Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 173 of 210
Found at i:57443624 original size:12 final size:12
Alignment explanation
Indices: 57443607--57443648 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
57443597 TCAGATCCAA
57443607 TCAAAAAATATT
1 TCAAAAAATATT
*
57443619 TCAAAAAA-AAT
1 TCAAAAAATATT
*
57443630 T-AGAAAATATT
1 TCAAAAAATATT
57443641 TCAAAAAA
1 TCAAAAAA
57443649 ATGAAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.21
11 6 0.25
12 13 0.54
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (12 bp):
TCAAAAAATATT
Found at i:57444667 original size:43 final size:43
Alignment explanation
Indices: 57444603--57444697 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
57444593 TACTTTGCAT
* * *
57444603 AAAAAAAGACTAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCC
1 AAAAAAA-ACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
* * **
57444647 AAAAAAAACCAAGGTAAAAACCCGCAAAGGGTACTTTGAGTTT
1 AAAAAAAACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
57444690 AAAAAAAA
1 AAAAAAAA
57444698 AGGTAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 37 0.84
44 7 0.16
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (43 bp):
AAAAAAAACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
Found at i:57445963 original size:48 final size:46
Alignment explanation
Indices: 57445892--57446011 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 46
57445882 AAACCACAAA
* * * * * *
57445892 TCTTATACCACTGAAGTTGCAGTGGAATAGACTGAAGAGAATGTCGAA-
1 TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGA-AAAG-C-AAG
* *
57445940 TCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGAAAAGCAAG
1 TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGAAAAGCAAG
57445986 TCTTATCCCCCTGAAGTTACAGTGGA
1 TCTTATCCCCCTGAAGTTACAGTGGA
57446012 GCAGATTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 26 0.42
47 3 0.05
48 31 0.50
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (46 bp):
TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGAAAAGCAAG
Found at i:57446057 original size:44 final size:43
Alignment explanation
Indices: 57445938--57446370 Score: 218
Period size: 44 Copynumber: 9.8 Consensus size: 43
57445928 GAGAATGTCG
* * * * **
57445938 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * *
57445981 GCAAGTCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAA
1 --AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * * *
57446027 TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTGACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-A
* ** *
57446072 AGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTT-AAGAT-AGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAG-TCA--A
* * *
57446117 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-------TCA-A
* ** * * * * *
57446168 GATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TCATGGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * *
57446209 AATCTTATCTCCTTGAAGTTGTAGT---GTAGATTAAAGTCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * * *** *
57446249 TAATCCTATCTCCTTGAAGTTGTAGTGGAATGGATTAAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-A
* * * *
57446294 AGTCTTATCT-CCTAGAAGTTGCAATGGAGCAGATTGAAG-AAA
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGTCAA
*
57446336 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
57446371 CTGAAAAAAG
Statistics
Matches: 304, Mismatches: 60, Indels: 49
0.74 0.15 0.12
Matches are distributed among these distances:
38 5 0.02
39 4 0.01
40 1 0.00
41 47 0.15
42 1 0.00
43 4 0.01
44 130 0.43
45 45 0.15
46 35 0.12
50 3 0.01
51 28 0.09
52 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
Found at i:57446413 original size:45 final size:44
Alignment explanation
Indices: 57446292--57446406 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
57446282 ATTAAAGTTA
* * *
57446292 CAAGTCTTATCTCCTAGAAGTTGCAATGGAGCAGATTGAAGAAAC
1 CAAGTCTTATCTCCT-GAAGTTGCAGTGGAGCAGACTGAAAAAAC
* *
57446337 CAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAG
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAAAAAC
57446381 CAAGTCTTATCCTCCTGAAGTTGCAG
1 CAAGTCTTAT-CTCCTGAAGTTGCAG
57446407 CAGAGCAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 35 0.57
45 24 0.39
46 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
CAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAC
Found at i:57446466 original size:222 final size:222
Alignment explanation
Indices: 57445980--57446415 Score: 480
Period size: 222 Copynumber: 2.0 Consensus size: 222
57445970 ACTGAAGAAA
* * *
57445980 AGCAAGTCTTATCCCCCT-GAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGA
1 AGCAAATCTTAT-CTCCTGGAAGTTGCAGTGGA-CAGATTAAAGCCAATAATCCTATCTCCCTGA
* * *
57446044 AGTTGTAGTGGAGCGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTTA
64 AGTTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTTA
* * * * * * *
57446109 AGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATCACAGATCTT
129 AGATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAA-C-ATAAAGCACAGATCTT
* * * *
57446174 ATCTCTTTGAAGTTGCAGTAGAGTAGATCAT
192 ATCTCTCTGAAGTTGCAGCAGAGCAAATCAT
* * * * * *
57446205 GGCAAATCTTATCTCCTTGAAGTTGTAGT-G-TAGATTAAAGTCAATAATCCTATCTCCTTGAAG
1 AGCAAATCTTATCTCCTGGAAGTTGCAGTGGACAGATTAAAGCCAATAATCCTATCTCCCTGAAG
* * *
57446268 TTGTAGTGGAATGGATTAAAGTTACAAGTCTTATCT-CCTAGAAGTTGCAATGGAGCAGA-TTGA
66 TTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCT-GAAGTTGCAATGGAACAGACTT-A
* *
57446331 AGA-AACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-A-AAAGCA-AG-TCTTAT
129 AGATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACATAAAGCACAGATCTTAT
57446391 C-CTCCTGAAGTTGCAGCAGAGCAAA
194 CTCT-CTGAAGTTGCAGCAGAGCAAA
57446416 CTAAAGATAG
Statistics
Matches: 180, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
214 2 0.01
215 24 0.13
216 2 0.01
217 5 0.03
218 1 0.01
221 39 0.22
222 83 0.46
224 5 0.03
225 19 0.11
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (222 bp):
AGCAAATCTTATCTCCTGGAAGTTGCAGTGGACAGATTAAAGCCAATAATCCTATCTCCCTGAAG
TTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTTAAG
ATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACATAAAGCACAGATCTTATCT
CTCTGAAGTTGCAGCAGAGCAAATCAT
Found at i:57446607 original size:143 final size:142
Alignment explanation
Indices: 57446343--57447039 Score: 907
Period size: 143 Copynumber: 4.9 Consensus size: 142
57446333 AAACCAATCC
* * *** * *
57446343 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAGCAAGTCTTATC-CTCCTGAAGTTGCAG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTC-CCTGAAGTTGCAG
** * * * * * * *
57446407 CAGAGCAAACTAAAGATAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTATA
64 TGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCTACA
57446472 AATTATGGCAGATCT
128 AATTATGGCAGATCT
*
57446487 TATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
**
57446552 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTATAGTAGAACAAATTAAAGCTACAAA
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCTACAAA
**
57446617 TTATGGTGGATCT
130 TTATGGCAGATCT
* *
57446630 TATCTTTCTAAAGTTGCAGT-GAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
*
57446694 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGATTAAAGCTACAAA
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTG-AACAAATTAAAGCTACAAA
57446759 TTATGGCAGATCT
130 TTATGGCAGATCT
* * * * *
57446772 TATCTTCCT-ACAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTATCTCCCTAAAGTTGCAGC
1 TATCTTCCTGA-AGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGT
* * *
57446836 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAACAAATTAAATCTACGA
65 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTG-AACAAATTAAAGCTACAA
*
57446901 GTTATGGC-GAATCT
129 ATTATGGCAG-ATCT
* * * ** *
57446915 TATCTTCCTGAAGTTGTAGTGAAACAGATTGAAGCCATTAGCTTTATCTCCCTGAAGTTGCAGTG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
* * *
57446980 GAACAGACTGAAGACAGCGAATCTTATTTCCCCGGTGTTGCAGTGGAACAAATTAAAGCT
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCT
57447040 GAAGGCAGTG
Statistics
Matches: 491, Mismatches: 55, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
141 2 0.00
142 133 0.27
143 322 0.66
144 34 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (142 bp):
TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAACAAATTAAAGCTACAAAT
TATGGCAGATCT
Found at i:57446917 original size:285 final size:286
Alignment explanation
Indices: 57446386--57447039 Score: 947
Period size: 285 Copynumber: 2.3 Consensus size: 286
57446376 AAAAGCAAGT
** * * * * *
57446386 CTTATC-CTCCTGAAGTTGCAGCAGAGCAAACTAAAGATAGTGAATCTTATTTCCCTGGCATTGC
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGC
*
57446450 AGTGGAACAGATTAAAGCTATAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGA
65 AGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGA
* * *
57446515 TTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATT
130 TTAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATT
* * * *
57446580 TCCCTGGCGTTATAGTAGAACAAATTAAAGCTACAAATTATGGTGGATCTTATCTTTCTAAAGTT
195 TCCCTGGCGTTACAGTAGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGTT
*
57446645 GCAGTG-AGCAGATTGAAGCCACCAGC
260 GCAGTGAAACAGATTGAAGCCACCAGC
57446671 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
57446736 GTGAAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCT-ACAGTTGCAGTGGAGTAGA
66 GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGA-AGTTACAGTGGAGCAGA
* *
57446800 TTAAAGCCATCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTATT
130 TTAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATT
* * * * *
57446865 TCCCTGGCGTTGCAGT-GAAACAAATTAAATCTACGAGTTATGGCGAATCTTATCTTCCTGAAGT
195 TCCCTGGCGTTACAGTAG-AACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGT
* **
57446929 TGTAGTGAAACAGATTGAAGCCATTAGC
259 TGCAGTGAAACAGATTGAAGCCACCAGC
* * * *
57446957 TTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTCCCCGGTGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
*
57447022 GTGGAACAAATTAAAGCT
66 GTGGAACAGATTAAAGCT
57447040 GAAGGCAGTG
Statistics
Matches: 330, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
284 2 0.01
285 233 0.71
286 95 0.29
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGAT
TAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTT
CCCTGGCGTTACAGTAGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGTTG
CAGTGAAACAGATTGAAGCCACCAGC
Found at i:57447828 original size:21 final size:23
Alignment explanation
Indices: 57447775--57447828 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 23
57447765 TATTATGTAA
57447775 TATTATTTTAAGTTTTCCATATAT
1 TATTATTTTAAG-TTTCCATATAT
57447799 TATTA-TTTAA-TTT-CATA-AT
1 TATTATTTTAAGTTTCCATATAT
57447818 CTATTATTTTA
1 -TATTATTTTA
57447829 CATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTTTAAGTTTCCATATAT
Found at i:57448317 original size:225 final size:226
Alignment explanation
Indices: 57447910--57448369 Score: 897
Period size: 225 Copynumber: 2.0 Consensus size: 226
57447900 AAATCTATTT
*
57447910 TTATATATTTCTAACTTCAAAGATTTATACAATAATATTTTCATAATTCTATTTCATATATGTAT
1 TTATTTATTTCTAACTTCAAAGATTTATACAATAATATTTTCATAATTCTATTTCATATATGTAT
57447975 ATACAATTTGTATTGAATTATTTCTATTATCCATATGTATATATGTAATATACTATTGATTTCCA
66 ATACAATTTGTATTGAATTATTTCTATTATCCATATGTATATATGTAATATACTATTGATTTCCA
57448040 ATTATATATTTTTTACCTATTTTCTATATATATATATTCTTTAAATTCTCTATTTTATTTTACTT
131 ATTATATATTTTTTACCTATTTTCTATATATATATATTCTTTAAATTCTCTATTTTATTTTACTT
57448105 GTTTCAACTTTTACATATATGTTATTATATA
196 GTTTCAACTTTTACATATATGTTATTATATA
57448136 TTATTTATTTCTAAC-TCAAAGATTTATACAATAATATTTTCATAATTCTATTTCATATATGTAT
1 TTATTTATTTCTAACTTCAAAGATTTATACAATAATATTTTCATAATTCTATTTCATATATGTAT
57448200 ATACAATTTGTATTGAATTATTTCTATTATCCATATGTATATATGTAATATACTATTGATTTCCA
66 ATACAATTTGTATTGAATTATTTCTATTATCCATATGTATATATGTAATATACTATTGATTTCCA
57448265 ATTATATATTTTTTACCTATTTTCTATATATATATATTCTTTAAATTCTCTATTTTATTTTACTT
131 ATTATATATTTTTTACCTATTTTCTATATATATATATTCTTTAAATTCTCTATTTTATTTTACTT
57448330 GTTTCAACTTTTACATATATGTTATTATATA
196 GTTTCAACTTTTACATATATGTTATTATATA
57448361 TTA-TTATTT
1 TTATTTATTT
57448370 GTATTGAGTG
Statistics
Matches: 233, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
224 6 0.03
225 213 0.91
226 14 0.06
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.53
Consensus pattern (226 bp):
TTATTTATTTCTAACTTCAAAGATTTATACAATAATATTTTCATAATTCTATTTCATATATGTAT
ATACAATTTGTATTGAATTATTTCTATTATCCATATGTATATATGTAATATACTATTGATTTCCA
ATTATATATTTTTTACCTATTTTCTATATATATATATTCTTTAAATTCTCTATTTTATTTTACTT
GTTTCAACTTTTACATATATGTTATTATATA
Found at i:57450332 original size:50 final size:50
Alignment explanation
Indices: 57450278--57450476 Score: 211
Period size: 50 Copynumber: 3.9 Consensus size: 50
57450268 TACATGGAGT
* * * * * * *
57450278 TCTCATATCAGTGCCTATGCCATGTCCCAGACCTAGTCTTAC-GGGGCACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACACGGG-ACC
57450328 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACACGGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACACGGGACC
* * *
57450378 TCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACACGGGACC
* * *
57450428 TCTCATAATGTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TCTC---ATCTC---GGTGCCAACGCCATGTCCCAGACATGGTCTTACA
57450477 TCGGATCTCA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
50 90 0.71
51 3 0.02
53 3 0.02
56 31 0.24
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACACGGGACC
Found at i:57452833 original size:4 final size:4
Alignment explanation
Indices: 57452824--57452850 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
57452814 TAAAAGTAAA
57452824 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
57452851 ATGATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:57456379 original size:11 final size:11
Alignment explanation
Indices: 57456363--57456390 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57456353 TATATATTTT
57456363 AAATTATATAA
1 AAATTATATAA
57456374 AAATTATATAA
1 AAATTATATAA
57456385 AAATTA
1 AAATTA
57456391 ATATTGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATTATATAA
Found at i:57465342 original size:40 final size:40
Alignment explanation
Indices: 57465298--57465427 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 40
57465288 ACTTTGTTTA
* * *
57465298 GCACTTAGTATGTGATTCGAG-ATAGCTTC-GACTATTTATG
1 GCACTTAGTATGCGATT-GAGAATAACTTCAG-CTATATATG
*
57465338 GCACTTAGTGTGCGATTGAGAATAACTTCAGCTATATATG
1 GCACTTAGTATGCGATTGAGAATAACTTCAGCTATATATG
* * * * * *
57465378 GCACTTAGTGTACGAAACTGAG-ATAGCTTCAGCTATGTAAG
1 GCACTTAGTATGCG--ATTGAGAATAACTTCAGCTATATATG
57465419 GCACTTAGT
1 GCACTTAGT
57465428 GTGTGGGATC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.04
40 43 0.56
41 26 0.34
42 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (40 bp):
GCACTTAGTATGCGATTGAGAATAACTTCAGCTATATATG
Found at i:57465422 original size:41 final size:39
Alignment explanation
Indices: 57465316--57465429 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
57465306 TATGTGATTC
* * *
57465316 GAGATAGCTTC-GACTATTTATGGCACTTAGTGTGCGATT
1 GAGATAGCTTCAG-CTATATATGGCACTTAGTGTACGACT
*
57465355 GAGAATAACTTCAGCTATATATGGCACTTAGTGTACGAAACT
1 GAG-ATAGCTTCAGCTATATATGGCACTTAGTGTACG--ACT
* *
57465397 GAGATAGCTTCAGCTATGTAAGGCACTTAGTGT
1 GAGATAGCTTCAGCTATATATGGCACTTAGTGT
57465430 GTGGGATCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.05
40 28 0.44
41 28 0.44
42 5 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (39 bp):
GAGATAGCTTCAGCTATATATGGCACTTAGTGTACGACT
Found at i:57466287 original size:23 final size:23
Alignment explanation
Indices: 57466115--57466286 Score: 256
Period size: 23 Copynumber: 7.5 Consensus size: 23
57466105 TGACTAATTG
57466115 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57466138 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57466161 AT-CTTGTCCAATTTGGTGTATAA
1 ATGC-TGTCCAATTTGATGTATAA
*
57466184 ATGCTGTCCAATTTGCTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57466207 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57466230 ATGCTATCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* *
57466253 ATGTTGTCCAAATTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57466276 AAGCTGTCCAA
1 ATGCTGTCCAA
57466287 AACAGGGTAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 135 0.99
24 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:57468007 original size:50 final size:50
Alignment explanation
Indices: 57467894--57468016 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 50
57467884 TTATGAAAGG
* * * ***
57467894 TCCCACATAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
57467944 TCCCCCGTCAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
57467994 TCTCATGTAAGACCGTATCTGGG
1 TCCCACGTAAGACCATGTCTGGG
57468017 TTATGGAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:57468304 original size:20 final size:20
Alignment explanation
Indices: 57468279--57468317 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
57468269 TGAGTTATTT
57468279 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
57468299 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
57468318 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:57478276 original size:12 final size:12
Alignment explanation
Indices: 57478259--57478295 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
57478249 TACCCAATTA
*
57478259 AATTAATTCAAT
1 AATTAATTTAAT
57478271 AATTAATTTAAT
1 AATTAATTTAAT
57478283 AATTAATTTAAT
1 AATTAATTTAAT
57478295 A
1 A
57478296 CATGTGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAATTTAAT
Found at i:57483684 original size:50 final size:50
Alignment explanation
Indices: 57483629--57483768 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
57483619 TATGGAGGTT
* * * *
57483629 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
*
57483679 ATGAGAGGTCTACC--GTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTC--CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * *
57483729 ATGAGAACTCTCATGTAAGACCATATTTGGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
57483769 TTGCTGTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
48 1 0.01
50 72 0.96
52 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:57484047 original size:20 final size:20
Alignment explanation
Indices: 57484022--57484060 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
57484012 TGAGTTATTT
57484022 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
57484042 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
57484061 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:57491099 original size:40 final size:40
Alignment explanation
Indices: 57491016--57491239 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
57491006 GATAAATCGA
* * * * *
57491016 CTATGTTTAGCACTTAGTATGTGATT-CGAGATAGCTTCTG
1 CTATGTATGGCACTTAGTGTGTGATTGGGA-ATAGCTTCGG
* * *
57491056 CTATTTATGGCACTTAGTGTGTAATTGGGAATAACTTCGG
1 CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
* *
57491096 CTATGTATGGCACTTAGTATGTGATT-CGAGATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGTGATTGGGA-ATAGCTTCGG
* * *
57491136 CTATTTATGGCACTTAGTGTTTGATTGGGAATAGCTTCGA
1 CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
* * * *
57491176 ATATGTATGGCACTTAGTGTGCGAAAATGAG-ATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGTG--ATTGGGAATAGCTTCGG
* * *
57491217 CTATATAAGGCACTTAGTATGTG
1 CTATGTATGGCACTTAGTGTGTG
57491240 GGATTATAAT
Statistics
Matches: 149, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.01
40 112 0.75
41 31 0.21
42 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
Found at i:57491149 original size:80 final size:80
Alignment explanation
Indices: 57491012--57491234 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 80
57491002 CATCGATAAA
* * *
57491012 TCGACTATGTTTAGCACTTAGTATGTGATTCGAGATAGCTTCTGCTATTTATGGCACTTAGTGTG
1 TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
57491077 TAATTGGGAATAACT
66 TAATTGGGAATAACT
* *
57491092 TCGGCTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTT
1 TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
* *
57491157 TGATTGGGAATAGCT
66 TAATTGGGAATAACT
* * * * * *
57491172 TCGAATATGTATGGCACTTAGTGTGCGAAAAT-GAGATAGCTTCGGCTATATAAGGCACTTAGT
1 TCGACTATGTATGGCACTTAGTATGTG--ATTCGAGATAGCTTCGGCTATTTATGGCACTTAGT
57491235 ATGTGGGATT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 96 0.76
81 29 0.23
82 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (80 bp):
TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
TAATTGGGAATAACT
Found at i:57491950 original size:23 final size:23
Alignment explanation
Indices: 57491924--57492141 Score: 328
Period size: 23 Copynumber: 9.5 Consensus size: 23
57491914 TGACTGATTG
57491924 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57491947 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
57491970 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57491993 ATGCTGTCCAATTTGCTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* *
57492016 ATGCTGTCTAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57492039 ATGCTATCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57492062 ATGCTGTCCAATTTGATGTGTAA
1 ATGCTGTCCAATTTGATGTATAA
* *
57492085 ATGTTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* * *
57492108 ATGTTGTCTAATTTAATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
57492131 AAGCTGTCCAA
1 ATGCTGTCCAA
57492142 AACATGGTAG
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 176 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:57493754 original size:16 final size:17
Alignment explanation
Indices: 57493733--57493770 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
57493723 AATAAAAGGT
57493733 AGAGAATAAG-GAACAA
1 AGAGAATAAGAGAACAA
* *
57493749 AGAGAATGAGAGAGCAA
1 AGAGAATAAGAGAACAA
57493766 AGAGA
1 AGAGA
57493771 GAACGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.58, C:0.05, G:0.32, T:0.05
Consensus pattern (17 bp):
AGAGAATAAGAGAACAA
Found at i:57495668 original size:38 final size:38
Alignment explanation
Indices: 57495612--57495760 Score: 208
Period size: 38 Copynumber: 3.9 Consensus size: 38
57495602 AGAAGCATAA
* ** *
57495612 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTCATGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
* **
57495650 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTATTGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
*
57495688 TGTTATTCAGGCTCTGTGCCTAGTAGGCTTTGTGCTGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
**
57495726 TGTTATTCAAACTCTGTGCCTAGCAGGCTTTGTGC
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGC
57495761 CTAACAGCCT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.13, C:0.21, G:0.29, T:0.38
Consensus pattern (38 bp):
TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
Found at i:57495822 original size:38 final size:38
Alignment explanation
Indices: 57495780--57495977 Score: 175
Period size: 38 Copynumber: 5.1 Consensus size: 38
57495770 TTCCTGTCGA
* *
57495780 TGTTATTCGGGCTCTGTGCCTAGCAGTCTTTGTGCCAG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * *
57495818 TGTTATTCAGTCTTTGTGCTGGTGTTAGTCAGGCTTTGTGCCAG
1 TGTTATTCAGGCTCTGTGC-----CTAG-CAGGCTTTGTGCCAG
* * * *
57495862 TGCTAGTC-GCGCTCTATGCCTAGCAGGCTTTATGCCAG
1 TGTTATTCAG-GCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * * *
57495900 TGTTATTCAGGTTCTATGCCTAGCATGCTTTGTGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * *
57495938 TGTTATTCAGGCTTTGTCCCTAGCAGGC-TTGTGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
57495975 TGT
1 TGT
57495978 ATTGAAAGTT
Statistics
Matches: 129, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
37 12 0.09
38 83 0.64
39 4 0.03
43 4 0.03
44 26 0.20
ACGTcount: A:0.12, C:0.22, G:0.28, T:0.37
Consensus pattern (38 bp):
TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
Found at i:57495831 original size:22 final size:22
Alignment explanation
Indices: 57495803--57495869 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
57495793 CTGTGCCTAG
*
57495803 CAGTCTTTGTGCCAGTGTTATT
1 CAGTCTTTGTGCCAGTGTTAGT
**
57495825 CAGTCTTTGTGCTGGTGTTAGT
1 CAGTCTTTGTGCCAGTGTTAGT
* *
57495847 CAGGCTTTGTGCCAGTGCTAGT
1 CAGTCTTTGTGCCAGTGTTAGT
57495869 C
1 C
57495870 GCGCTCTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.12, C:0.19, G:0.28, T:0.40
Consensus pattern (22 bp):
CAGTCTTTGTGCCAGTGTTAGT
Found at i:57511703 original size:26 final size:26
Alignment explanation
Indices: 57511646--57511707 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
57511636 TACCTACAGT
* *
57511646 AGTTTTAGAATATCATAACGTGTATC
1 AGTTTCAGAATATCATAACATGTATC
* *
57511672 AGTTTCAGAATATCATAGCATGTCTC
1 AGTTTCAGAATATCATAACATGTATC
57511698 -GATTTCAGAA
1 AG-TTTCAGAA
57511708 CACTTATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATGTATC
Found at i:57528594 original size:38 final size:37
Alignment explanation
Indices: 57528534--57528867 Score: 149
Period size: 38 Copynumber: 8.7 Consensus size: 37
57528524 ATAATGTTAT
* *
57528534 TGCCTAGCAAGCTTCGTGCCGGTGTTATTCGAGCTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTC-AGCTCTG
* *
57528572 TGCCTAGCAGGCTTTGTACCGGTGTTATTCAGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCA-GCTCTG
* * * *
57528610 TGCCTAGTAGGCTTTATGTCGGTGTTATTTAGACTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAG-CTCTG
* * * * * * * *
57528648 TGACTAGAAGGATTTGTGTCGATGTTATTCTGGTTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTC-AGCTCTG
* * ** * *
57528686 TGCC--G--GTGTTATTCGGGCTCTATGTCTA-GCAGGCTTTG
1 TGCCTAGCAG-GCT-TT-GTGC-CGGTGT-TATTCA-GCTCTG
** * * ** *
57528724 TGCCAGTGTTATTTAGGCTTTGTGTCGGTGCTATTTGGGGTCTG
1 TGCC-----TA-GCAGGCTTTGTGCCGGTGTTA-TTCAGCTCTG
* * * *
57528768 TGCCTAGCAGACTTTGTCCCGGTGTTATTTGAGTTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTA-TTCAGCTCTG
*
57528806 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAGGCTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCA-GCTCTG
57528844 TGCCTAGCAGGC-TTGTGCCGGTGT
1 TGCCTAGCAGGCTTTGTGCCGGTGT
57528868 ATTGAAAGTT
Statistics
Matches: 222, Mismatches: 52, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
34 1 0.00
35 2 0.01
36 3 0.01
37 19 0.09
38 172 0.77
39 5 0.02
43 2 0.01
44 11 0.05
45 2 0.01
46 2 0.01
47 2 0.01
48 1 0.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (37 bp):
TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAGCTCTG
Found at i:57528734 original size:60 final size:59
Alignment explanation
Indices: 57528670--57528809 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
57528660 TTTGTGTCGA
* * * *
57528670 TGTTATTCTGGTTTTGTGCCGGTGTTATTCGGGCTCTATGTCTAGCAGGCTTTGTGCCAG
1 TGTTATT-TGGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
* * * * * *
57528730 TGTTATTTAGGCTTTGTGTCGGTGCTATTTGGGGTCTGTGCCTAGCAGACTTTGTCCCGG
1 TGTTATTT-GGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
*
57528790 TGTTATTTGAGTTCTGTGCC
1 TGTTATTTG-GTTTTGTGCC
57528810 TAGCAGGCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 2 0.03
60 63 0.97
ACGTcount: A:0.10, C:0.18, G:0.30, T:0.42
Consensus pattern (59 bp):
TGTTATTTGGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
Found at i:57528758 original size:22 final size:22
Alignment explanation
Indices: 57528716--57528759 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
57528706 TATGTCTAGC
*
57528716 AGGCTTTGTGCCAGTGTTATTT
1 AGGCTTTGTGCCAGTGCTATTT
* *
57528738 AGGCTTTGTGTCGGTGCTATTT
1 AGGCTTTGTGCCAGTGCTATTT
57528760 GGGGTCTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.45
Consensus pattern (22 bp):
AGGCTTTGTGCCAGTGCTATTT
Found at i:57533445 original size:17 final size:17
Alignment explanation
Indices: 57533423--57533456 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
57533413 TAAATGTTTT
57533423 TTGAAATT-AGAATCTAA
1 TTGAAATTCA-AATCTAA
57533440 TTGAAATTCAAATCTAA
1 TTGAAATTCAAATCTAA
57533457 AATTCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (17 bp):
TTGAAATTCAAATCTAA
Found at i:57534511 original size:23 final size:22
Alignment explanation
Indices: 57534468--57534513 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
57534458 CTAAAAATTA
*
57534468 TAAAATATAAATTTAACTTTCC
1 TAAAATATAAAATTAACTTTCC
*
57534490 TAAAATATAAAAATTAATTTTCC
1 TAAAATAT-AAAATTAACTTTCC
57534513 T
1 T
57534514 CCGCCTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATATAAAATTAACTTTCC
Found at i:57535297 original size:23 final size:22
Alignment explanation
Indices: 57535254--57535299 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
57535244 CTAAAAATTA
*
57535254 TAAAATATAAATTTAACTTTCC
1 TAAAATATAAAATTAACTTTCC
*
57535276 TAAAATATAAAAATTAATTTTCC
1 TAAAATAT-AAAATTAACTTTCC
57535299 T
1 T
57535300 CCGCCTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATATAAAATTAACTTTCC
Found at i:57535687 original size:786 final size:788
Alignment explanation
Indices: 57534175--57535750 Score: 3104
Period size: 786 Copynumber: 2.0 Consensus size: 788
57534165 TTGGATAAAT
57534175 AATTGAATTGGCTTTTGAGTAAACCACTATAAACCAATTGAACTAAGCTAAAAATAATCAATTGA
1 AATTGAATTGGCTTTTGAGTAAACCACTATAAACCAATTGAACTAAGCTAAAAATAATCAATTGA
57534240 ACTATTTTTCTCTATTTTTAAATTCTTTTTATATTTTATGATTTTTTAAAAAATTATTTAACTAA
66 ACTATTTTTCTCTATTTTTAAATTCTTTTTATATTTTATGATTTTTTAAAAAATTATTTAACTAA
57534305 ACTGTGATCAACCGATTCGGTTTTAAAAACCTTAATCTCTTGCCCCATAAAATAGGAAAAATACA
131 ACTGTGATCAACCGATTCGGTTTTAAAAACCTTAATCTCTTGCCCCATAAAATAGGAAAAATACA
57534370 TTATAATCCTTTTAAACATATAAAATTCTAAGTTAATAATTTGTAAAATTACAGTTTACTCCAAA
196 TTATAATCCTTTTAAACATATAAAATTCTAAGTTAATAATTTGTAAAATTACAGTTTACTCCAAA
57534435 AATTGTTAAAATTTTTATTTATTCTAAAAATTATAAAATATAAATTTAACTTTCCTAAAATATAA
261 AATTGTTAAAATTTTTATTTATTCTAAAAATTATAAAATATAAATTTAACTTTCCTAAAATATAA
57534500 AAATTAATTTTCCTCCGCCTTTGAAAAATTATGGCTTCGTCACAGGTCATATAGTCATGATGATA
326 AAATTAATTTTCCTCCGCCTTTGAAAAATTATGGCTTCGTCACAGGTCATATAGTCATGATGATA
57534565 TGTAATTGTCAGTCTAATTACCATCATTAAAATAACTTTCAACTTTATATCATGAATCATCATTT
391 TGTAATTGTCAGTCTAATTACCATCATTAAAATAACTTTCAACTTTATATCATGAATCATCATTT
57534630 TTTTTGTCATAAACATATTCAACATATTGCTAGAATTTCCATTATACTTGTATGAACAGAATATA
456 TTTTTGTCATAAACATATTCAACATATTGCTAGAATTTCCATTATACTTGTATGAACAGAATATA
57534695 AATATCAATTAAAAAATATACAATAAATAATAAAACATATGATTTATAACTAATAATAATAACAA
521 AATATCAATTAAAAAATATACAATAAATAATAAAACATATGATTTATAACTAATAATAATAACAA
57534760 TACATATTTTAATAAATAGAAATTAAAATAATAAAATTAATTTAAATTATGCGTAAAAAGAAATT
586 TACATATTTTAATAAATAGAAATTAAAATAATAAAATTAATTTAAATTATGCGTAAAAAGAAATT
57534825 AAATTAAAATTAAAATAATATATAATTATTTATCATGGTATTGCCTTATTCTCTTTTTTCTATAG
651 AAATTAAAATTAAAATAATATATAATTATTTATCATGGTATTGCCTTATTCTCTTTTTTCTATAG
57534890 CATGTAAAAAAGCTATCATGTTGGCGGACAAAGTTTTTAAGATTCTTGCTATA-T-TGAGCTCAA
716 CATGTAAAAAAGCTATCATGTTGGCGGACAAAGTTTTTAAGATTCTTGCTATATTATGAGCTCAA
57534953 ATCTTATC
781 ATCTTATC
57534961 AATTGAATTGGCTTTTGAGTAAACCACTATAAACCAATTGAACTAAGCTAAAAATAATCAATTGA
1 AATTGAATTGGCTTTTGAGTAAACCACTATAAACCAATTGAACTAAGCTAAAAATAATCAATTGA
57535026 ACTATTTTTCTCTATTTTTAAATTCTTTTTATATTTTATGATTTTTTAAAAAATTATTTAACTAA
66 ACTATTTTTCTCTATTTTTAAATTCTTTTTATATTTTATGATTTTTTAAAAAATTATTTAACTAA
57535091 ACTGTGATCAACCGATTCGGTTTTAAAAACCTTAATCTCTTGCCCCATAAAATAGGAAAAATACA
131 ACTGTGATCAACCGATTCGGTTTTAAAAACCTTAATCTCTTGCCCCATAAAATAGGAAAAATACA
57535156 TTATAATCCTTTTAAACATATAAAATTCTAAGTTAATAATTTGTAAAATTACAGTTTACTCCAAA
196 TTATAATCCTTTTAAACATATAAAATTCTAAGTTAATAATTTGTAAAATTACAGTTTACTCCAAA
57535221 AATTGTTAAAATTTTTATTTATTCTAAAAATTATAAAATATAAATTTAACTTTCCTAAAATATAA
261 AATTGTTAAAATTTTTATTTATTCTAAAAATTATAAAATATAAATTTAACTTTCCTAAAATATAA
57535286 AAATTAATTTTCCTCCGCCTTTGAAAAATTATGGCTTCGTCACAGGTCATATAGTCATGATGATA
326 AAATTAATTTTCCTCCGCCTTTGAAAAATTATGGCTTCGTCACAGGTCATATAGTCATGATGATA
57535351 TGTAATTGTCAGTCTAATTACCATCATTAAAATAACTTTCAACTTTATATCATGAATCATCATTT
391 TGTAATTGTCAGTCTAATTACCATCATTAAAATAACTTTCAACTTTATATCATGAATCATCATTT
57535416 TTTTTGTCATAAACATATTCAACATATTGCTAGAATTTCCATTATACTTGTATGAACAGAATATA
456 TTTTTGTCATAAACATATTCAACATATTGCTAGAATTTCCATTATACTTGTATGAACAGAATATA
57535481 AATATCAATTAAAAAATATACAATAAATAATAAAACATATGATTTATAACTAATAATAATAACAA
521 AATATCAATTAAAAAATATACAATAAATAATAAAACATATGATTTATAACTAATAATAATAACAA
57535546 TACATA-TTTAATAAATACGAAATTAAAATAATAAAATTAATTTAAATTATGCGTAAAAAGAAAT
586 TACATATTTTAATAAATA-GAAATTAAAATAATAAAATTAATTTAAATTATGCGTAAAAAGAAAT
57535610 TAAATTAAAATTAAAATAATATATAATTATTTATCATGGTATTGCCTTATTCTCTTTTTTCTATA
650 TAAATTAAAATTAAAATAATATATAATTATTTATCATGGTATTGCCTTATTCTCTTTTTTCTATA
57535675 GCATGTAAAAAAGCTATCATGTTGGCGGACAAAGTTTTTAAGATTCTTGCTATATTGANTGAGCT
715 GCATGTAAAAAAGCTATCATGTTGGCGGACAAAGTTTTTAAGATTCTTGCTATATT-A-TGAGCT
57535740 CAAATCTTATC
778 CAAATCTTATC
57535751 GTTTGCATAT
Statistics
Matches: 785, Mismatches: 0, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
785 11 0.01
786 756 0.96
787 1 0.00
790 17 0.02
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (788 bp):
AATTGAATTGGCTTTTGAGTAAACCACTATAAACCAATTGAACTAAGCTAAAAATAATCAATTGA
ACTATTTTTCTCTATTTTTAAATTCTTTTTATATTTTATGATTTTTTAAAAAATTATTTAACTAA
ACTGTGATCAACCGATTCGGTTTTAAAAACCTTAATCTCTTGCCCCATAAAATAGGAAAAATACA
TTATAATCCTTTTAAACATATAAAATTCTAAGTTAATAATTTGTAAAATTACAGTTTACTCCAAA
AATTGTTAAAATTTTTATTTATTCTAAAAATTATAAAATATAAATTTAACTTTCCTAAAATATAA
AAATTAATTTTCCTCCGCCTTTGAAAAATTATGGCTTCGTCACAGGTCATATAGTCATGATGATA
TGTAATTGTCAGTCTAATTACCATCATTAAAATAACTTTCAACTTTATATCATGAATCATCATTT
TTTTTGTCATAAACATATTCAACATATTGCTAGAATTTCCATTATACTTGTATGAACAGAATATA
AATATCAATTAAAAAATATACAATAAATAATAAAACATATGATTTATAACTAATAATAATAACAA
TACATATTTTAATAAATAGAAATTAAAATAATAAAATTAATTTAAATTATGCGTAAAAAGAAATT
AAATTAAAATTAAAATAATATATAATTATTTATCATGGTATTGCCTTATTCTCTTTTTTCTATAG
CATGTAAAAAAGCTATCATGTTGGCGGACAAAGTTTTTAAGATTCTTGCTATATTATGAGCTCAA
ATCTTATC
Found at i:57536150 original size:5 final size:5
Alignment explanation
Indices: 57536140--57536167 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57536130 ATTAAAAGAT
57536140 TATCC TATCC TATCC TATCC TATCC TAT
1 TATCC TATCC TATCC TATCC TATCC TAT
57536168 TTAATTTAGA
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:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (5 bp):
TATCC
Found at i:57537763 original size:69 final size:69
Alignment explanation
Indices: 57537652--57537790 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
57537642 AAATAAGCTG
* *
57537652 ATATGAGATGTCATACTTATTTGTATATCATAGTCTACTTAAGATATCAAGGAACATGGAATGGA
1 ATATGAGATGTCATACTTATTTGTATATCATAGTCCAATTAAGATATCAAGGAACATGGAATGGA
57537717 CTAT
66 CTAT
* *
57537721 ATATGAGATGTCATACTTATTTGTATATCATAGTCCAATTAAGTTATTAAGGAACATGGAATGGA
1 ATATGAGATGTCATACTTATTTGTATATCATAGTCCAATTAAGATATCAAGGAACATGGAATGGA
57537786 CTAT
66 CTAT
57537790 A
1 A
57537791 CAAGTGTGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (69 bp):
ATATGAGATGTCATACTTATTTGTATATCATAGTCCAATTAAGATATCAAGGAACATGGAATGGA
CTAT
Found at i:57547074 original size:50 final size:51
Alignment explanation
Indices: 57547019--57547141 Score: 137
Period size: 51 Copynumber: 2.4 Consensus size: 51
57547009 GGTCATGTGC
* * *
57547019 GTAGTACTATGTGAAGGCTACTTCAT-GTACCGGA-ACG-ATAGGTCGCATGT
1 GTAGTACTATGTGCAGGCTACTT-ATCGTACCGGATA-GTATAGATCACATGT
* * *
57547069 GTAGTACTATGTGCAGGTTAC-TATGCGTACCGGATAGTTTCGATCACATGT
1 GTAGTACTATGTGCAGGCTACTTAT-CGTACCGGATAGTATAGATCACATGT
57547120 GTAGTACTATGTGCAGGCTACT
1 GTAGTACTATGTGCAGGCTACT
57547142 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
48 2 0.03
49 1 0.02
50 28 0.46
51 30 0.49
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTTATCGTACCGGATAGTATAGATCACATGT
Found at i:57551111 original size:6 final size:6
Alignment explanation
Indices: 57551100--57551127 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
57551090 ATTTATGTCA
57551100 ATGGCT ATGGCT ATGGCT ATGGCT ATGG
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGG
57551128 AATGGTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (6 bp):
ATGGCT
Found at i:57563871 original size:71 final size:71
Alignment explanation
Indices: 57563755--57563899 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
57563745 GCGAAGTAAT
57563755 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
1 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
57563820 TTCTCC
66 TTCTCC
* *
57563826 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATGTCCTTGAGAATAA
1 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
57563891 TTCTCC
66 TTCTCC
57563897 CAA
1 CAA
57563900 CATTGATAGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (71 bp):
CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
TTCTCC
Found at i:57598800 original size:12 final size:12
Alignment explanation
Indices: 57598785--57598813 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
57598775 TATAAGCTCA
57598785 TTTATTGACTTG
1 TTTATTGACTTG
57598797 TTTA-TGACTTG
1 TTTATTGACTTG
57598808 TTTATT
1 TTTATT
57598814 TATTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (12 bp):
TTTATTGACTTG
Found at i:57603952 original size:131 final size:131
Alignment explanation
Indices: 57603718--57603979 Score: 470
Period size: 131 Copynumber: 2.0 Consensus size: 131
57603708 GTAAGGGAAA
*
57603718 GTGTGAAGTACATCACAGCATCCACTATGCTTTTGACTATGTTCAGTGATATTGTCAAACAACTT
1 GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
* *
57603783 CAGTTGCCAAATAAGAGGTTGATTTTAGATTGTTGTACACGGTGGAATGCAACATATGCTATGTT
66 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
57603848 G
131 G
* * *
57603849 GTGTGAAGTACATCACAGTATCCACTGTGCCTTTGACTATGTTCAGTGATATTGTTAAACAACTT
1 GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
57603914 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
66 CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
57603979 G
131 G
57603980 TTATGTGTAT
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (131 bp):
GTGTGAAGTACATCACAGCATCCACTATGCCTTTGACTATGTTCAGTGATATTGTCAAACAACTT
CAATTGCCAAATAAGAGGTTGATTTTAGATTATTGTACACGGTGGAATGCAACATATGCTATGTT
G
Found at i:57607117 original size:73 final size:71
Alignment explanation
Indices: 57607034--57607556 Score: 443
Period size: 73 Copynumber: 7.2 Consensus size: 71
57607024 CAAGACCGAC
* * *
57607034 CTTTAAAAAGGGTTGAGATAGACCTGTCTAAGGCAACCATTAAAAAAGGGTAAGATAGAACCGTC
1 CTTTAAAAA-GGTTGGGATAGACCTGTCTAAGGCAACC-TTAAAAAAGGTTGAGATAGAACCGTC
*
57607099 TAAGACAA
64 TAAGGCAA
* * * * **
57607107 CTTTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACCTCTAAAAAAGGTCGAGATAGAGTCGTC
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCT-TAAAAAAGGTTGAGATAGAACCGTC
*
57607172 TATGGCAA
64 TAAGGCAA
* * ** * * * * *
57607180 CCTTAAAAAGGTTGGGATAGACCTCATCTAAAACAACCTTTAAAATATGTTGAGATAGACCCATT
1 CTTTAAAAAGGTTGGGATAGACCT-GTCTAAGGCAACC-TTAAAAAAGGTTGAGATAGAACCGTC
57607245 TAAGGCAA
64 TAAGGCAA
* * * * *
57607253 CCTGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAG-ACTCGT
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-CCTTAAAAAAGGTTGAGATAGAAC-CGT
57607317 CTAAGGCAA
63 CTAAGGCAA
* *
57607326 CCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGGTT-AGGATAGACCCGT
1 CTTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-CCTTAAAAAAGGTTGA-GATAGAACCGT
57607390 CTAAGGCAA
63 CTAAGGCAA
* * ** * *
57607399 CCTTTAAAAAGGTTGAGATAGAGCC-ATCTAATACAACCTT-AAAAAGGTTGGGATA-TACCTTG
1 -CTTTAAAAAGGTTGGGATAGA-CCTGTCTAAGGCAACCTTAAAAAAGGTTGAGATAGAACC--G
*
57607461 TCTAAGACAA
62 TCTAAGGCAA
* * * *
57607471 CCTTTAAAAAGGTTGGGATAGACCCGTTTAAGGCAATCTT-TAAAAGGTTG-GAATA-AACTCGT
1 -CTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAAGGTTGAG-ATAGAAC-CGT
* *
57607533 TTAAGACAA
63 CTAAGGCAA
57607542 -TATTAAAAAGGTTGG
1 CT-TTAAAAAGGTTGG
57607557 AATAAACACG
Statistics
Matches: 371, Mismatches: 61, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
69 1 0.00
70 15 0.04
71 26 0.07
72 73 0.20
73 230 0.62
74 24 0.06
75 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (71 bp):
CTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAAGGTTGAGATAGAACCGTCTA
AGGCAA
Found at i:57607217 original size:36 final size:36
Alignment explanation
Indices: 57607036--57607556 Score: 457
Period size: 35 Copynumber: 14.4 Consensus size: 36
57607026 AGACCGACCT
*
57607036 TTAAAAAGGGTTGAGATAGACCT-GTCTAAGGCAACC
1 TTAAAAA-GGTTGGGATAGACCTCGTCTAAGGCAACC
* ** * * *
57607072 ATTAAAAAAGGGTAAGATAGAAC-CGTCTAAGACAACT
1 -TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
57607109 TTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
57607145 TCTAAAAAAGGTCGAGATAGA-GTCGTCTATGGCAACC
1 T-T-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* **
57607182 TTAAAAAGGTTGGGATAGACCTCATCTAAAACAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
57607218 TTTAAAATATGTTGAGATAGACC-CATTTAAGGCAACC
1 -TTAAAA-AGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * *
57607255 TGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAA-CC
57607292 TTAAAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
*
57607328 TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAA-CC
*
57607365 TTAAAAAAGGTTAGGATAGACC-CGTCTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * **
57607401 TTTAAAAAGGTTGAGATAGAGC-CATCTAATACAACC
1 -TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * *
57607437 TTAAAAAGGTTGGGATATACCTTGTCTAAGACAACC
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* *
57607473 TTTAAAAAGGTTGGGATAGACC-CGTTTAAGGCAATC
1 -TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
* * * * * **
57607509 TTTAAAAGGTTGGAATA-AACTCGTTTAAGACAATA
1 TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
57607544 TTAAAAAGGTTGG
1 TTAAAAAGGTTGG
57607557 AATAAACACG
Statistics
Matches: 395, Mismatches: 71, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.01
35 114 0.29
36 107 0.27
37 107 0.27
38 65 0.16
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (36 bp):
TTAAAAAGGTTGGGATAGACCTCGTCTAAGGCAACC
Found at i:57607429 original size:219 final size:218
Alignment explanation
Indices: 57607032--57607556 Score: 600
Period size: 219 Copynumber: 2.4 Consensus size: 218
57607022 GTCAAGACCG
* * * * * **
57607032 ACCTTTAAAAAGGGTTGAGATAGACCTGTCTAAGGCAACCATTAAAAAAGGGTAAGATAGAAC-C
1 ACCTTGAAAAA-GGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAG-ACTC
* * *
57607096 GTCTAAGACAACTTTAAAAAGGTTGGCATATACCTTGTCCAAGGCAACCTCTAAAAAAGGTCGAG
64 GTCTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTCTAAAAAAGGTAGAG
** * *
57607161 ATAGAGTCGTCTATGGCAACCTTAAAAAGGTTGGGATAGACCTCATCTAAAACAACCTTTAAAAT
129 ATAGACCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTCATCTAAAACAACC-TTAAAA-
* *
57607226 ATGTTGAGATAGACCCAT-T-TAAGGCA
192 AGGTTGAGATAGA-CCATGTCTAAGACA
*
57607252 ACC-TGAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCG
1 ACCTTGAAAAAGGTTGGGATAGACC-TGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCG
* * * *
57607316 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-CTTAAAAAAGGTTAG-
65 TCTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTC-TAAAAAAGG-TAGA
* *
57607379 GATAGACCCGTCTAAGGCAACCTTTAAAAAGGTTGAGATAGAGC-CATCTAATACAACCTTAAAA
128 GATAGACCCGTCTAAGGCAACC-TTAAAAAGGTTGAGATAGACCTCATCTAAAACAACCTTAAAA
* * *
57607443 AGGTTGGGATATACCTTGTCTAAGACA
192 AGGTTGAGATAGACCATGTCTAAGACA
* * * * * *
57607470 ACCTTTAAAAAGGTTGGGATAGACCCGTTTAAGGCAA-TCTT-TAAAAGGTTGGAATAAACTCGT
1 ACCTTGAAAAAGGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCGT
* *
57607533 TTAAGACAATATTAAAAAGGTTGG
66 CTAAGACAACATTAAAAAGGTTGG
57607557 AATAAACACG
Statistics
Matches: 261, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
216 42 0.16
217 14 0.05
218 41 0.16
219 140 0.54
220 24 0.09
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (218 bp):
ACCTTGAAAAAGGTTGGGATAGACCTGTTTAAGGCAACCCTTAAAAAAGGTTGGGATAGACTCGT
CTAAGACAACATTAAAAAGGTTGGCATAGACCTTGTCCAAGGCAACCTCTAAAAAAGGTAGAGAT
AGACCCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTCATCTAAAACAACCTTAAAAAGGT
TGAGATAGACCATGTCTAAGACA
Found at i:57609092 original size:139 final size:139
Alignment explanation
Indices: 57608757--57609178 Score: 542
Period size: 139 Copynumber: 3.0 Consensus size: 139
57608747 AACACTTAGG
* * *
57608757 AAAGTGTCGGCATAGTGTTGGA-CAAGGGCAACTCTTATTTAAGCGTTGCCTTAGGCATGTATAT
1 AAAGTGTCAGCATAGTGTTGGACCAA-GCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
57608821 CTCAAGCCTTAAACAAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAA
65 CTCAACCCTTATAC-AAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAA
*
57608886 AGTGTTGGCCCA
129 AGTG-TCGCCCA
* * ** *
57608898 AAAGTGTCAGCATAGTGTTGGACAAAGCCGACTCTTATTTAATTGTTGCCCTAGGCATGCATATC
1 AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * *
57608963 TCAACCCTTATACAAATG-GTTGGCGAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAA
66 TCAACCCTTATACAAA-GAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAA
57609027 GTGTCGCCCA
130 GTGTCGCCCA
* * **
57609037 AAAGTGTCACCATAGTGTCGGACCAAGCCAACTCTTATTTAAGCGTTATCTTAGGCATGCATATC
1 AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * * ** * * *
57609102 CCAACCCTTATACAAAGAGTTGGCCAAAACATATATTGGCAAGTCTATTTCAACATTTACGAAAA
66 TCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAAG
57609167 TGTCGCCCA
131 TGTCGCCCA
57609176 AAA
1 AAA
57609179 ATTTCGTCTT
Statistics
Matches: 242, Mismatches: 36, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
138 1 0.00
139 125 0.52
140 48 0.20
141 66 0.27
142 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (139 bp):
AAAGTGTCAGCATAGTGTTGGACCAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
TCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTCTATCCCAACACTTAAGAAAG
TGTCGCCCA
Found at i:57613947 original size:57 final size:57
Alignment explanation
Indices: 57613880--57614005 Score: 238
Period size: 57 Copynumber: 2.2 Consensus size: 57
57613870 TTACATTTTT
57613880 AAAT-AAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
1 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
57613936 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
1 AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
57613993 AAA-AAAAAAATAA
1 AAATAAAAAAATAA
57614006 TGACGAACAC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 14 0.20
57 55 0.80
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (57 bp):
AAATAAAAAAATAAAAAACTATATTCCTTAAAATAAAAACAAGAGAGGAGAAAGCAA
Found at i:57621813 original size:15 final size:15
Alignment explanation
Indices: 57621776--57621815 Score: 73
Period size: 14 Copynumber: 2.7 Consensus size: 15
57621766 CAAAATTATC
57621776 AAATCTATTTTAGAT
1 AAATCTATTTTAGAT
57621791 AAAT-TATTTTAGAT
1 AAATCTATTTTAGAT
57621805 AAATCTATTTT
1 AAATCTATTTT
57621816 CTGGCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (15 bp):
AAATCTATTTTAGAT
Found at i:57624927 original size:30 final size:30
Alignment explanation
Indices: 57624893--57624996 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 30
57624883 TTAAAAATTA
57624893 GGATTTTTTTTAAATTGGTCACCCAACTAT
1 GGATTTTTTTTAAATTGGTCACCCAACTAT
** * *
57624923 GGATTTATTTCTTTTA-TGGTCTCCCAATTAT
1 GGATTT-TTT-TTAAATTGGTCACCCAACTAT
* * *
57624954 GAATTTTCTTTAAATTGGTCATCCAACTAAT
1 GGATTTTTTTTAAATTGGTCACCCAACT-AT
*
57624985 TGAGTTTTTTTT
1 GGA-TTTTTTTT
57624997 TAATCCAATT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
29 3 0.05
30 18 0.33
31 24 0.44
32 10 0.18
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.49
Consensus pattern (30 bp):
GGATTTTTTTTAAATTGGTCACCCAACTAT
Found at i:57625501 original size:27 final size:27
Alignment explanation
Indices: 57625456--57625536 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
57625446 TGAGCGAACT
* **
57625456 AGGGGTTCACAAGCAGGTTTGGTGAGC
1 AGGGGTTCACTAGTTGGTTTGGTGAGC
*
57625483 AGGGGTTCACTAGTTGGTTTAGG-GAAC
1 AGGGGTTCACTAGTTGGTTT-GGTGAGC
* * *
57625510 TGGGGTTCGCTAGTTGGTCTGGTGAGC
1 AGGGGTTCACTAGTTGGTTTGGTGAGC
57625537 TGGGTTTGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.41, T:0.28
Consensus pattern (27 bp):
AGGGGTTCACTAGTTGGTTTGGTGAGC
Found at i:57625539 original size:27 final size:27
Alignment explanation
Indices: 57625471--57625570 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
57625461 TTCACAAGCA
* *
57625471 GGTTTGGTGAGCAGGGGTTCACTAGTT
1 GGTTTGGTGAGCTGGGGTTCGCTAGTT
*
57625498 GGTTTAGG-GAACTGGGGTTCGCTAGTT
1 GGTTT-GGTGAGCTGGGGTTCGCTAGTT
* * *
57625525 GGTCTGGTGAGCT-GGGTTTGCCAGTT
1 GGTTTGGTGAGCTGGGGTTCGCTAGTT
*
57625551 GGTTTTGCT-AGCTGGGGTTC
1 GG-TTTGGTGAGCTGGGGTTC
57625571 ACCAGTATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 19 0.32
27 38 0.64
28 2 0.03
ACGTcount: A:0.11, C:0.13, G:0.41, T:0.35
Consensus pattern (27 bp):
GGTTTGGTGAGCTGGGGTTCGCTAGTT
Found at i:57630451 original size:17 final size:18
Alignment explanation
Indices: 57630424--57630459 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
57630414 AGGCAGCAAT
57630424 AGAAGAAAAACATGGAGA
1 AGAAGAAAAACATGGAGA
*
57630442 AGAA-AAAAACATTGAGA
1 AGAAGAAAAACATGGAGA
57630459 A
1 A
57630460 AATGAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (18 bp):
AGAAGAAAAACATGGAGA
Found at i:57634801 original size:151 final size:151
Alignment explanation
Indices: 57634527--57634818 Score: 557
Period size: 151 Copynumber: 1.9 Consensus size: 151
57634517 CATTTAGCCA
*
57634527 TTTTCTGAACCCTTGTTGTTTTAAAACAATATTAAGCCTATTTCACCAATTCTACTTACTAGCTA
1 TTTTCTGAACCCTTGTTATTTTAAAACAATATTAAGCCTATTTCACCAATTCTACTTACTAGCTA
57634592 TTCATTTGTTCCTTACTTCATCATAGACGATCGGGCAACATAAATACGAATCGACTCAACACCGA
66 TTCATTTGTTCCTTACTTCATCATAGACGATCGGGCAACATAAATACGAATCGACTCAACACCGA
57634657 GGTGGATCGTAATCCATTTAG
131 GGTGGATCGTAATCCATTTAG
* *
57634678 TTTTCTGAACCCTTGTTATTTTAAAACAATATTGAGCCTATTTCACCAATTCTGCTTACTAGCTA
1 TTTTCTGAACCCTTGTTATTTTAAAACAATATTAAGCCTATTTCACCAATTCTACTTACTAGCTA
57634743 TTCATTTGTTCCTTACTTCATCATAGACGATCGGGCAACATAAATACGAATCGACTCAACACCGA
66 TTCATTTGTTCCTTACTTCATCATAGACGATCGGGCAACATAAATACGAATCGACTCAACACCGA
57634808 GGTGGATCGTA
131 GGTGGATCGTA
57634819 TCACATCTTC
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 138 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (151 bp):
TTTTCTGAACCCTTGTTATTTTAAAACAATATTAAGCCTATTTCACCAATTCTACTTACTAGCTA
TTCATTTGTTCCTTACTTCATCATAGACGATCGGGCAACATAAATACGAATCGACTCAACACCGA
GGTGGATCGTAATCCATTTAG
Found at i:57635789 original size:20 final size:20
Alignment explanation
Indices: 57635720--57635828 Score: 94
Period size: 20 Copynumber: 5.5 Consensus size: 20
57635710 ATGCACATTA
* *
57635720 GTGCCCCTGTTTGTACTTTG
1 GTGCCCCTGTTTGCACTTCG
* *
57635740 GTAG-TCCTGTTTGTACTTCG
1 GT-GCCCCTGTTTGCACTTCG
* *
57635760 GTACCTCTGTTTGCACTTCG
1 GTGCCCCTGTTTGCACTTCG
* * **
57635780 GTGCCCCTGTTCGCACATAT
1 GTGCCCCTGTTTGCACTTCG
* *
57635800 GTGCCCCTATTTGCACTTCA
1 GTGCCCCTGTTTGCACTTCG
57635820 GTGCCCCTG
1 GTGCCCCTG
57635829 ACTGCACGTA
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 68 0.99
21 1 0.01
ACGTcount: A:0.10, C:0.30, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGCCCCTGTTTGCACTTCG
Found at i:57635813 original size:40 final size:40
Alignment explanation
Indices: 57635769--57635851 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
57635759 GGTACCTCTG
* *
57635769 TTTGCACTTCGGTGCCCCTG-TTCGCACATATGTGCCCCTA
1 TTTGCACTTCAGTGCCCCTGACT-GCACATATGTGCCCCTA
*
57635809 TTTGCACTTCAGTGCCCCTGACTGCACGTATGTGCCCCTA
1 TTTGCACTTCAGTGCCCCTGACTGCACATATGTGCCCCTA
57635849 TTT
1 TTT
57635852 TTCATTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.19, T:0.34
Consensus pattern (40 bp):
TTTGCACTTCAGTGCCCCTGACTGCACATATGTGCCCCTA
Found at i:57637012 original size:23 final size:22
Alignment explanation
Indices: 57636952--57637012 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
57636942 AAGGCCCATG
57636952 TGAATATTTATTT-AA-TGAAT
1 TGAATATTTATTTAAATTGAAT
* *
57636972 TG-ATATATATTTATAATTTAAT
1 TGAATATTTATTTA-AATTGAAT
57636994 TGAATATTTATTCTAAATT
1 TGAATATTTATT-TAAATT
57637013 AAGATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 9 0.27
20 2 0.06
21 2 0.06
22 6 0.18
23 12 0.36
24 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TGAATATTTATTTAAATTGAAT
Found at i:57638160 original size:21 final size:18
Alignment explanation
Indices: 57638092--57638167 Score: 91
Period size: 18 Copynumber: 4.2 Consensus size: 18
57638082 ACTGTAAGGG
*
57638092 AACCCATGTT-TCTATCCA
1 AACCCATGTTAT-TATGCA
*
57638110 AACCTATGTTATTATGCA
1 AACCCATGTTATTATGCA
*
57638128 AACCCATGTTATTATGCC
1 AACCCATGTTATTATGCA
* *
57638146 AACCCATGATATTATGTA
1 AACCCATGTTATTATGCA
57638164 AACC
1 AACC
57638168 TATGATTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
18 49 0.98
19 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (18 bp):
AACCCATGTTATTATGCA
Found at i:57638893 original size:19 final size:17
Alignment explanation
Indices: 57638869--57638921 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
57638859 TGGATTATTT
57638869 TTATTTAATATTAATATCA
1 TTATTTAATATTAA-AT-A
*
57638888 TTATTT-TTATTAAATA
1 TTATTTAATATTAAATA
57638904 TTAATATTAATATTAAAT
1 TT-AT-TTAATATTAAAT
57638922 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 8 0.28
19 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATATTAAATA
Found at i:57638896 original size:25 final size:25
Alignment explanation
Indices: 57638862--57638910 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
57638852 AGGGAGATGG
*
57638862 ATTATTTTTATTTAATATTAATATC
1 ATTATTTTTATTAAATATTAATATC
57638887 ATTATTTTTATTAAATATTAATAT
1 ATTATTTTTATTAAATATTAATAT
57638911 TAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTTTATTAAATATTAATATC
Found at i:57638917 original size:25 final size:25
Alignment explanation
Indices: 57638864--57638917 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
57638854 GGAGATGGAT
* *
57638864 TATTTTTATTTAATATTAATATCAT
1 TATTTTTATTAAATATTAATATCAA
*
57638889 TATTTTTATTAAATATTAATATTAA
1 TATTTTTATTAAATATTAATATCAA
57638914 TATT
1 TATT
57638918 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTTTATTAAATATTAATATCAA
Found at i:57638958 original size:18 final size:19
Alignment explanation
Indices: 57638927--57638967 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
57638917 TAAATTTAAA
*
57638927 TTTAAATTTATTAT-TATAT
1 TTTAAATATATTATGTAT-T
57638946 TTTAAATAT-TTATGTATT
1 TTTAAATATATTATGTATT
57638964 TTTA
1 TTTA
57638968 TATCTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATATATTATGTATT
Found at i:57643840 original size:20 final size:21
Alignment explanation
Indices: 57643815--57643872 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
57643805 AAGTACACCC
*
57643815 CAAAGGCT-TTTAGAATGCCA
1 CAAAGGCTAATTAGAATGCCA
57643835 CAAAGGCTAGATTAGAATGCCA
1 CAAAGGCTA-ATTAGAATGCCA
* *
57643857 TAAAGGACAAATTAGA
1 CAAAGG-CTAATTAGA
57643873 TTACGCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (21 bp):
CAAAGGCTAATTAGAATGCCA
Found at i:57645944 original size:43 final size:43
Alignment explanation
Indices: 57645897--57645997 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
57645887 CCTTACATGG
** *
57645897 AAATCTCGTATCGATGCCAATAGCCTAGCTATGGTCTTACACA
1 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
**
57645940 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACATG
1 AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
57645983 AAATCTCAAATCGAT
1 AAATCTCAAATCGAT
57645998 ATTGGAACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
AAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACA
Found at i:57647961 original size:32 final size:32
Alignment explanation
Indices: 57647925--57647985 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
57647915 TATAATACTT
57647925 AGTAAGTTCGTAAATCATGAACATAGCTTACC
1 AGTAAGTTCGTAAATCATGAACATAGCTTACC
57647957 AGTAAGTTCGTAAATCATGAACATAGCTT
1 AGTAAGTTCGTAAATCATGAACATAGCTT
57647986 GCCATTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
AGTAAGTTCGTAAATCATGAACATAGCTTACC
Found at i:57651748 original size:24 final size:24
Alignment explanation
Indices: 57651721--57651769 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
57651711 TTACATGTTC
57651721 AGATGTTGTGATCATCCATGAGTA
1 AGATGTTGTGATCATCCATGAGTA
57651745 AGATGTTGTGATCATCCATGAGTA
1 AGATGTTGTGATCATCCATGAGTA
57651769 A
1 A
57651770 ATTGCTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (24 bp):
AGATGTTGTGATCATCCATGAGTA
Found at i:57657506 original size:18 final size:18
Alignment explanation
Indices: 57657483--57657523 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
57657473 AGTATTCTTA
57657483 AAAGTGTCACCCTTGAAG
1 AAAGTGTCACCCTTGAAG
57657501 AAAGTGTCACCCTTGAAG
1 AAAGTGTCACCCTTGAAG
57657519 AAAGT
1 AAAGT
57657524 TCTTCGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (18 bp):
AAAGTGTCACCCTTGAAG
Found at i:57663538 original size:88 final size:88
Alignment explanation
Indices: 57663285--57663752 Score: 724
Period size: 88 Copynumber: 5.3 Consensus size: 88
57663275 CAATAAGCTT
*
57663285 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
* *
57663350 CAAGGTTGGTGTCTTTGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* *
57663373 TTCG-TGGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTACAACCCAAGGAA
1 TTCGCT-GTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAG
57663436 GCAAGGCTGGTGTCTTCGATCTGC
65 GCAAGGCTGGTGTCTTCGATCTGC
* * * *
57663460 TTCACTGTCAGTGCAAGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
57663525 CAAGGCTGGTGTCTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* * *
57663548 TACGCTGTCGGTGCAGGAAGGCAAGATCTTCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
*
57663613 CAAGGCTAGTGTCTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
* * * * * *
57663636 TTCGCTATCGGTGCAAGAAGGCAAGATCTGCAATTTTTAACTTGCTCCGCTACAACTCAGGGAAG
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
* *
57663701 CAAGGTTGGTGACTTCGATCTGC
66 CAAGGCTGGTGTCTTCGATCTGC
57663724 TTCGCTGTCGGTGCAGGAAGGCAAGATCT
1 TTCGCTGTCGGTGCAGGAAGGCAAGATCT
57663753 ATTATCTTCA
Statistics
Matches: 344, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
87 77 0.22
88 267 0.78
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.26
Consensus pattern (88 bp):
TTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGG
CAAGGCTGGTGTCTTCGATCTGC
Found at i:57664762 original size:25 final size:25
Alignment explanation
Indices: 57664733--57664780 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57664723 TCACCTTGGC
57664733 CTCTC-CATTTTCTTTCTTCTTTTCT
1 CTCTCTCATTTTCTTT-TTCTTTTCT
**
57664758 CTCTCTTTTTTTCTTTTTCTTTT
1 CTCTCTCATTTTCTTTTTCTTTT
57664781 TGTTTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
CTCTCTCATTTTCTTTTTCTTTTCT
Found at i:57665745 original size:102 final size:104
Alignment explanation
Indices: 57665557--57665763 Score: 384
Period size: 102 Copynumber: 2.0 Consensus size: 104
57665547 AAGTCATGAA
57665557 ATCCCTCTAAACACATGCCTCGCTCAAAAGGAAATTCTAAGCCTGTAGCAGCGTTACTCATGCTA
1 ATCCCTCTAAACACATGCCTCGCTCAAAAGGAAATTCTAAGCCTGTAGCAGCGTTACTCATGCTA
57665622 TTGATATCTGGAGACCCAATATAAAAGA-ATATACAAAAG
66 TTGATATCTGGAGACCCAATATAAAAGAGA-ATACAAAAG
57665661 ATCCCTCT-AA-ACATGCCTCGCTCAAAAGGAAATTCTAAGCCTGTAGCAGCGTTACTCATGCTA
1 ATCCCTCTAAACACATGCCTCGCTCAAAAGGAAATTCTAAGCCTGTAGCAGCGTTACTCATGCTA
57665724 TTGATATCTGGAGACCCAATATAAAAGAGAATACAAAAG
66 TTGATATCTGGAGACCCAATATAAAAGAGAATACAAAAG
57665763 A
1 A
57665764 ATGTATTTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
102 91 0.89
103 3 0.03
104 8 0.08
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (104 bp):
ATCCCTCTAAACACATGCCTCGCTCAAAAGGAAATTCTAAGCCTGTAGCAGCGTTACTCATGCTA
TTGATATCTGGAGACCCAATATAAAAGAGAATACAAAAG
Found at i:57671277 original size:7 final size:7
Alignment explanation
Indices: 57671258--57671287 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
57671248 AAATCAAATT
57671258 TAATAAA
1 TAATAAA
57671265 -AATAAA
1 TAATAAA
57671271 TAATAAA
1 TAATAAA
57671278 TAATAAA
1 TAATAAA
57671285 TAA
1 TAA
57671288 AAAAAGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:57671605 original size:19 final size:19
Alignment explanation
Indices: 57671581--57671672 Score: 141
Period size: 19 Copynumber: 4.8 Consensus size: 19
57671571 AATCATATCT
57671581 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
57671600 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
57671619 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
57671638 TTTAAGA-TGACATATCATA
1 TCTAAGATTG-CATATCATA
57671657 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57671673 CTTGAGAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 2 0.03
19 61 0.94
20 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:57671627 original size:38 final size:38
Alignment explanation
Indices: 57671574--57671672 Score: 157
Period size: 38 Copynumber: 2.7 Consensus size: 38
57671564 ACTACAAAAT
*
57671574 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATGA
* *
57671610 CATATCATATCTAAGATTGTATATCATATTTAAGATGA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATGA
57671648 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
57671673 CTTGAGAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
36 6 0.11
37 1 0.02
38 50 0.88
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATGA
Found at i:57674629 original size:38 final size:38
Alignment explanation
Indices: 57674556--57674629 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
57674546 AAAATATTTT
* * * *
57674556 TAAACGGTTACGATTTGACAAAGTTAGAATGTAGCTTC
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
*
57674594 TAAACGGTTATGATTTGACAAAATCAAAATCTAGCT
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
57674630 ATTGAGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (38 bp):
TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
Found at i:57677641 original size:24 final size:23
Alignment explanation
Indices: 57677614--57677696 Score: 60
Period size: 24 Copynumber: 3.3 Consensus size: 23
57677604 TAGAACTTAA
57677614 TATAATCAGCACACACATACTTTG
1 TATAAT-AGCACACACATACTTTG
*
57677638 TATAGATAGCTCACACATAAAACTTT-
1 TATA-ATAGCACACACAT---ACTTTG
* * *
57677664 TATAATTAGTACACATATGCTTTG
1 TATAA-TAGCACACACATACTTTG
57677688 TATAGATAG
1 TATA-ATAG
57677697 TTCATACATA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
23 4 0.09
24 21 0.45
25 4 0.09
26 13 0.28
27 5 0.11
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (23 bp):
TATAATAGCACACACATACTTTG
Found at i:57677667 original size:26 final size:26
Alignment explanation
Indices: 57677632--57677712 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 26
57677622 GCACACACAT
57677632 ACTTTGTATAGATAGCTCACACATAAA
1 ACTTTGTATAGATAG-TCACACATAAA
*
57677659 ACTTT-TATA-ATTAGT-ACACAT-AT
1 ACTTTGTATAGA-TAGTCACACATAAA
* * *
57677682 GCTTTGTATAGATAGTTCATACATAGA
1 ACTTTGTATAGATAG-TCACACATAAA
57677709 ACTT
1 ACTT
57677713 ATATAATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
23 5 0.12
24 13 0.31
25 4 0.10
26 12 0.29
27 8 0.19
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (26 bp):
ACTTTGTATAGATAGTCACACATAAA
Found at i:57677678 original size:50 final size:50
Alignment explanation
Indices: 57677593--57677850 Score: 293
Period size: 50 Copynumber: 5.1 Consensus size: 50
57677583 ACTACAATGT
* *
57677593 TAGTTCGCATATAGAACTTAATATAATCAGCACACACATACTTTGTATAGA
1 TAGTTCACACATAGAACTT-ATATAATCAGCACACACATACTTTGTATAGA
* * * * * * *
57677644 TAGCTCACACATAAAACTTTTATAATTAGTACACATATGCTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
* * *
57677694 TAGTTCATACATAGAACTTATATAATCCA-CACACACATACTTCGTATAAA
1 TAGTTCACACATAGAACTTATATAAT-CAGCACACACATACTTTGTATAGA
* * * * *
57677744 CAATTCGCACATAGAACTTATATAATCAGCACGCACATGCTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
* * * * *
57677794 CAGTTTACACATAGAACTTATTTAATTAGCTCACACATACTTTGTATAGA
1 TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
57677844 TAGTTCA
1 TAGTTCA
57677851 TGGACCCTTC
Statistics
Matches: 168, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 2 0.01
50 150 0.89
51 16 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (50 bp):
TAGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGA
Found at i:57677697 original size:24 final size:25
Alignment explanation
Indices: 57677623--57677706 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
57677613 ATATAATCAG
*
57677623 CACACACATACTTTGTATAGATAGCT
1 CACACATATACTTTGTATAGATAG-T
*
57677649 CACACATAAAACTTT-TATA-ATTAGT
1 CACACAT-ATACTTTGTATAGA-TAGT
*
57677674 -ACACATATGCTTTGTATAGATAGTT
1 CACACATATACTTTGTATAGATAG-T
*
57677699 CATACATA
1 CACACATA
57677707 GAACTTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 5 0.11
24 13 0.28
25 4 0.09
26 19 0.40
27 6 0.13
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (25 bp):
CACACATATACTTTGTATAGATAGT
Found at i:57682939 original size:16 final size:16
Alignment explanation
Indices: 57682918--57682949 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57682908 TGATTGAAAG
*
57682918 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
57682934 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
57682950 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:57691923 original size:85 final size:86
Alignment explanation
Indices: 57691813--57691984 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
57691803 ATCCAATATC
57691813 TCTATTAAATGATTAAATTTTTTATATAAAATAAATAGTTAGAAAATTTTAATTTAGATCAAATT
1 TCTATTAAATGATTAAATTTTTTATATAAAATAAATAGTTAGAAAATTTTAATTTAGATCAAATT
57691878 TGAAATGTTTGATGTATAATG
66 TGAAATGTTTGATGTATAATG
57691899 TCTATTAAAT-ATTAAATTTTTTATATAAAATAAATAGTTAGAAAATTTTAATTTAGATCAAATT
1 TCTATTAAATGATTAAATTTTTTATATAAAATAAATAGTTAGAAAATTTTAATTTAGATCAAATT
57691963 TGAAATGTTTGATGTATAATG
66 TGAAATGTTTGATGTATAATG
57691984 T
1 T
57691985 TTAAAATGTT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 76 0.88
86 10 0.12
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (86 bp):
TCTATTAAATGATTAAATTTTTTATATAAAATAAATAGTTAGAAAATTTTAATTTAGATCAAATT
TGAAATGTTTGATGTATAATG
Found at i:57700024 original size:17 final size:16
Alignment explanation
Indices: 57700004--57700035 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57699994 AACCATGGTT
57700004 TTCAGAGTGCCATAGTC
1 TTCAGAGTGCC-TAGTC
57700021 TTCAGAGTGCCTAGT
1 TTCAGAGTGCCTAGT
57700036 ACTTTGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (16 bp):
TTCAGAGTGCCTAGTC
Found at i:57705021 original size:29 final size:29
Alignment explanation
Indices: 57704919--57705195 Score: 193
Period size: 28 Copynumber: 9.9 Consensus size: 29
57704909 CACGTAGGTG
* * *
57704919 TCCTTTTAACAGAGTTTGCCAC-AAGACA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
57704947 TTCATTTAACTGAGATAGCCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* *
57704976 TCTTTTTAATATG-GATAGCCACAAAGGCA
1 TCCTTTTAACA-GAGATAGCCACAAAGGCA
* * *
57705005 TCCTTTTAACAAAGATAACCACAAACGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * **
57705034 TCC-TTT--CAGATATAGTCACAAAGGTT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
57705060 TCC-TTTAATAGATATAGCCACAAAGGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * *
57705088 TTC-TTTAATAGAGATTGCCACAAAGGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
*
57705116 TCCTTTT---AGAGATAACCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
57705142 CTTCCTTATAACAGAGATCGCCACAAAGGCT
1 --TCCTTTTAACAGAGATAGCCACAAAGGCA
*
57705173 TCCTTTT---AGAGATAGCCATAAAG
1 TCCTTTTAACAGAGATAGCCACAAAG
57705196 ACACTTCTTT
Statistics
Matches: 198, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
26 49 0.25
28 70 0.35
29 62 0.31
30 1 0.01
31 16 0.08
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (29 bp):
TCCTTTTAACAGAGATAGCCACAAAGGCA
Found at i:57705081 original size:28 final size:28
Alignment explanation
Indices: 57704958--57705195 Score: 202
Period size: 28 Copynumber: 8.5 Consensus size: 28
57704948 TCATTTAACT
* *
57704958 GAGATAGCCACAAAGGCATCTTTTTAATA
1 GAGATAGCCACAAAGGCTTC-CTTTAATA
* *
57704987 TG-GATAGCCACAAAGGCATCCTTTTAACA
1 -GAGATAGCCACAAAGGCTTCC-TTTAATA
* * * * *
57705016 AAGATAACCACAAACGCATCCTTT--CA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* * *
57705042 GATATAGTCACAAAGGTTTCCTTTAATA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* *
57705070 GATATAGCCACAAAGGCTTTCTTTAATA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
*
57705098 GAGATTGCCACAAAGGCTTCCTTT--TA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
* *
57705124 GAGATAACCACAAAGGCACTTCCTTATAACA
1 GAGATAGCCACAAAGG--CTTCCTT-TAATA
*
57705155 GAGATCGCCACAAAGGCTTCCTTT--TA
1 GAGATAGCCACAAAGGCTTCCTTTAATA
*
57705181 GAGATAGCCATAAAG
1 GAGATAGCCACAAAG
57705196 ACACTTCTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
26 49 0.28
28 58 0.34
29 49 0.28
30 1 0.01
31 15 0.09
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (28 bp):
GAGATAGCCACAAAGGCTTCCTTTAATA
Found at i:57705169 original size:57 final size:56
Alignment explanation
Indices: 57704958--57705206 Score: 203
Period size: 57 Copynumber: 4.5 Consensus size: 56
57704948 TCATTTAACT
* * *
57704958 GAGATAGCCACAAAGGCATCTT--TTTAATATG-GATAGCCACAAAGGCATCCTTTTAACA
1 GAGATAGCCACAAAGGCA-CTTCCTTTAACA-GAGATCGCCACAAAGGCTTCCTTTT---A
* * * * * * *
57705016 AAGATAACCACAAACGCA--TCCTTT--CAGATATAGTCACAAAGGTTTCCTTTAATA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTT--TA
* * * *
57705070 GATATAGCCACAAAGG--CTTTCTTTAATAGAGATTGCCACAAAGGCTTCCTTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTTTA
*
57705124 GAGATAACCACAAAGGCACTTCCTTATAACAGAGATCGCCACAAAGGCTTCCTTTTA
1 GAGATAGCCACAAAGGCACTTCCTT-TAACAGAGATCGCCACAAAGGCTTCCTTTTA
* *
57705181 GAGATAGCCATAAAGACACTT-CTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTA
57705207 GATTGTGCTA
Statistics
Matches: 153, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
54 35 0.23
55 22 0.14
56 30 0.20
57 51 0.33
58 15 0.10
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (56 bp):
GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATCGCCACAAAGGCTTCCTTTTA
Found at i:57717729 original size:33 final size:33
Alignment explanation
Indices: 57717686--57717922 Score: 121
Period size: 33 Copynumber: 6.8 Consensus size: 33
57717676 ATATAAAGGG
*
57717686 GGTTGATAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * * *
57717719 GGTTGCTAAGTGTTGATTCCACTGTACTTTAAACGTGAAGGA
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT---CAT--TGGT
**
57717761 GGTTGCTAAGTGCTGATTCCCC---T-A-AAG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
57717788 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
57717821 GGTTGCTAAGTGCTGA-TCCCATCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCCC--CGAT-TCATTG---GT
* *
57717858 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
57717897 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
57717923 AACGGATAAC
Statistics
Matches: 158, Mismatches: 16, Indels: 59
0.68 0.07 0.25
Matches are distributed among these distances:
27 22 0.14
28 2 0.01
30 1 0.01
31 1 0.01
32 5 0.03
33 54 0.34
34 14 0.09
35 2 0.01
37 4 0.03
39 2 0.01
40 2 0.01
41 1 0.01
42 28 0.18
43 16 0.10
44 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:57717806 original size:102 final size:103
Alignment explanation
Indices: 57717685--57717885 Score: 309
Period size: 102 Copynumber: 2.0 Consensus size: 103
57717675 AATATAAAGG
* * *
57717685 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCA-CTGTA-CTT
1 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCATC-GTATCAT
57717748 TAAACGTG-AAGGAGGTTGCTAAGTGCTGATTCCCCTAAA
65 TAAACGTGAAAGG-GGTTGCTAAGTGCTGATTCCCCTAAA
*
57717787 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCATCGTATCATT
1 GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCATCGTATCATT
* *
57717852 GAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAACGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
57717886 GAATCACTGG
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
102 55 0.61
103 31 0.34
104 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
GGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCATCGTATCATT
AAACGTGAAAGGGGTTGCTAAGTGCTGATTCCCCTAAA
Found at i:57725344 original size:102 final size:102
Alignment explanation
Indices: 57725163--57725362 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 102
57725153 GAATATAAAT
* * *
57725163 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTTCTGATTCCACCATATTTT
1 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
*
57725228 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
* *
57725265 GGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
57725330 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
57725363 AGATTCATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (102 bp):
GGGGTTGATAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:57725386 original size:75 final size:74
Alignment explanation
Indices: 57725263--57725472 Score: 323
Period size: 75 Copynumber: 2.8 Consensus size: 74
57725253 TGATTCCCCC
* *
57725263 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAT-CCACCGTATA
57725328 TTAAATGTGA
65 TTAAATGTGA
* *
57725338 AAGGGGTTGCTAAGTGCTGATTCCCAGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGA-TCCACCGTATA
*
57725403 TTGAATGTGA
65 TTAAATGTGA
* *
57725413 AAGGGGTTGC-AAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTG-ATCCACCG
57725473 ATAACGGATA
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
74 44 0.35
75 79 0.64
76 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCACCGTATAT
TAAATGTGA
Found at i:57740641 original size:23 final size:23
Alignment explanation
Indices: 57740611--57740666 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
57740601 TATTTGTGAA
*
57740611 GCCTTTGTGGCGTATTCTATAAT
1 GCCTTTGTGGCGTACTCTATAAT
* *
57740634 GCCTTTGTGGCGTACTCTGTAGT
1 GCCTTTGTGGCGTACTCTATAAT
57740657 GCCTTTGTGG
1 GCCTTTGTGG
57740667 TAAGTCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.41
Consensus pattern (23 bp):
GCCTTTGTGGCGTACTCTATAAT
Found at i:57742313 original size:10 final size:10
Alignment explanation
Indices: 57742288--57742329 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
57742278 AATTTTGGGG
57742288 AAAACAAAAT
1 AAAACAAAAT
*
57742298 --AACAAAAC
1 AAAACAAAAT
57742306 AAAACAAAAT
1 AAAACAAAAT
*
57742316 AAAATAAAAT
1 AAAACAAAAT
57742326 AAAA
1 AAAA
57742330 TAATATCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:57747697 original size:24 final size:24
Alignment explanation
Indices: 57747665--57747712 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
57747655 GACAAGTTGC
57747665 ACGTGGTGGACAAACCACTCAATA
1 ACGTGGTGGACAAACCACTCAATA
* * * *
57747689 ACGTTGTGGCCAAGCCACTTAATA
1 ACGTGGTGGACAAACCACTCAATA
57747713 TCGTAGAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (24 bp):
ACGTGGTGGACAAACCACTCAATA
Found at i:57747699 original size:63 final size:63
Alignment explanation
Indices: 57747626--57747751 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
57747616 ATGACATACC
* * *
57747626 ACGTTGTGGCCAAGCTACTCAATATTGCAGACA-AGTTGCACGTGGTGGACAAACCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGA-AGAGTTGCACGTGATGGACAAACCACTCAATA
* * * *
57747689 ACGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTGCACGTTATGGACAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGATGGACAAACCACTCAATA
57747752 TCGCAGTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 54 0.98
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (63 bp):
ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGATGGACAAACCACTCAATA
Found at i:57747743 original size:39 final size:39
Alignment explanation
Indices: 57747689--57747790 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
57747679 CCACTCAATA
* * * * *
57747689 ACGTTGTGGCCAAGCCACTTAATATCGTAG-AAGAGTTGC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAA-AGCTAC
* *
57747728 ACGTTATGGACAAGCCACTCAATATCGCAGTCAAGCTAC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
57747767 ACGTTGTGGACAAGCCACTCAATA
1 ACGTTGTGGACAAGCCACTCAATA
57747791 ACATTATGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (39 bp):
ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
Found at i:57747805 original size:102 final size:102
Alignment explanation
Indices: 57747625--57747820 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 102
57747615 AATGACATAC
* * * * * *
57747625 CACGTTGTGGCCAAGCTACTCAATATTGCAGACAAGTTGCACGTGGTGGACAAACCACTCAATAA
1 CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
* *
57747690 CGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTG
66 CATTATGGCCAAGCCACTTAATATCGTAGAAGAGTTG
* * *
57747727 CACGTTATGGACAAGCCACTCAATATCGCAGTCAAGCTACACGTTGTGGACAAGCCACTCAATAA
1 CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
* *
57747792 CATTATGGTCAAGCCACTTAATATTGTAG
66 CATTATGGCCAAGCCACTTAATATCGTAG
57747821 TAAAACTGCC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (102 bp):
CACGTTATGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
CATTATGGCCAAGCCACTTAATATCGTAGAAGAGTTG
Found at i:57751200 original size:27 final size:28
Alignment explanation
Indices: 57751136--57751200 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
57751126 ATCATAAAAT
*
57751136 AATTA-GAATTCAATATTTTAGTAATTT
1 AATTACGAATTCAATATTTTAGTAATTA
* * *
57751163 CAGTACAAATT-AATTATTTTA-TAATTA
1 AATTACGAATTCAA-TATTTTAGTAATTA
57751190 AATTACGAATT
1 AATTACGAATT
57751201 TCGACAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (28 bp):
AATTACGAATTCAATATTTTAGTAATTA
Found at i:57754635 original size:15 final size:16
Alignment explanation
Indices: 57754608--57754637 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57754598 AATAAAAATT
57754608 AATATATATTATATAA
1 AATATATATTATATAA
57754624 AATATA-ATTATATA
1 AATATATATTATATA
57754638 TTAGTTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:57761465 original size:23 final size:23
Alignment explanation
Indices: 57761427--57761472 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
57761417 ATGAAACATA
*
57761427 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
57761450 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
57761473 AGTCAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:57761660 original size:30 final size:31
Alignment explanation
Indices: 57761626--57761694 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
57761616 TTGCTCAAGA
* *
57761626 GTAAATACTCAAAA-TTTGAGGGATTA-AAGT
1 GTAAATA-TCAAAAGTTTGAAGGACTAGAAGT
* *
57761656 GTAAATATGAAAAGTTTGAAGGACTAGTAGT
1 GTAAATATCAAAAGTTTGAAGGACTAGAAGT
57761687 GTAAATAT
1 GTAAATAT
57761695 TTTAAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (31 bp):
GTAAATATCAAAAGTTTGAAGGACTAGAAGT
Found at i:57768176 original size:108 final size:108
Alignment explanation
Indices: 57767987--57768204 Score: 391
Period size: 108 Copynumber: 2.0 Consensus size: 108
57767977 AGAACTATAA
* * *
57767987 CTTTATCACAATCACATTACATTGAACATGTTCTTAAAAAGTTTGATCTTTTCAACTGTATACCA
1 CTTTATCACAATCACATTACATTGAAAATGTGCTTAAAAAGTTTGATCTCTTCAACTGTATACCA
57768052 GCATCCACACCCATGGATCCTCAAATAAAATTAGTATCTAATG
66 GCATCCACACCCATGGATCCTCAAATAAAATTAGTATCTAATG
57768095 CTTTATCACAATCACATTACATTGAAAATGTGCTTAAAAAGTTTGATCTCTTCAACTGTATACCA
1 CTTTATCACAATCACATTACATTGAAAATGTGCTTAAAAAGTTTGATCTCTTCAACTGTATACCA
* *
57768160 GCATCTACACCCATGGATCCTCAATTAAAATTAGTATCTAATG
66 GCATCCACACCCATGGATCCTCAAATAAAATTAGTATCTAATG
57768203 CT
1 CT
57768205 GGTAGGAAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (108 bp):
CTTTATCACAATCACATTACATTGAAAATGTGCTTAAAAAGTTTGATCTCTTCAACTGTATACCA
GCATCCACACCCATGGATCCTCAAATAAAATTAGTATCTAATG
Found at i:57771018 original size:35 final size:35
Alignment explanation
Indices: 57770979--57771046 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
57770969 TATGAAATAT
*
57770979 AAATGGATTCAATAATTAAA-T-AAATTAAATTAAAG
1 AAATGGATT-AA-AAATAAATTAAAATTAAATTAAAG
*
57771014 AAATGTATTAAAAATAAATTAAAATTAAATTAA
1 AAATGGATTAAAAATAAATTAAAATTAAATTAA
57771047 GGGTCATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 3 0.10
35 20 0.69
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (35 bp):
AAATGGATTAAAAATAAATTAAAATTAAATTAAAG
Found at i:57772720 original size:23 final size:24
Alignment explanation
Indices: 57772690--57772735 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57772680 ATAATTTATC
*
57772690 TTAAAAAA-ATTTTAAACGTAATG
1 TTAAAAAACATTTAAAACGTAATG
*
57772713 TTAAAAAACATTTAAAACTTAAT
1 TTAAAAAACATTTAAAACGTAAT
57772736 TTCCCACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
TTAAAAAACATTTAAAACGTAATG
Found at i:57777760 original size:19 final size:19
Alignment explanation
Indices: 57777732--57777770 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57777722 ATAAAATTAG
57777732 ATTTTCTAAAAATATT-TTT
1 ATTTTCT-AAAATATTATTT
*
57777751 ATTTTTTAAAATATTATTT
1 ATTTTCTAAAATATTATTT
57777770 A
1 A
57777771 CCAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTCTAAAATATTATTT
Found at i:57793450 original size:18 final size:18
Alignment explanation
Indices: 57793427--57793462 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57793417 CCTCTTCTTT
*
57793427 TTTTTCATCTTTAGCAAC
1 TTTTTCATCTTCAGCAAC
*
57793445 TTTTTCTTCTTCAGCAAC
1 TTTTTCATCTTCAGCAAC
57793463 AACTTTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (18 bp):
TTTTTCATCTTCAGCAAC
Found at i:57793473 original size:18 final size:19
Alignment explanation
Indices: 57793447--57793483 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
57793437 TTAGCAACTT
57793447 TTTCTTCTTCAGCAACAAC
1 TTTCTTCTTCAGCAACAAC
*
57793466 TTTC-TCTTCTGCAACAAC
1 TTTCTTCTTCAGCAACAAC
57793484 AACTTCCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTCTTCTTCAGCAACAAC
Found at i:57793498 original size:18 final size:21
Alignment explanation
Indices: 57793441--57793500 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
57793431 TCATCTTTAG
* * *
57793441 CAACTTTTTCTTCTTCAGCAA
1 CAACTTTCTCTTCTGCAACAA
57793462 CAACTTTCTCTTCTGCAACAA
1 CAACTTTCTCTTCTGCAACAA
57793483 CAAC-TTC-CTTCT-CAACAA
1 CAACTTTCTCTTCTGCAACAA
57793501 TAGTGTCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
20 3 0.08
21 22 0.61
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.35
Consensus pattern (21 bp):
CAACTTTCTCTTCTGCAACAA
Found at i:57802112 original size:50 final size:50
Alignment explanation
Indices: 57802006--57802191 Score: 212
Period size: 50 Copynumber: 3.6 Consensus size: 50
57801996 AGGAATGAGA
* * * * *
57802006 TCCCATGTAAGACCATATTTGGGATATGGCATTGGAATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG---CATCGAGA-TA--AGAGG
57802062 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
* * * *
57802112 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
*
57802162 TCTC-TCGTAAGACCATGTCTGGGACATGGC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGC
57802192 ATGGGCACTG
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
49 1 0.01
50 78 0.66
52 2 0.02
53 7 0.06
56 31 0.26
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
Found at i:57802222 original size:50 final size:50
Alignment explanation
Indices: 57802054--57802235 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
57802044 CATTGAGATT
**
57802054 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-TCGAG
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACT-GAG
* ** **
57802104 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
* * * * *
57802154 ATGATAGGTCTCT-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCT-TATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
** *
57802204 ATGAGAACTCTTATGTAAGACCATATCTGGGA
1 ATGAGAGGTCTTATGTAAGACCATGTCTGGGA
57802236 TATGACATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 110 0.99
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCTTATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
Found at i:57802623 original size:18 final size:18
Alignment explanation
Indices: 57802600--57802635 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57802590 AGATAACTCC
57802600 TTGTGCTCGATTTCAAAA
1 TTGTGCTCGATTTCAAAA
57802618 TTGTGCTCGATTTCAAAA
1 TTGTGCTCGATTTCAAAA
57802636 ACATTCTCGG
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:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGTGCTCGATTTCAAAA
Found at i:57806789 original size:6 final size:6
Alignment explanation
Indices: 57806780--57806820 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
57806770 ACTAGAGATA
57806780 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
57806821 AATTCATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:57812599 original size:125 final size:125
Alignment explanation
Indices: 57812377--57812754 Score: 594
Period size: 125 Copynumber: 3.0 Consensus size: 125
57812367 TTAGGGTTTT
* * *
57812377 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAACAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
* * * * * *
57812442 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* *
57812502 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
* *
57812567 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCTCTTTTTCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* * * *
57812627 TAGGTCATGGAAGAAATAATTTCGAGTTGATGGTTCTAAACAAATAATATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
*
57812692 AGGATGCTATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACGCACTTTTTCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
57812752 TAG
1 TAG
57812755 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 234 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
Found at i:57815272 original size:22 final size:22
Alignment explanation
Indices: 57815247--57815878 Score: 491
Period size: 23 Copynumber: 28.2 Consensus size: 22
57815237 TAAAGTCTTA
* * *
57815247 AAGTTAATGGTTAAGGGTTTCT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815269 AAGTTAAGGG-TTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815290 AAGTTGAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
57815311 AAGTTAAGGGTTTAGGGTTTTTT
1 AAGTTAAGGGTTTAGGG-TTTTT
**
57815334 AA-TTAA-ATTAGTTAGGGTTTTT
1 AAGTTAAGGGT--TTAGGGTTTTT
*
57815356 AAATTTAAGGGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTT
** *
57815379 AA-TTAAATTAGTTTAGTGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
57815402 AAGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815424 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
** *
57815447 AA-TTAAATTAGTTTAAGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* *
57815470 AAGTTAAGGGATTAGGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* * *
57815492 AATTTTAAAGGTTTTGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
* *
57815515 AATTTAAGGG-TTAGGGTTTAT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815536 AAGTTAAGGATTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* * *
57815558 AATTTTAAGGGTTTTGGGTTTTA
1 AA-GTTAAGGGTTTAGGGTTTTT
*
57815581 AATTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815602 AAGTTAAAGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
**
57815624 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
57815647 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
**
57815669 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
57815692 AAGTTAAGGGTTAGGGTTTAGGGTTTTT
1 AAGTT-A-----AGGGTTTAGGGTTTTT
** * * * ** *
57815720 ATTTTTAAGGGTTTAGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* *
57815742 AATTTAAGGG-TTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
57815763 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
57815785 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
**
57815808 AA-TTGAATTAGTTTAGGG-TTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* *
57815830 AAGTTGAA-TGTTTAGAGTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTT
*
57815852 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
57815875 AAGT
1 AAGT
57815879 AATAACTCAA
Statistics
Matches: 494, Mismatches: 79, Indels: 74
0.76 0.12 0.11
Matches are distributed among these distances:
21 106 0.21
22 161 0.33
23 195 0.39
24 14 0.03
25 1 0.00
28 16 0.03
29 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
AAGTTAAGGGTTTAGGGTTTTT
Found at i:57815356 original size:45 final size:45
Alignment explanation
Indices: 57815247--57815878 Score: 516
Period size: 45 Copynumber: 14.1 Consensus size: 45
57815237 TAAAGTCTTA
* * * *
57815247 AAGTT-AATGGTTAAGGGTTTCTAAGTTAAGGG-TTAAGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
*
57815290 AAGTT-GAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTTT
** *
57815334 AA-TTAAATTAG-TTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTTT
1 AAGTTAAA-GGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTTTTT
** * *
57815379 AA-TTAAATTAGTTTAGTGTTTTTAAGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
* * ** *
57815424 AATTTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAAGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT
* * * * *
57815470 AAGTT-AAGGGATTAGGGGTTTTAATTTTAAAGGTTTTGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTT
* * *
57815515 AA-TTTAAGGG-TTAGGGTTTATAAGTTAAGGATTTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
* * * * *
57815558 AATTTTAAGGGTTTTGGGTTTTAAATTTAAGGG-TTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
**
57815602 AAGTTAAA-GGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT
**
57815647 AAGTT-AAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT
**
57815692 AAGTTAAGGGTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGG-TTTT
1 AAGTTAA-----AGGGTTTAGGGTTTTTA-AGTTAAGGGTTTAGGGTTTTT
* *
57815742 AA-TTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
* * **
57815785 AATTTTAAGGGTTTAGGGTTTTTAA-TTGAATTAGTTTAGGG-TTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT
* * * *
57815830 AAGTTGAA-TGTTTAGAGTTTTTAATTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAAGGGTTTAGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTT
57815875 AAGT
1 AAGT
57815879 AATAACTCAA
Statistics
Matches: 495, Mismatches: 60, Indels: 66
0.80 0.10 0.11
Matches are distributed among these distances:
42 35 0.07
43 66 0.13
44 87 0.18
45 209 0.42
46 58 0.12
47 2 0.00
49 3 0.01
50 6 0.01
51 25 0.05
52 2 0.00
53 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (45 bp):
AAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
Found at i:57816372 original size:18 final size:18
Alignment explanation
Indices: 57816346--57816388 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57816336 GACTCAGAAA
* *
57816346 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
57816364 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
57816382 AGGAAAC
1 AGGAAAC
57816389 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:57817040 original size:7 final size:7
Alignment explanation
Indices: 57817030--57817055 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57817020 TTATATACAT
57817030 AATACTA
1 AATACTA
57817037 AATACTA
1 AATACTA
57817044 AATACTA
1 AATACTA
57817051 AATAC
1 AATAC
57817056 CAATCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:57817068 original size:13 final size:13
Alignment explanation
Indices: 57817050--57817075 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57817040 ACTAAATACT
57817050 AAATACCAATCGA
1 AAATACCAATCGA
57817063 AAATACCAATCGA
1 AAATACCAATCGA
57817076 CTAGCGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATACCAATCGA
Found at i:57818194 original size:11 final size:11
Alignment explanation
Indices: 57818178--57818215 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57818168 TTTACGGTTT
57818178 AAAAAATTTTA
1 AAAAAATTTTA
57818189 AAAAAATTTTA
1 AAAAAATTTTA
**
57818200 AAATTA-TTTA
1 AAAAAATTTTA
57818210 AAAAAA
1 AAAAAA
57818216 GGGAGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:57818311 original size:11 final size:12
Alignment explanation
Indices: 57818268--57818334 Score: 88
Period size: 11 Copynumber: 5.9 Consensus size: 12
57818258 GATTAAATAT
*
57818268 AAATTTGAGAGA
1 AAATTTGAGAGG
*
57818280 AAATTGGA-AGG
1 AAATTTGAGAGG
57818291 -AATTTGAGAGG
1 AAATTTGAGAGG
57818302 AAATTT-AGAGG
1 AAATTTGAGAGG
57818313 AAA-TTGAGAGG
1 AAATTTGAGAGG
57818324 AAATTTGAGAG
1 AAATTTGAGAG
57818335 AGGATTAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.17
11 21 0.44
12 19 0.40
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (12 bp):
AAATTTGAGAGG
Found at i:57818329 original size:34 final size:34
Alignment explanation
Indices: 57818268--57818334 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
57818258 GATTAAATAT
57818268 AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
1 AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
*
57818302 AAATTT-AGAGGAAATT-GAGAGGAAATTTGAGAG
1 AAATTTGAGAGAAAATTGGA-AGG-AATTTGAGAG
57818335 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 2 0.07
33 12 0.40
34 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (34 bp):
AAATTTGAGAGAAAATTGGAAGGAATTTGAGAGG
Found at i:57820867 original size:148 final size:149
Alignment explanation
Indices: 57820693--57820990 Score: 589
Period size: 148 Copynumber: 2.0 Consensus size: 149
57820683 AAAATAAGTT
57820693 ATATTATTTAAAGGTATTTTAATTTTTTTATTTTAAATAAATAAAAAAATTATAGTGAGATTTAA
1 ATATTATTTAAAGGTATTTTAATTTTTTTATTTTAAATAAATAAAAAAATTATAGTGAGATTTAA
57820758 ACTCATGTGAATTGCATTGGCAAAACCTTAAATTTACCACTCAATTTTATTTTGAACTTTTCATA
66 ACTCATGTGAATTGCATTGGCAAAACCTTAAATTTACCACTCAATTTTATTTTGAACTTTTCATA
57820823 CATTTTAATTTTATTATGC
131 CATTTTAATTTTATTATGC
57820842 ATATTATTT-AAGGTATTTTAATTTTTTTATTTTAAATAAATAAAAAAATTATAGTGAGATTTAA
1 ATATTATTTAAAGGTATTTTAATTTTTTTATTTTAAATAAATAAAAAAATTATAGTGAGATTTAA
57820906 ACTCATGTGAATTGCATTGGCAAAACCTTAAATTTACCACTCAATTTTATTTTGAACTTTTCATA
66 ACTCATGTGAATTGCATTGGCAAAACCTTAAATTTACCACTCAATTTTATTTTGAACTTTTCATA
57820971 CATTTTAATTTTATTATGC
131 CATTTTAATTTTATTATGC
57820990 A
1 A
57820991 CACTTTATTG
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
148 140 0.94
149 9 0.06
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (149 bp):
ATATTATTTAAAGGTATTTTAATTTTTTTATTTTAAATAAATAAAAAAATTATAGTGAGATTTAA
ACTCATGTGAATTGCATTGGCAAAACCTTAAATTTACCACTCAATTTTATTTTGAACTTTTCATA
CATTTTAATTTTATTATGC
Found at i:57822827 original size:29 final size:29
Alignment explanation
Indices: 57822789--57823147 Score: 339
Period size: 29 Copynumber: 12.4 Consensus size: 29
57822779 TCATCGACCA
*
57822789 ATGAAGAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
57822818 ATGAAAAGGGATAGCTTCTGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
57822847 ATGAGAAGGGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* ** *
57822876 ATGAGAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
57822905 ATGAGAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
57822934 ATGATAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
57822963 ATGAGAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
57822992 ATGAAAAGGGATAGCTTCGGTTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
* * * * *
57823021 ATGGAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
57823050 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
*
57823079 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
57823108 ATGAAAAGGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
57823137 ATGAAAAGGGA
1 ATGAAAAGGGA
57823148 CGATTACGAC
Statistics
Matches: 285, Mismatches: 41, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.01
29 277 0.97
30 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Done.