3106575 TTTA
1 TTTA
3106579 TAATATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:3106598 original size:18 final size:18
Alignment explanation
Indices: 3106554--3106601 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
3106544 TTTTTAAAGA
*
3106554 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
3106573 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
3106590 AAATATATAATA
1 AAATATATAATA
3106602 AGGACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:3108393 original size:3 final size:3
Alignment explanation
Indices: 3108385--3108421 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3108375 TATGTAACAT
3108385 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3108422 GTATTAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3109459 original size:106 final size:106
Alignment explanation
Indices: 3109274--3109485 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
3109264 AAGGAAAAAG
3109274 AGCTCGAGTATAGAGATTATGTTTATGTAATGAAAAATGAAAATTAATAGAAAAATGAATTATTA
1 AGCTCGAGTATAGAGATTATGTTTATGTAATGAAAAATGAAAATTAATAGAAAAATGAATTATTA
3109339 ATAATTAGTCAATAATCATAAAAATCCTAGCTTCATGCAAT
66 ATAATTAGTCAATAATCATAAAAATCCTAGCTTCATGCAAT
3109380 AGCTCGAGTATAGAGATTATGTTTATGTAATGAAAAATGAAAATTAATAGAAAAATGAATTATTA
1 AGCTCGAGTATAGAGATTATGTTTATGTAATGAAAAATGAAAATTAATAGAAAAATGAATTATTA
3109445 ATAATTAGTCAATAATCATAAAAATCCTAGCTTCATGCAAT
66 ATAATTAGTCAATAATCATAAAAATCCTAGCTTCATGCAAT
3109486 CTAATTCCAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.32
Consensus pattern (106 bp):
AGCTCGAGTATAGAGATTATGTTTATGTAATGAAAAATGAAAATTAATAGAAAAATGAATTATTA
ATAATTAGTCAATAATCATAAAAATCCTAGCTTCATGCAAT
Found at i:3112274 original size:3 final size:3
Alignment explanation
Indices: 3112266--3112356 Score: 130
Period size: 3 Copynumber: 30.7 Consensus size: 3
3112256 TTATGGCTTG
3112266 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
3112314 TAA TAA TAA TGA TAT TGA TAA -AA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3112357 CGAATGACGG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3115716 original size:18 final size:19
Alignment explanation
Indices: 3115693--3115729 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3115683 TTTTATTGAA
*
3115693 AAACCGATAAAC-CGAACC
1 AAACCGAAAAACTCGAACC
3115711 AAACCGAAAAACTCGAACC
1 AAACCGAAAAACTCGAACC
3115730 GTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.51, C:0.32, G:0.11, T:0.05
Consensus pattern (19 bp):
AAACCGAAAAACTCGAACC
Found at i:3115756 original size:18 final size:18
Alignment explanation
Indices: 3115694--3115757 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
3115684 TTTATTGAAA
* * *
3115694 AACCGATAAACCGAACCA
1 AACCGAAAAATCGAACCG
3115712 AACCGAAAAACTCGAACCG
1 AACCGAAAAA-TCGAACCG
3115731 TTAA---AAAAATCGAACCG
1 --AACCGAAAAATCGAACCG
3115748 AACCGAAAAA
1 AACCGAAAAA
3115758 ATCGGTTTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.05
17 8 0.22
18 19 0.51
19 6 0.16
21 2 0.05
ACGTcount: A:0.53, C:0.27, G:0.12, T:0.08
Consensus pattern (18 bp):
AACCGAAAAATCGAACCG
Found at i:3115756 original size:19 final size:19
Alignment explanation
Indices: 3115705--3115761 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
3115695 ACCGATAAAC
* *
3115705 CGAACCAAACCGAAAAACT
1 CGAACCGAACCGAAAAAAT
*
3115724 CGAACCGTTA---AAAAAAT
1 CGAACCG-AACCGAAAAAAT
3115741 CGAACCGAACCGAAAAAAT
1 CGAACCGAACCGAAAAAAT
3115760 CG
1 CG
3115762 GTTTCGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 13 0.43
19 15 0.50
20 1 0.03
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (19 bp):
CGAACCGAACCGAAAAAAT
Found at i:3117453 original size:25 final size:25
Alignment explanation
Indices: 3117424--3117483 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
3117414 TTTTGAGTAA
*
3117424 TGGAACGAAACGTTTGACACCAAAC
1 TGGAACGAAACGTTAGACACCAAAC
*
3117449 TGGAACGAAACGTTAGGCACCAAAC
1 TGGAACGAAACGTTAGACACCAAAC
3117474 TGGAACGAAA
1 TGGAACGAAA
3117484 TAAACGTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (25 bp):
TGGAACGAAACGTTAGACACCAAAC
Found at i:3124597 original size:24 final size:26
Alignment explanation
Indices: 3124570--3124628 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
3124560 CCATCCACAC
*
3124570 TTTCAACATA-TTT-GGTGGATTTGT
1 TTTCAACATACTTTCGGTGGATTTAT
*
3124594 TTTCAATCCTACTTTCGGTGGATTTAT
1 TTTCAA-CATACTTTCGGTGGATTTAT
*
3124621 ATTCAACA
1 TTTCAACA
3124629 GGTTGTAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 6 0.21
25 3 0.11
26 4 0.14
27 15 0.54
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (26 bp):
TTTCAACATACTTTCGGTGGATTTAT
Found at i:3127607 original size:76 final size:76
Alignment explanation
Indices: 3127465--3127614 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
3127455 AAAGTTACTT
*
3127465 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATGTTTTGTCAAAGTAGACACCTAAAGCTT
1 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATGTTTTGTCAAAGTAGACACCTAAAACTT
*
3127530 ATTCGGTTATG
66 ATTCAGTTATG
* * *
3127541 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATTTTTTTGTCAAAGTAG-TACTTAAAACT
1 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTA-TGTTTTGTCAAAGTAGACACCTAAAACT
3127605 TATTCAGTTA
65 TATTCAGTTA
3127615 CTATTTAAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
76 53 0.78
77 15 0.22
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (76 bp):
TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATGTTTTGTCAAAGTAGACACCTAAAACTT
ATTCAGTTATG
Found at i:3127609 original size:38 final size:38
Alignment explanation
Indices: 3127465--3127593 Score: 240
Period size: 38 Copynumber: 3.4 Consensus size: 38
3127455 AAAGTTACTT
3127465 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATG
1 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATG
3127503 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATG
1 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATG
*
3127541 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATTT
1 TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTA-TG
3127580 TTTTGTCAAAGTAG
1 TTTTGTCAAAGTAG
3127594 TACTTAAAAC
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 74 0.83
39 15 0.17
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (38 bp):
TTTTGTCAAAGTAGACACCTAAAGCTTATTCGGTTATG
Found at i:3127751 original size:17 final size:18
Alignment explanation
Indices: 3127713--3127751 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3127703 TTTGACATGT
* *
3127713 AATATTAATTTTTTTATT
1 AATATTAATTTTTCTATA
3127731 AATATTAA-TTTTCTATA
1 AATATTAATTTTTCTATA
3127748 AATA
1 AATA
3127752 AGACAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATTAATTTTTCTATA
Found at i:3127926 original size:94 final size:94
Alignment explanation
Indices: 3127765--3127936 Score: 290
Period size: 94 Copynumber: 1.8 Consensus size: 94
3127755 CAATGAACAT
* * *
3127765 TAGTTTAAGCAACTCAATTTGGTTCAGACAACAGTGTAATCTCACCGAAGGTAACGAACAAGTGA
1 TAGTTCAAGCAACTCAATTTGGTTCAGACAACAGTGTAATCTCACCGAAGGCAACGAACAAGCGA
3127830 TGAATGGGTAAAAATCAGACGAGGAGCAG
66 TGAATGGGTAAAAATCAGACGAGGAGCAG
* *
3127859 TAGTTCAAGCAACTCAATTTGGTTTAGACAACAGTGTATTCTCACCGAAGGCAACGAACAAGCGA
1 TAGTTCAAGCAACTCAATTTGGTTCAGACAACAGTGTAATCTCACCGAAGGCAACGAACAAGCGA
*
3127924 TGATTGGGTAAAA
66 TGAATGGGTAAAA
3127937 CATAATCTCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (94 bp):
TAGTTCAAGCAACTCAATTTGGTTCAGACAACAGTGTAATCTCACCGAAGGCAACGAACAAGCGA
TGAATGGGTAAAAATCAGACGAGGAGCAG
Found at i:3129047 original size:231 final size:231
Alignment explanation
Indices: 3128644--3129077 Score: 672
Period size: 231 Copynumber: 1.9 Consensus size: 231
3128634 TTCGAACACC
* * * *
3128644 CCTAGTAAAATCTGACAACAAATGGGGTGATTGGTTATTGTTGATTCGATAGTAGGATATAAGAT
1 CCTAGTAAAATCTGACAACAAAAGGGGTGATTGGTGATGGGTGATTCGATAGTAGGATATAAGAT
* **
3128709 TTAGATGTTTAGGGTTTGAGGAAATAAAAAATTTGAGTAATTTAGCGATTTTGGGTTAGAAAATT
66 TTAGATATTTAGAATTTGAGGAAATAAAAAATTTGAGTAATTTAGCGATTTTGGGTTAGAAAATT
* *
3128774 AATGATATTTATTTTGTTCTTTTGACAAATTCTAAATCTAATTCTAATCCTACTTAGATGGGAAG
131 AATGATATTTATTTTGTTCTTTTGACAAATTCTAAATCTAATTATAATCCTACCTAGATGGGAAG
3128839 GGAAGGGGAGCTCTAGGGAGTGGAGGGGTAGTGCTT
196 GGAAGGGGAGCTCTAGGGAGTGGAGGGGTAGTGCTT
* * *
3128875 CCTAGTAAAATCTGACAACAAAAGGGGTGATTGGTGGTGGGTGTTTCGATAGTAGGATATGAGAT
1 CCTAGTAAAATCTGACAACAAAAGGGGTGATTGGTGATGGGTGATTCGATAGTAGGATATAAGAT
** * * * *
3128940 TTAGATATTTAGAATTTGAGGATTTAGAAATTTTGATTAATTTAGGGATTTTGGGTTAGAAAATT
66 TTAGATATTTAGAATTTGAGGAAATAAAAAATTTGAGTAATTTAGCGATTTTGGGTTAGAAAATT
* *
3129005 AATGATATTTGTTTTGGTT-TTTTGACAAATTCTAAATCTAATTATAATCCTACCTAGATGGGAG
131 AATGATATTTATTTT-GTTCTTTTGACAAATTCTAAATCTAATTATAATCCTACCTAGATGGGAA
3129069 GGGAAGGGG
195 GGGAAGGGG
3129078 GGAGACTTTA
Statistics
Matches: 182, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
231 179 0.98
232 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (231 bp):
CCTAGTAAAATCTGACAACAAAAGGGGTGATTGGTGATGGGTGATTCGATAGTAGGATATAAGAT
TTAGATATTTAGAATTTGAGGAAATAAAAAATTTGAGTAATTTAGCGATTTTGGGTTAGAAAATT
AATGATATTTATTTTGTTCTTTTGACAAATTCTAAATCTAATTATAATCCTACCTAGATGGGAAG
GGAAGGGGAGCTCTAGGGAGTGGAGGGGTAGTGCTT
Found at i:3132054 original size:39 final size:38
Alignment explanation
Indices: 3131991--3132234 Score: 281
Period size: 39 Copynumber: 6.5 Consensus size: 38
3131981 TATTATATAA
* *
3131991 TTTTGAAAC-TATATATGATATATAGTTTTTAAAATAT
1 TTTTGAAACATATATATAATATATAGTTTTTAAAACAT
*
3132028 TTTTGAAAACATATATATATTATATAGTTTTTAAAACA-
1 TTTTG-AAACATATATATAATATATAGTTTTTAAAACAT
*
3132066 TTTTG-AATATATATATAATATATAGTTTTTAAAACA-
1 TTTTGAAACATATATATAATATATAGTTTTTAAAACAT
* * **
3132102 TTTTGAAAACATTTATATATTATATAGTTTTTAAAATGT
1 TTTTG-AAACATATATATAATATATAGTTTTTAAAACAT
* *
3132141 TTTTGAAA-ATAAATGTAATATATAGTTTTTGAAAAAACA-
1 TTTTGAAACATATATATAATATATAGTTTTT---AAAACAT
*
3132180 TTTTGAAA-ATATATATAATATATAATTTTTAAAACAT
1 TTTTGAAACATATATATAATATATAGTTTTTAAAACAT
3132217 TTTTGAAA-AT-TATATAAT
1 TTTTGAAACATATATATAAT
3132235 TTTTAAAAAA
Statistics
Matches: 179, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
36 48 0.27
37 33 0.18
38 38 0.21
39 56 0.31
40 4 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (38 bp):
TTTTGAAACATATATATAATATATAGTTTTTAAAACAT
Found at i:3132069 original size:75 final size:73
Alignment explanation
Indices: 3131990--3132234 Score: 289
Period size: 75 Copynumber: 3.3 Consensus size: 73
3131980 ATATTATATA
* *
3131990 ATTTTGAAACTATATATGATATATAGTTTTTAAAATATTTTTGAAAACATATATATATTATATAG
1 ATTTTGAAA-TATATATAATATATAGTTTTTAAAA-AATTTTGAAAACATATATATATTATATAG
3132055 TTTTTAAAAC
64 TTTTTAAAAC
* *
3132065 ATTTTGAATATATATATAATATATAGTTTTTAAAACATTTTGAAAACATTTATATATTATATAGT
1 ATTTTGAA-ATATATATAATATATAGTTTTTAAAAAATTTTGAAAACATATATATATTATATAGT
*
3132130 TTTTAAAATG
65 TTTTAAAA-C
* * * *
3132140 TTTTTGAAAATAAATGTAATATATAGTTTTTGAAAAAACATTTTG-AAA-ATATATATAATATAT
1 ATTTTG-AAATATATATAATATATAGTTTTT--AAAAA-ATTTTGAAAACATATATATATTATAT
*
3132203 AATTTTTAAAAC
62 AGTTTTTAAAAC
3132215 ATTTTTGAAA-ATTATATAAT
1 A-TTTTGAAATA-TATATAAT
3132235 TTTTAAAAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
74 36 0.25
75 66 0.45
76 31 0.21
77 7 0.05
78 6 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (73 bp):
ATTTTGAAATATATATAATATATAGTTTTTAAAAAATTTTGAAAACATATATATATTATATAGTT
TTTAAAAC
Found at i:3132245 original size:31 final size:30
Alignment explanation
Indices: 3132198--3132285 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 30
3132188 ATATATATAA
3132198 TATATAATTTTT-AAAACATTTTTGAAAAT
1 TATATAATTTTTAAAAACATTTTTGAAAAT
3132227 TATATAATTTTTAAAAAACATTTTTGAAAAT
1 TATATAATTTTT-AAAAACATTTTTGAAAAT
* *
3132258 TATATAGTTTTTTAAAAATATTTTTGAA
1 TATATA-ATTTTTAAAAACATTTTTGAA
3132286 TTTATATGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
29 12 0.22
31 37 0.69
32 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
TATATAATTTTTAAAAACATTTTTGAAAAT
Found at i:3132364 original size:3 final size:3
Alignment explanation
Indices: 3132356--3132406 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
3132346 TTATATTTAT
* *
3132356 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CTA TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
3132401 TTA TTA
1 TTA TTA
3132407 CTTTTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3132412 original size:16 final size:15
Alignment explanation
Indices: 3132351--3132416 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
3132341 AGTTTTTATA
*
3132351 TTTATTTATTATTATT
1 TTTA-TTATTATTTTT
*
3132367 ATTATTATTATTATTT
1 TTTATTATTATT-TTT
* *
3132383 ATTACTATTA-TTTT
1 TTTATTATTATTTTT
3132397 TTTATTATTACTTTTT
1 TTTATTATTA-TTTTT
3132413 TTTA
1 TTTA
3132417 GGTCCAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 11 0.26
15 9 0.21
16 22 0.52
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTATTATTTTT
Found at i:3142148 original size:21 final size:20
Alignment explanation
Indices: 3142123--3142194 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
3142113 GCCAAATTTG
3142123 GTATCGATACTCCTCATGAGA
1 GTATCGATACTCC-CATGAGA
3142144 GTATCGATA--CCCATGGTAGA
1 GTATCGATACTCCCAT-G-AGA
* *
3142164 GTATAGATACTCCCCATAAGA
1 GTATCGATACT-CCCATGAGA
3142185 GTATCGATAC
1 GTATCGATAC
3142195 CAAGGAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 11 0.26
21 21 0.49
23 5 0.12
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATCGATACTCCCATGAGA
Found at i:3147560 original size:2 final size:2
Alignment explanation
Indices: 3147553--3147578 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3147543 AACATAAGTA
3147553 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3147579 TGATATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3157243 original size:19 final size:19
Alignment explanation
Indices: 3157221--3157261 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3157211 TTTTTTGAAA
*
3157221 TTTTGGCTTTTTTGGCTTT
1 TTTTGGCTTTTTTGCCTTT
* *
3157240 TTTTTGTTTTTTTGCCTTT
1 TTTTGGCTTTTTTGCCTTT
3157259 TTT
1 TTT
3157262 CTTTGCCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.15, T:0.76
Consensus pattern (19 bp):
TTTTGGCTTTTTTGCCTTT
Found at i:3157244 original size:11 final size:11
Alignment explanation
Indices: 3157228--3157277 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
3157218 AAATTTTGGC
*
3157228 TTTTTTGGCTT
1 TTTTTTGCCTT
3157239 TTTTTTG---T
1 TTTTTTGCCTT
3157247 TTTTTTGCCTTT
1 TTTTTTGCC-TT
3157259 TTTCTTTGCCTT
1 TTT-TTTGCCTT
3157271 TTTTTTG
1 TTTTTTG
3157278 TTTTTTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 8 0.24
11 11 0.32
12 9 0.26
13 6 0.18
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (11 bp):
TTTTTTGCCTT
Found at i:3157268 original size:13 final size:12
Alignment explanation
Indices: 3157246--3157276 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
3157236 CTTTTTTTTG
3157246 TTTTTTTGCCTT
1 TTTTTTTGCCTT
3157258 TTTTCTTTGCCTT
1 TTTT-TTTGCCTT
3157271 TTTTTT
1 TTTTTT
3157277 GTTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTTTGCCTT
Found at i:3161112 original size:15 final size:16
Alignment explanation
Indices: 3161082--3161142 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
3161072 AACCAAATTA
3161082 TTAACATATAATATTT
1 TTAACATATAATATTT
*
3161098 TTAACA-ATTATATTT
1 TTAACATATAATATTT
*** *
3161113 TTATGTTATCATATTT
1 TTAACATATAATATTT
*
3161129 ATAACATA-AATATT
1 TTAACATATAATATT
3161143 CTTTTCTATT
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
15 16 0.47
16 18 0.53
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (16 bp):
TTAACATATAATATTT
Found at i:3166989 original size:44 final size:45
Alignment explanation
Indices: 3166939--3167139 Score: 309
Period size: 45 Copynumber: 4.5 Consensus size: 45
3166929 GGTAAGTATG
3166939 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCT-AGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGG-TAAGTATGTTGGT
* *
3166983 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATGATGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGT
* *
3167028 AAAATAACCTTACGATCTTATGGAATAAATGGTAAGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGT
* *
3167073 AAAATAAGTTTACAAGCTTATGGAATAAATGGTAAG-ATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGT
*
3167117 AAAATAAGCTTACAAGCTTATGG
1 AAAATAAGCTTACGAGCTTATGG
3167140 GATTAAATTG
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
44 57 0.40
45 87 0.60
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGT
Found at i:3169235 original size:70 final size:72
Alignment explanation
Indices: 3169080--3169242 Score: 219
Period size: 70 Copynumber: 2.3 Consensus size: 72
3169070 AATAAACTAA
* *
3169080 TAATAAATATAAATAA-TTAAAAAAGGTTTAATTATCAATTGTTCACTATTGCTTCATTAAAAAT
1 TAATAAACATAAATAATTTAAAAAAGGTTTAATTATCAATTGTTCACTAGTGCTTCATTAAAAAT
*
3169144 CTTGTAT
66 CTTGTAG
* * *
3169151 TAAT-TACTACAAATAATTTTAAAAA-G-TTAATTATCAATTGTTCACTACGT-CTTCATTAAAA
1 TAATAAAC-ATAAATAATTTAAAAAAGGTTTAATTATCAATTGTTCACTA-GTGCTTCATTAAAA
3169212 ATCTTGTAG
64 ATCTTGTAG
3169221 TAATAAACATAAATAATTTAAA
1 TAATAAACATAAATAATTTAAA
3169243 GGCAAAAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
70 57 0.72
71 15 0.19
72 7 0.09
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (72 bp):
TAATAAACATAAATAATTTAAAAAAGGTTTAATTATCAATTGTTCACTAGTGCTTCATTAAAAAT
CTTGTAG
Found at i:3178396 original size:21 final size:21
Alignment explanation
Indices: 3178317--3178396 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
3178307 TTGGTACAGA
*
3178317 GGGAATCGATACCCCCTTAAAG
1 GGGAATCGATA-CCCCTTGAAG
* * * *
3178339 GGGGACCGATTCCCATTTGAAG
1 GGGAATCGATACCC-CTTGAAG
* *
3178361 GGGAA-CTGATTCCCCTTGTAG
1 GGGAATC-GATACCCCTTGAAG
3178382 GGGAATCGATACCCC
1 GGGAATCGATACCCC
3178397 CTGGAGGTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 21 0.46
22 25 0.54
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCCTTGAAG
Found at i:3186418 original size:20 final size:20
Alignment explanation
Indices: 3186393--3186430 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3186383 GGCTGACAAT
*
3186393 GAACCGATTGAAAACCGGTA
1 GAACCGACTGAAAACCGGTA
*
3186413 GAACCGGCTGAAAACCGG
1 GAACCGACTGAAAACCGG
3186431 CAAAATCGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.29, T:0.11
Consensus pattern (20 bp):
GAACCGACTGAAAACCGGTA
Found at i:3188343 original size:34 final size:34
Alignment explanation
Indices: 3188305--3188374 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
3188295 TTTTAATATT
3188305 TTTTTTACATAAATGAATATAAACGATTGTC-TAA
1 TTTTTTACATAAATGAATATAAACGA-TGTCATAA
* * * *
3188339 TTTTTTATATCAATGACTATAAAGGATGTCATAA
1 TTTTTTACATAAATGAATATAAACGATGTCATAA
3188373 TT
1 TT
3188375 ATATAATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 4 0.13
34 27 0.87
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (34 bp):
TTTTTTACATAAATGAATATAAACGATGTCATAA
Found at i:3188961 original size:19 final size:20
Alignment explanation
Indices: 3188921--3188965 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
3188911 TTCTAGCGGT
*
3188921 TTTTAAATAATGAAATTAATA
1 TTTTAAATAA-GAAAATAATA
3188942 TTTTAAATAA-AAAATAATA
1 TTTTAAATAAGAAAATAATA
3188961 TTTTA
1 TTTTA
3188966 TGTAGCACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTTAAATAAGAAAATAATA
Found at i:3191634 original size:26 final size:26
Alignment explanation
Indices: 3191604--3191655 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3191594 TTGTTTAATG
3191604 GCTTAAAGTGTCATTGATCATGTTGA
1 GCTTAAAGTGTCATTGATCATGTTGA
3191630 GCTTAAAGTGTCATTGATCATGTTGA
1 GCTTAAAGTGTCATTGATCATGTTGA
3191656 CTTGTTGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (26 bp):
GCTTAAAGTGTCATTGATCATGTTGA
Found at i:3197276 original size:5 final size:5
Alignment explanation
Indices: 3197266--3197293 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3197256 ATGTATGAAA
3197266 ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATG
3197294 CATGAGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:3201989 original size:46 final size:46
Alignment explanation
Indices: 3201914--3202002 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
3201904 TATTCGTAAA
* *
3201914 TTTTAGTTATGGCATCCTTGCAGGCCTTAATACATCCTTTCATGCG
1 TTTTAGTTATGACATCATTGCAGGCCTTAATACATCCTTTCATGCG
* *
3201960 TTTTAGTTATGACATCATTTCATGG-CTTAATGCATCCTTTCAT
1 TTTTAGTTATGACATCATTGCA-GGCCTTAATACATCCTTTCAT
3202003 TCCTTAATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (46 bp):
TTTTAGTTATGACATCATTGCAGGCCTTAATACATCCTTTCATGCG
Found at i:3202000 original size:20 final size:20
Alignment explanation
Indices: 3201925--3202320 Score: 157
Period size: 20 Copynumber: 17.7 Consensus size: 20
3201915 TTTAGTTATG
* *
3201925 GCATCCTTGCAGGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
3201945 ACATCCTTTCATGCGTTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* *
3201970 GACATCATTTCATGGCTTAAT
1 G-CATCCTTTCATGCCTTAAT
*
3201991 GCATCCTTTCATTCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
3202011 GCATCCTTTCATGCATTTTATTTGT
1 GCATCCTTTCATGC--CTTA---AT
*
3202036 GGCATCCATTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
3202057 GCACCCTTTCATGCATTCAAGTTAT
1 GCATCCTTTCATGCCTT--A---AT
*
3202082 GGCATCATTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
**
3202103 GCA-CCATTTCATGTATTTTAGTTAT
1 GCATCC-TTTCATG--CCTTA---AT
*
3202128 GGCATCCTTTCATGCCTTACT
1 -GCATCCTTTCATGCCTTAAT
*
3202149 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* * *
3202174 GGCATCTTTTCATCCCTTACT
1 -GCATCCTTTCATGCCTTAAT
3202195 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
3202215 GCATCCTTTCATACATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
3202240 GGAATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
3202261 GCATCATTTCAT-CCATTTTAGTTAT
1 GCATCCTTTCATGCC---TTA---AT
*
3202286 GGCATCATTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
3202307 GCATCCTTTCATGC
1 GCATCCTTTCATGC
3202321 ATTTTAGTTA
Statistics
Matches: 284, Mismatches: 46, Indels: 92
0.67 0.11 0.22
Matches are distributed among these distances:
19 3 0.01
20 131 0.46
21 12 0.04
22 19 0.07
24 19 0.07
25 12 0.04
26 84 0.30
27 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:3202016 original size:66 final size:66
Alignment explanation
Indices: 3201925--3202272 Score: 298
Period size: 66 Copynumber: 5.2 Consensus size: 66
3201915 TTTAGTTATG
* * * * *
3201925 GCATCCTTGCAGGCCTTAATACATCCTTTCATGCGTTTTAGTTATGACATCATTTCATGGCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCCTTAA
3201990 T
66 T
* * * *
3201991 GCATCCTTTCATTCCTTAATGCATCCTTTCATGCATTTTATTTGTGGCATCCA-TTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACAT-CATTTCATGCCTTA
3202055 AT
65 AT
* * * * *
3202057 GCACCCTTTCATGCATTCAAGTTATGGCATCATTTCATGC--CTTA---ATG-CACCATTTCATG
1 GCATCCTTTCATGCCTT--A---AT-GCATCCTTTCATGCATTTTAGTTATGACATCATTTCATG
**
3202116 TATTTTAGTTAT
60 --CCTTA---AT
* * * *
3202128 GGCATCCTTTCATGCCTTACTGCATCCTTTCATGCATTTTAGTTATGGCATCTTTTCATCCCTTA
1 -GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCCTTA
*
3202193 CT
65 AT
* *
3202195 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA-ATCCTTTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT-GACATCATTTCATGCCTTA
3202259 AT
65 AT
*
3202261 GCATCATTTCAT
1 GCATCCTTTCAT
3202273 CCATTTTAGT
Statistics
Matches: 225, Mismatches: 36, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
65 2 0.01
66 158 0.70
67 7 0.03
68 7 0.03
70 7 0.03
71 7 0.03
72 37 0.16
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (66 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCCTTAA
T
Found at i:3202041 original size:46 final size:46
Alignment explanation
Indices: 3201991--3202208 Score: 303
Period size: 46 Copynumber: 4.7 Consensus size: 46
3201981 ATGGCTTAAT
* * *
3201991 GCATCCTTTCATTCCTTAATGCATCCTTTCATGCATTTTATTTGTG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
* * **
3202037 GCATCCATTCATGCCTTAATGCACCCTTTCATGCATTCAAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
* *
3202083 GCATCATTTCATGCCTTAATGCA-CCATTTCATGTATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCC-TTTCATGCATTTTAGTTATG
*
3202129 GCATCCTTTCATGCCTTACTGCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
* * *
3202175 GCATCTTTTCATCCCTTACTGCATCCTTTCATGC
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGC
3202209 CTTAATGCAT
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 149 0.97
47 2 0.01
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
Found at i:3202113 original size:112 final size:112
Alignment explanation
Indices: 3201913--3202114 Score: 282
Period size: 112 Copynumber: 1.8 Consensus size: 112
3201903 TTATTCGTAA
* * **
3201913 ATTTTAGTTATGGCATCCTTGCAGGCCTTAATACATCCTTTCATGCGTTTTAGTTATGACATCAT
1 ATTTTAGTTATGGCATCCTTGCAGGCCTTAATACACCCTTTCATGCATTCAAGTTATGACATCAT
*
3201978 TTCATGGCTTAATGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
* * * * *
3202025 ATTTTATTTGTGGCATCCATT-CATGCCTTAATGCACCCTTTCATGCATTCAAGTTATGGCATCA
1 ATTTTAGTTATGGCATCC-TTGCAGGCCTTAATACACCCTTTCATGCATTCAAGTTATGACATCA
3202089 TTTCATGCCTTAATGCA-CCATTTCAT
65 TTTCATGCCTTAATGCATCC-TTTCAT
3202115 GTATTTTAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 2 0.03
112 74 0.95
113 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (112 bp):
ATTTTAGTTATGGCATCCTTGCAGGCCTTAATACACCCTTTCATGCATTCAAGTTATGACATCAT
TTCATGCCTTAATGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
Found at i:3202138 original size:26 final size:25
Alignment explanation
Indices: 3202109--3202186 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
3202099 TAATGCACCA
3202109 TTTCATGTATTTTAGTTATGGCATCC
1 TTTCATG-ATTTTAGTTATGGCATCC
** *
3202135 TTTCATG-CCTTA---CT-GCATCC
1 TTTCATGATTTTAGTTATGGCATCC
*
3202155 TTTCATGCATTTTAGTTATGGCATCT
1 TTTCATG-ATTTTAGTTATGGCATCC
3202181 TTTCAT
1 TTTCAT
3202187 CCCTTACTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 13 0.33
21 1 0.03
22 3 0.08
24 3 0.08
25 1 0.03
26 18 0.46
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (25 bp):
TTTCATGATTTTAGTTATGGCATCC
Found at i:3202199 original size:112 final size:112
Alignment explanation
Indices: 3202083--3202320 Score: 370
Period size: 112 Copynumber: 2.1 Consensus size: 112
3202073 TCAAGTTATG
* ** *
3202083 GCATCATTTCATGCCTTAATGCA-CCATTTCATGTATTTTAGTTATGGCATCCTTTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCC-TTTCATACATTTTAGTTATGGAATCCTTTCATGCCTTA
* * * * *
3202147 CTGCATCCTTTCATGCATTTTAGTTATGGCATCTTTTCATCCCTTACT
65 ATGCATCATTTCATCCATTTTAGTTATGGCATCATTTCATCCCTTAAT
3202195 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCCTTTCATGCCTTAA
*
3202260 TGCATCATTTCATCCATTTTAGTTATGGCATCATTTCATGCCTTAAT
66 TGCATCATTTCATCCATTTTAGTTATGGCATCATTTCATCCCTTAAT
3202307 GCATCCTTTCATGC
1 GCATCCTTTCATGC
3202321 ATTTTAGTTA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
112 113 0.98
113 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (112 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCCTTTCATGCCTTAA
TGCATCATTTCATCCATTTTAGTTATGGCATCATTTCATCCCTTAAT
Found at i:3202206 original size:158 final size:158
Alignment explanation
Indices: 3201918--3202350 Score: 484
Period size: 158 Copynumber: 2.7 Consensus size: 158
3201908 CGTAAATTTT
* * * * * * * *
3201918 AGTTATGGCATCCTTGCAGGCCTTAATACATCC-TTTCATGCGTTTTAGTTATGACATCATTTCA
1 AGTTATGGAATCATTTCATGCCTTAATGCA-CCATTTCATCCATTTTAGTTATGGCATCATTTCA
* * * ** *
3201982 TGGCTTAATGCATCCTTTCATTC--CTTA---ATG-CATCCTTTCATGCATTTTATTTGTGGCAT
65 TGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCCTTTCAT-C-CCTTA---CT-GCAT
*
3202041 CCATTCATGCCTTAATGCACCCTTTCATGCATTCA
124 CCATTCATGCCTTAATGCACCCTTTCATACATTCA
* ** *
3202076 AGTTATGGCATCATTTCATGCCTTAATGCACCATTTCATGTATTTTAGTTATGGCATCCTTTCAT
1 AGTTATGGAATCATTTCATGCCTTAATGCACCATTTCATCCATTTTAGTTATGGCATCATTTCAT
* * * *
3202141 GCCTTACTGCATCCTTTCATGCATTTTAGTTATGGCATCTTTTCATCCCTTACTGCATCCTTTCA
66 GCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCCTTTCATCCCTTACTGCATCCATTCA
* **
3202206 TGCCTTAATGCATCCTTTCATACATTTT
131 TGCCTTAATGCACCCTTTCATACATTCA
* *
3202234 AGTTATGGAATCCTTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATGGCATCATTTCAT
1 AGTTATGGAATCATTTCATGCCTTAATGCACCATTTCATCCATTTTAGTTATGGCATCATTTCAT
* *
3202299 GCCTTAATGCATCCTTTCATGCATTTTAGTTATGATATCCTTTCATGCCTTA
66 GCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCCTTTCATCCCTTA
3202351 ATGATAACAT
Statistics
Matches: 236, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
157 2 0.01
158 213 0.90
159 1 0.00
160 3 0.01
162 3 0.01
163 4 0.02
164 10 0.04
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (158 bp):
AGTTATGGAATCATTTCATGCCTTAATGCACCATTTCATCCATTTTAGTTATGGCATCATTTCAT
GCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCCTTTCATCCCTTACTGCATCCATTCA
TGCCTTAATGCACCCTTTCATACATTCA
Found at i:3202247 original size:46 final size:46
Alignment explanation
Indices: 3202197--3202353 Score: 253
Period size: 46 Copynumber: 3.4 Consensus size: 46
3202187 CCCTTACTGC
3202197 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA
1 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA
* * *
3202243 ATCCTTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATGGC
1 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA
* *
3202289 ATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT-GA
1 ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA
3202334 TATCCTTTCATGCCTTAATG
1 -ATCCTTTCATGCCTTAATG
3202354 ATAACATATT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 101 0.99
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (46 bp):
ATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGA
Found at i:3202247 original size:92 final size:89
Alignment explanation
Indices: 3202175--3202353 Score: 249
Period size: 92 Copynumber: 2.0 Consensus size: 89
3202165 TTTAGTTATG
* * *
3202175 GCATCTTTTCATCC-CTTA-CT-GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGT
1 GCATCATTTCATCCACTTATATGGCATCATTTCATGCCTTAATGCATCCTTTCATACATTTTAGT
3202237 TATGGA-ATCCTTTCATGCCTTAAT
66 TAT-GATATCCTTTCATGCCTTAAT
* *
3202261 GCATCATTTCATCCATTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCATTTCATCCA-CTTA--TATGGCATCATTTCATGCCTTAATGCATCCTTTCATACATTTT
3202326 AGTTATGATATCCTTTCATGCCTTAAT
63 AGTTATGATATCCTTTCATGCCTTAAT
3202353 G
1 G
3202354 ATAACATATT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
86 13 0.16
88 3 0.04
91 3 0.04
92 62 0.77
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.44
Consensus pattern (89 bp):
GCATCATTTCATCCACTTATATGGCATCATTTCATGCCTTAATGCATCCTTTCATACATTTTAGT
TATGATATCCTTTCATGCCTTAAT
Found at i:3202263 original size:204 final size:204
Alignment explanation
Indices: 3201913--3202352 Score: 648
Period size: 204 Copynumber: 2.2 Consensus size: 204
3201903 TTATTCGTAA
* * *
3201913 ATTTTAGTTATGGCATCCTTGCAGGCCTTAATACATCCTTTCATGCGTTTTAGTTATGACATCAT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAGTTATGACATCAT
** * * * * *
3201978 TTCATGGCTTAATGCATCCTTTCATTCCTTAATGCATCCTTTCATGCATTTTATTTGTGGCATCC
66 TTCATCCCTTAATGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCC
* *
3202043 ATTCATGCCTTAATGCACCCTTTCATGCATTCAAGTTATGGCATCATTTCATGCCTTAATGCA-C
131 ATTCATGCCTTAATGCACCATTTCATCCATTCAAGTTATGGCATCATTTCATGCCTTAATGCATC
*
3202107 CATTTCATGT
196 C-TTTCATGC
* * * *
3202117 ATTTTAGTTATGGCATCCTTTCATGCCTTACTGCATCCTTTCATGCATTTTAGTTATGGCATCTT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAGTTATGACATCAT
*
3202182 TTCATCCCTTACTGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCC
66 TTCATCCCTTAATGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCC
* * **
3202247 TTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATGGCATCATTTCATGCCTTAATGCATC
131 ATTCATGCCTTAATGCACCATTTCATCCATTCAAGTTATGGCATCATTTCATGCCTTAATGCATC
3202312 CTTTCATGC
196 CTTTCATGC
**
3202321 ATTTTAGTTATGATATCCTTTCATGCCTTAAT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAAT
3202353 GATAACATAT
Statistics
Matches: 210, Mismatches: 25, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
204 208 0.99
205 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (204 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAGTTATGACATCAT
TTCATCCCTTAATGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGAATCC
ATTCATGCCTTAATGCACCATTTCATCCATTCAAGTTATGGCATCATTTCATGCCTTAATGCATC
CTTTCATGC
Found at i:3209110 original size:20 final size:20
Alignment explanation
Indices: 3209087--3209157 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
3209077 ATCCTTTGAG
*
3209087 GCATTAATGCATCTTTTCAT
1 GCATTAATGCATCATTTCAT
3209107 GCATTTTAGTTATGGCATCATTTCAT
1 GCA--TTA---AT-GCATCATTTCAT
* *
3209133 GCCTTAATGCATCCTTTCAT
1 GCATTAATGCATCATTTCAT
3209153 GCATT
1 GCATT
3209158 TTAGTTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
20 18 0.44
21 2 0.05
22 3 0.07
24 3 0.07
25 2 0.05
26 13 0.32
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (20 bp):
GCATTAATGCATCATTTCAT
Found at i:3209140 original size:46 final size:46
Alignment explanation
Indices: 3209063--3209183 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
3209053 TTATTCGTAA
* * *
3209063 ATTTTAGTTATGGCATCCTTTGAGGCATTAATGCATCTTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCATTAATGCATCCTTTCATGC
* *
3209109 ATTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCATTAATGCATCCTTTCATGC
*
3209155 ATTTTAGTTAGGGCATCCTTTCATGCATT
1 ATTTTAGTTATGGCATCCTTTCATGCATT
3209184 TTAGTTATGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCATTAATGCATCCTTTCATGC
Found at i:3209181 original size:72 final size:71
Alignment explanation
Indices: 3209095--3209390 Score: 290
Period size: 72 Copynumber: 4.2 Consensus size: 71
3209085 AGGCATTAAT
* *
3209095 GCATCTTTTCATGCATTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
*
3209160 AGTTAGG
66 A-TTATG
* * *
3209167 GCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATACCTTAATGCATCCTTCCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTT
3209232 TATTATG
65 TATTATG
* * * * *
3209239 GCATCATTTCATGC--CTTA---CT-GCATCCTTTCATGCATTTTAGTTATGTCGTCCTTTCATG
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CTTA---ATG-CATCCTTTCATG
*
3209298 C--CTTA--AT-
60 CATTTTATTATG
* *
3209305 GCATCCTTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
*
3209370 AGTTATT
66 A-TTATG
*
3209377 TCATCCTTTCATGC
1 GCATCCTTTCATGC
3209391 CTTAATGATA
Statistics
Matches: 181, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
66 36 0.20
67 6 0.03
68 9 0.05
69 3 0.02
70 6 0.03
71 6 0.03
72 110 0.61
73 5 0.03
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.45
Consensus pattern (71 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
ATTATG
Found at i:3209199 original size:118 final size:118
Alignment explanation
Indices: 3209063--3209298 Score: 357
Period size: 118 Copynumber: 2.0 Consensus size: 118
3209053 TTATTCGTAA
* * * * *
3209063 ATTTTAGTTATGGCATCCTTTGAGGCATTAATGCATCTTTTCATGCA-TTTTAGTTATGGCATCA
1 ATTTTAGTTATGGAATCCTTTCAGACATTAATGCATCCTTCCATGCATTTTTA-TTATGGCATCA
3209127 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAGGGCATCCTTTCATGC
65 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAGGGCATCCTTTCATGC
* *
3209181 ATTTTAGTTATGGAATCCTTTCATACCTTAATGCATCCTTCCATGCATTTTTATTATGGCATCAT
1 ATTTTAGTTATGGAATCCTTTCAGACATTAATGCATCCTTCCATGCATTTTTATTATGGCATCAT
* * * *
3209246 TTCATGCCTTACTGCATCCTTTCATGCATTTTAGTTATGTCGTCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAGGGCATCCTTTCATGC
3209299 CTTAATGCAT
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 101 0.95
119 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (118 bp):
ATTTTAGTTATGGAATCCTTTCAGACATTAATGCATCCTTCCATGCATTTTTATTATGGCATCAT
TTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAGGGCATCCTTTCATGC
Found at i:3209217 original size:46 final size:46
Alignment explanation
Indices: 3209167--3209397 Score: 347
Period size: 46 Copynumber: 5.0 Consensus size: 46
3209157 TTTAGTTAGG
* *
3209167 GCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
* * *
3209213 GCATCCTTCCATGCATTTTTA-TTATGGCATCATTTCATGCCTTACT
1 GCATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
3209259 GCATCCTTTCATGCATTTTAGTTATGTCGTCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
3209305 GCATCCTTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
* **
3209351 GCATCATTTCATGCATTTTAGTTATTTCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
3209397 G
1 G
3209398 ATAACATATT
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.03
46 158 0.94
47 5 0.03
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
Found at i:3209268 original size:20 final size:20
Alignment explanation
Indices: 3209195--3209364 Score: 97
Period size: 20 Copynumber: 7.6 Consensus size: 20
3209185 TAGTTATGGA
*
3209195 ATCCTTTCATACCTTAATGC
1 ATCCTTTCATGCCTTAATGC
* *
3209215 ATCCTTCCATGCATTTTTATTATGGC
1 ATCCTTTCATGC---CTTA--AT-GC
* *
3209241 ATCATTTCATGCCTTACTGC
1 ATCCTTTCATGCCTTAATGC
*
3209261 ATCCTTTCATGCATTTTAGTTATGTC
1 ATCCTTTCATGC--CTTA---ATG-C
*
3209287 GTCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
3209307 ATCCTTTCATGCATTTTAGTTATGAC
1 ATCCTTTCATGC--CTTA---ATG-C
3209333 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
3209353 ATCATTTCATGC
1 ATCCTTTCATGC
3209365 ATTTTAGTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
20 47 0.41
21 7 0.06
22 6 0.05
23 6 0.05
24 6 0.05
25 7 0.06
26 37 0.32
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.44
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAATGC
Found at i:3213821 original size:21 final size:20
Alignment explanation
Indices: 3213797--3213835 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3213787 CATAAAGGTC
3213797 TTTGTTGAGGCCATGAAATAT
1 TTTGTTGAGGCCAT-AAATAT
*
3213818 TTTGTTGATGCCATAAAT
1 TTTGTTGAGGCCATAAAT
3213836 TCTTATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTGTTGAGGCCATAAATAT
Found at i:3218771 original size:10 final size:10
Alignment explanation
Indices: 3218756--3218789 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3218746 AAACTTTATG
3218756 AAAATATTTT
1 AAAATATTTT
*
3218766 AAAATATGTT
1 AAAATATTTT
3218776 AAAATATATTT
1 AAAATAT-TTT
3218787 AAA
1 AAA
3218790 TAAAAATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
AAAATATTTT
Found at i:3220652 original size:10 final size:10
Alignment explanation
Indices: 3220628--3220659 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3220618 ACTTAATCAT
3220628 GCATAT-AAA
1 GCATATAAAA
3220637 -CATATAAAA
1 GCATATAAAA
3220646 GCATATAAAA
1 GCATATAAAA
3220656 GCAT
1 GCAT
3220660 GAAATTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.24
9 3 0.14
10 13 0.62
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.22
Consensus pattern (10 bp):
GCATATAAAA
Found at i:3222080 original size:18 final size:18
Alignment explanation
Indices: 3222029--3222081 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
3222019 ATAAAAAATA
3222029 AAAAAGAATAGAAAAAAGGC
1 AAAAA-AATA-AAAAAAGGC
* * *
3222049 AAAAAAAGAGAAAAAGTC
1 AAAAAAATAAAAAAAGGC
3222067 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
3222082 ATCCAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 20 0.71
19 3 0.11
20 5 0.18
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (18 bp):
AAAAAAATAAAAAAAGGC
Found at i:3230621 original size:58 final size:58
Alignment explanation
Indices: 3230552--3230667 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
3230542 CTAGTGGGAG
3230552 ATTGTTAGAGTATGCTCAAAGACCAATCATATAATGATTGTAATAATAATTTTATTTA
1 ATTGTTAGAGTATGCTCAAAGACCAATCATATAATGATTGTAATAATAATTTTATTTA
*
3230610 ATTGTTAGAGTATGCTCAAAGACCAATCATATGATGATTGTAATAATAATTTTATTTA
1 ATTGTTAGAGTATGCTCAAAGACCAATCATATAATGATTGTAATAATAATTTTATTTA
3230668 CCGATTTTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (58 bp):
ATTGTTAGAGTATGCTCAAAGACCAATCATATAATGATTGTAATAATAATTTTATTTA
Found at i:3235578 original size:2 final size:2
Alignment explanation
Indices: 3235571--3235604 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3235561 TACCTATAGG
* *
3235571 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3235605 TCCAAAAGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3236223 original size:93 final size:93
Alignment explanation
Indices: 3236112--3236404 Score: 478
Period size: 93 Copynumber: 3.2 Consensus size: 93
3236102 TACATTTCAA
* *
3236112 TCTTTCCTCCATTCGAACAAGAAACAATTCACCACATATGTATTCATGCAATCTATATGGCAATC
1 TCTTTCCTCTATTCGAACAAGAAGCAATTCACCACATATGTATTCATGCAATCTATATGGCAATC
*
3236177 GGATTAAACAATTCAACATGTACAACAC
66 GGATTAAACAATTCAACATGTACAACAT
* * * * *
3236205 TCTTTCCTCTATTTGAACAAGAAGCAATTCACCATATACGTATTCATGCAATATATATGGCATTC
1 TCTTTCCTCTATTCGAACAAGAAGCAATTCACCACATATGTATTCATGCAATCTATATGGCAATC
3236270 GGATTAAACAATTCAACATGTACAACAT
66 GGATTAAACAATTCAACATGTACAACAT
* * *
3236298 TTTTTCCTCTATTCGAACAATAAGCAATTCACCACTTATGTATTCATGCAATCTATATGGCAATC
1 TCTTTCCTCTATTCGAACAAGAAGCAATTCACCACATATGTATTCATGCAATCTATATGGCAATC
*
3236363 GGATTAAACAATTCAACATGTATAACAT
66 GGATTAAACAATTCAACATGTACAACAT
3236391 TCTTTCCTCTATTC
1 TCTTTCCTCTATTC
3236405 AGACAACACG
Statistics
Matches: 182, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 182 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (93 bp):
TCTTTCCTCTATTCGAACAAGAAGCAATTCACCACATATGTATTCATGCAATCTATATGGCAATC
GGATTAAACAATTCAACATGTACAACAT
Found at i:3236402 original size:49 final size:49
Alignment explanation
Indices: 3236163--3236402 Score: 123
Period size: 49 Copynumber: 5.1 Consensus size: 49
3236153 ATTCATGCAA
* *
3236163 TCTATATGGCAATCGGATTAAACAATTCAACATGTACAACACTCTTTCC
1 TCTATATGGCAATCGGATTAAACAATTCAACATGTATAACATTCTTTCC
* ** * * * * *
3236212 TCTAT-TTG-AA-C--AAGAAGCAATTCACCA--TAT-ACGTATTCATGCAA
1 TCTATATGGCAATCGGATTAAACAATTCAACATGTATAAC--ATTCTTTC-C
* * * *
3236256 TATATATGGCATTCGGATTAAACAATTCAACATGTACAACATTTTTTCC
1 TCTATATGGCAATCGGATTAAACAATTCAACATGTATAACATTCTTTCC
* * * * ** * * *
3236305 TCTAT-TCG-AA-C--AATAAGCAATTCACCACT-TAT-GTATTCATGCAA
1 TCTATATGGCAATCGGATTAAACAATTCAACA-TGTATAACATTCTTTC-C
3236349 TCTATATGGCAATCGGATTAAACAATTCAACATGTATAACATTCTTTCC
1 TCTATATGGCAATCGGATTAAACAATTCAACATGTATAACATTCTTTCC
3236398 TCTAT
1 TCTAT
3236403 TCAGACAACA
Statistics
Matches: 127, Mismatches: 44, Indels: 40
0.60 0.21 0.19
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 10 0.08
44 36 0.28
45 5 0.04
46 5 0.04
47 5 0.04
48 5 0.04
49 42 0.33
50 11 0.09
51 2 0.02
52 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (49 bp):
TCTATATGGCAATCGGATTAAACAATTCAACATGTATAACATTCTTTCC
Found at i:3242986 original size:18 final size:17
Alignment explanation
Indices: 3242953--3242985 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3242943 CTTTCAATTT
3242953 AATTAACTTAAATTTTC
1 AATTAACTTAAATTTTC
3242970 AATTCAACTT-AATTTT
1 AATT-AACTTAAATTTT
3242986 TACCTTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAACTTAAATTTTC
Found at i:3245458 original size:19 final size:20
Alignment explanation
Indices: 3245434--3245487 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
3245424 ATGTAGAAAT
3245434 AGTATCGATACT-GTA-ATGG
1 AGTATCGATACTAGTATAT-G
*
3245453 AGTATCGGTACTATAGTATATG
1 AGTATCGATAC--TAGTATATG
3245475 AGTATCGATACTA
1 AGTATCGATACTA
3245488 AGAGGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 1 0.03
22 14 0.48
23 2 0.07
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTAGTATATG
Found at i:3245506 original size:95 final size:96
Alignment explanation
Indices: 3245381--3245558 Score: 252
Period size: 95 Copynumber: 1.9 Consensus size: 96
3245371 ATTGATGTGG
* * *
3245381 GTATCGATACTATGAGGAAGGTATCAATACCATTGATTCCA-TAATGT-AGAAATAGTATCGATA
1 GTATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCAGAAATGTGA-AAATAGTATCGATA
* *
3245444 CTGTAATGGAGTATCGGTACTATAGTATATGA
65 CTGAAAGGGAGTATCGGTACTATAGTATATGA
* * *
3245476 GTATCGATACTAAGAGGAAGGTATCGATACCATGGATTCTAGAAATGTGAAAATGGTATCGATAC
1 GTATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCAGAAATGTGAAAATAGTATCGATAC
*
3245541 TGAAAGGGGGTATCGGTA
66 TGAAAGGGAGTATCGGTA
3245559 TCATAATATA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
95 37 0.51
96 34 0.47
97 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (96 bp):
GTATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCAGAAATGTGAAAATAGTATCGATAC
TGAAAGGGAGTATCGGTACTATAGTATATGA
Found at i:3245594 original size:96 final size:95
Alignment explanation
Indices: 3245383--3245581 Score: 242
Period size: 96 Copynumber: 2.1 Consensus size: 95
3245373 TGATGTGGGT
* * * *
3245383 ATCGATACTATGAGGAAGGTATCAATACCATTGATTCCATAATGTAGAAATAGTATCGATACTGT
1 ATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCAAAATGTAGAAATAGTATCGATACTGA
* * *
3245448 AATGGAGTATCGGTACTATAGTATATGAGT
66 AAGGGAGTATCGGTACTATAATATATGAGA
* * *
3245478 ATCGATACTAAGAGGAAGGTATCGATACCATGGATTCTAGAAATGT-GAAAATGGTATCGATACT
1 ATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCA-AAATGTAG-AAATAGTATCGATACT
*
3245542 GAAAGGGGGTATCGGTA-TCATAATATA-GAAGA
64 GAAAGGGAGTATCGGTACT-ATAATATATG-AGA
3245574 ATCGATAC
1 ATCGATAC
3245582 CAGGGTATAG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
95 38 0.43
96 51 0.57
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (95 bp):
ATCGATACTAAGAGGAAGGTATCAATACCATGGATTCCAAAATGTAGAAATAGTATCGATACTGA
AAGGGAGTATCGGTACTATAATATATGAGA
Found at i:3245998 original size:54 final size:54
Alignment explanation
Indices: 3245939--3246266 Score: 248
Period size: 54 Copynumber: 6.1 Consensus size: 54
3245929 GGCACTATAC
* ***
3245939 GTGCAA-ACAAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGACACTAAGT
1 GTGCAACACAAAG-AATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
* * * * *
3245993 GTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGT
1 GTGCAACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
** * * * * * * *
3246047 GTAAAACCCACATAATTCGTCATATGTTGATGAACAACCGTATAGGCACTAAGT
1 GTGCAACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
* * * ** * *
3246101 GTGAAACCCACAGAATTCATCTTATGTTGATGAACAACCGTATAGGCACTAAGT
1 GTGCAACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
* * * * * * * *
3246155 GTGCAACCCACAGAATTCATCATAGGTTAATGAACAA-CATATAGGCACTATGT
1 GTGCAACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
** * * ** * *
3246208 GTGCGAAC-CACGGAATTCATAATATGTTAATGAATGACCGTATAGGCACTACGT
1 GTGC-AACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
3246262 GTGCA
1 GTGCA
3246267 TCTCAAGGAA
Statistics
Matches: 241, Mismatches: 30, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
53 43 0.18
54 194 0.80
55 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
GTGCAACACAAAGAATTCATAATAAGTTGATGAACAACCGTATAGACACTAAGT
Done.