Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 39 of 318
Found at i:10926843 original size:268 final size:269
Alignment explanation
Indices: 10926541--10928212 Score: 1970
Period size: 268 Copynumber: 6.2 Consensus size: 269
10926531 AAATTATAGA
* *
10926541 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGTA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
*
10926606 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCATATCGAAAATGA
66 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGA
* *
10926671 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAAACTAAAGATAGCAAGTCTTATCTTCCTGAAG
131 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
* **
10926736 TTGCAGGAAGCAGACTG-AAAGTTACAAATCTTATCTTTATATATCGGCTATGGAGCAGATCAGA
196 TTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCAGA
***
10926800 AATGGTGAG
261 AATGACAAG
* *
10926809 TCTTATCTTCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTACA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* * *
10926874 GGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATAA
66 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGA
* *
10926939 CAAGTATTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
131 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
* *
10927004 TTGCAGGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGA
196 TTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCAGA
* *
10927068 AATGGCGAG
261 AATGACAAG
* *
10927077 TCTTATCTCCATGTATCTGCTATGGAGTAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* *
10927142 GGAAGCGGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCACAT-GAAAAATG
66 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCG-AAAATG
*
10927206 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAA
130 ACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAA
** * * *
10927271 GTTGCAGGAAGCAGACTG-AAAGTTACAGATCTTATCTTTATATATTGGCTATGGAGCTGATCAA
195 GTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCAG
**
10927335 AAATGATGAG
260 AAATGACAAG
*
10927345 TCTTATCTTCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* *
10927410 GGAAGCAGACTGAAAATTTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATC-AGAAATG
66 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA-AAATG
* * * * ** * ** ** *
10927474 GCGAGTCTTATCTCCATGTA-TCTGTTATGGAGCAGATTTTAGCCAG-TAGTCTTATCTTCCTGA
130 ACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGA
* * * * *
10927537 AGTTGCAGGAAGTAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAACAGAT-G
194 AGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCA
10927601 GAAAATGACAAG
259 G-AAATGACAAG
* * * * ** ** * * *
10927613 TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTTCTAAAGTT
1 TCTTATCTCCATGTA-TCAGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTT
* * * *
10927676 GCAAGAAGCAGACT-GAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATC-AGAA
63 GCAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA-AA
* * * * * * * ** ** *
10927739 ATGGCGAGTCTTATCTCCATGTA-TCTGCTATGGATCAGATTTTAGCCA-CTAGTCTTATCTTCC
127 ATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCC
* *
10927802 TGAAGTTGTAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGA
191 TGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGA
* *
10927867 T-TGAAAATAACAAG
256 TCAG-AAATGACAAG
* * * * ** * * *
10927881 TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTAAAGTT
1 TCTTATCTCCATGTA-TCAGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTT
* ***
10927944 GCAGGAAGCAGACTAAAAA-TTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGAT-TTTAA
63 GCAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAA
** * * * * ** *
10928007 CCACCAGCCTTATCTCTCT-AAGGTAGCAA-GAGAGCAGGTTGAAGATA-CAGGTCTTATCTTCC
128 TGACAAGTCTTATCTCCCTGAA-GTTGCAATG-GAGCAGACTGAAGATAGCAAGTCTTATCTTCC
* * * * *
10928069 TGAAGTTGCAAGAAGCAGACTGAAAAG-TATAGATCTTATCTCCATGTATTGGCTATGGACCAGA
191 TGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGA
* *
10928133 TCAGAAATGGCAAA
256 TCAGAAATGACAAG
* ** *
10928147 TCTTATCTCCATGTATC-GACTATGGAGCAGATTTTAGCCATTAACCTCATCTTCCTGAAGTTGC
1 TCTTATCTCCATGTATCAG-CTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGC
10928211 AG
65 AG
10928213 TGGAACAGGT
Statistics
Matches: 1240, Mismatches: 145, Indels: 41
0.87 0.10 0.03
Matches are distributed among these distances:
265 22 0.02
266 71 0.06
267 104 0.08
268 1007 0.81
269 36 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (269 bp):
TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGA
CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
TTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCAGA
AATGACAAG
Found at i:10926970 original size:402 final size:400
Alignment explanation
Indices: 10926541--10928212 Score: 1972
Period size: 402 Copynumber: 4.2 Consensus size: 400
10926531 AAATTATAGA
* *
10926541 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGTA
1 TCTTATCTCCATGTATCTGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* *
10926606 GGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCATATC-GAAAATG
66 GGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG-AAATG
* * * *
10926670 ACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAAACTAAAGATAGCAAGTCTTATCTTCCTGA
130 ACAAGTCTTATCTCCATGAA-TCTGCAATGGAGCAGACTTAAGACAGCAAGTCTTATCTTCCTGA
* * * ** *
10926734 AGTTGCAGGAAGCAGACTGAAAGTTACAAATCTTATCTTTATATATCGGCTATGGAGCAGATCAG
194 AGTTGCAGGAAGCAGACTAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AG
*** * * * * * ** ** *
10926799 AAATGGTGAGTCTTATCTTCATGTA-TCAGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCT
258 AAATGACAAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCT
* * * *
10926861 TCCTGAAGTTACAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCGGCTATGGAGC
321 TCCTGAAGTTGCAGGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGC
* *
10926926 AGATCGAAAATAACAAG
385 AGATC-AAAATGACGAG
* * * * * ** ** *
10926943 TATTATCTCCCTGAAGT-TGCAATAGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTG
1 TCTTATCTCCATGTA-TCTGCTATAGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTTG
* *
10927007 CAGGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGAAAT
64 CAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAAT
* * * * * * * * *
10927071 GGCGAGTCTTATCTCCATGTATCTGCTATGGAGTAGATTTTAGCCA-CTAGTCTTATCTTCCTGA
129 GACAAGTCTTATCTCCATGAATCTGCAATGGAGCAGACTTAAGACAGCAAGTCTTATCTTCCTGA
* *
10927135 AGTTGCAGGAAGCGGACTAAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCACATGA
194 AGTTGCAGGAAGCAGACT-AAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-A
*
10927200 AAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTT
257 GAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTT
** * *
10927265 CCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTTTATATATTGGCTATGGAGCTG
322 CCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAG
*
10927330 ATCAAAAATGATGAG
387 ATC-AAAATGACGAG
* * *
10927345 TCTTATCTTCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCTGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* *
10927410 GGAAGCAGACTGAAAATTTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGG
66 GGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGA
* * ** * * * *
10927475 CGAGTCTTATCTCCATGTATCTGTTATGGAGCAGATTTTAGCCAG-TAGTCTTATCTTCCTGAAG
131 CAAGTCTTATCTCCATGAATCTGCAATGGAGCAGACTTAAGACAGCAAGTCTTATCTTCCTGAAG
* * *
10927539 TTGCAGGAAGTAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAACAGATGGAA
196 TTGCAGGAAGCAGACT-AAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAG-A
*
10927604 AATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTTC
259 AATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCC
* *
10927669 TAAAGTTGCAAGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGAT
324 TGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGAT
*
10927734 CAGAAATGGCGAG
389 CA-AAATGACGAG
* * *
10927747 TCTTATCTCCATGTATCTGCTATGGATCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGTA
1 TCTTATCTCCATGTATCTGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* * *
10927812 GGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGAT-TGAAAATA
66 GGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG-AAATG
* * * *
10927876 ACAAGTCTTATCTCCCTGAAGT-TGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTAA
130 ACAAGTCTTATCTCCATGAA-TCTGCAATGGAGCAGACTTAAGACAGCAAGTCTTATCTTCCTGA
* * ***
10927940 AGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATTTT
194 AGTTGCAGGAAGCAGACTAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGA
** * * * * * ** *
10928005 AACCACCAGCCTTATCTCTCT-AAGGTAGCAAG-AGAGCAGGTTGAAGATA-CAGGTCTTATCTT
259 AATGACAAGTCTTATCTCCCTGAA-GTTGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTT
* * *
10928067 CCTGAAGTTGCAAGAAGCAGACTGAAAAG-TATAGATCTTATCTCCATGTATTGGCTATGGACCA
322 CCTGAAGTTGCAGGAAGCAGACTG-AAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCA
* * *
10928131 GATCAGAAATGGCAAA
386 GATCA-AAATGACGAG
* * ** *
10928147 TCTTATCTCCATGTATC-GACTATGGAGCAGATTTTAGCCATTAACCTCATCTTCCTGAAGTTGC
1 TCTTATCTCCATGTATCTG-CTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGC
10928211 AG
65 AG
10928213 TGGAACAGGT
Statistics
Matches: 1102, Mismatches: 148, Indels: 42
0.85 0.11 0.03
Matches are distributed among these distances:
399 1 0.00
400 141 0.13
401 113 0.10
402 742 0.67
403 105 0.10
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (400 bp):
TCTTATCTCCATGTATCTGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
GGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGA
CAAGTCTTATCTCCATGAATCTGCAATGGAGCAGACTTAAGACAGCAAGTCTTATCTTCCTGAAG
TTGCAGGAAGCAGACTAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAA
TGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTG
AAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCA
AAATGACGAG
Found at i:10926971 original size:45 final size:45
Alignment explanation
Indices: 10926922--10927023 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
10926912 ATCGGCTATG
10926922 GAGCAGA-TCGAAAATAACAAGTATTATCTCCCTGAAGTTGCAATA
1 GAGCAGACT-GAAAATAACAAGTATTATCTCCCTGAAGTTGCAATA
* * * * **
10926967 GAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGA
1 GAGCAGACTGAAAATAACAAGTATTATCTCCCTGAAGTTGCAATA
10927012 -AGCAGACTGAAA
1 GAGCAGACTGAAA
10927024 GTTACAGATC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 11 0.22
45 37 0.76
46 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (45 bp):
GAGCAGACTGAAAATAACAAGTATTATCTCCCTGAAGTTGCAATA
Found at i:10927237 original size:45 final size:45
Alignment explanation
Indices: 10927188--10927291 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 45
10927178 GTATCGGCTA
10927188 TGGAGCACA-TGAAAA-ATGACAAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCACACTGAAAATA-G-CAAGTCTTATCTCCCTGAAGTTGCAG
* * *
10927233 TGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAG
1 TGGAGCACACTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAG
* *
10927278 -GAAGCAGACTGAAA
1 TGGAGCACACTGAAA
10927292 GTTACAGATC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 12 0.23
45 33 0.63
46 6 0.12
47 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (45 bp):
TGGAGCACACTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAG
Found at i:10927658 original size:45 final size:43
Alignment explanation
Indices: 10927521--10927957 Score: 180
Period size: 45 Copynumber: 9.8 Consensus size: 43
10927511 TTTAGCCAGT
* * *
10927521 AGTCTTATCTTCCTGAAGTTGCA-GGAAGTAGACTGAAAATTTAC-
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACTGAAGA--TACA
* * * * *
10927565 AGATCTTATCTCCATGTA-TCGGCTATGGAACAGA-TGGAAAATGACA
1 AG-TCTTATCTCCCTGAAGT-TGC-ATGGAGCAGACT-GAAGAT-ACA
10927611 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCA-TGGAGCAGACTGAAGATA-CA
** * * * *
10927656 AGTCTTATCTTTCTAAAGTTGCAAGAAGCAGACTGAAAGTTAC-
1 AGTCTTATCTCCCTGAAGTTGCATGGAGCAGACTG-AAGATACA
* * * * *
10927699 AGATCTTATCTCCATGTA-TTGGCTATGGAGCAGATCAGAA-ATGGCG
1 AG-TCTTATCTCCCTGAAGTT-GC-ATGGAGCAGA-CTGAAGAT-ACA
* * * * ** ** *
10927745 AGTCTTATCTCCATGTA-TCTGCTATGGATCAGATTTTAGCCACT
1 AGTCTTATCTCCCTGAAGT-TGC-ATGGAGCAGACTGAAGATACA
* * *
10927789 AGTCTTATCTTCCTGAAGTTGTA-GGAAGCAGACTGAAAATTTAC-
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACTGAAGA--TACA
* * * *
10927833 AGATCTTATCTCCAT-ATA-TCGGCTATGGAGCAGATTGAAAATAACA
1 AG-TCTTATCTCCCTGA-AGT-TGC-ATGGAGCAGACTGAAGAT-ACA
*
10927879 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCA
1 AGTCTTATCTCCCTGAAGTTGCA-TGGAGCAGACTGAAGATA-CA
* *
10927924 AGTCTTATCTTCCTAAAGTTGCA-GGAAGCAGACT
1 AGTCTTATCTCCCTGAAGTTGCATGG-AGCAGACT
10927958 AAAAATTACA
Statistics
Matches: 298, Mismatches: 59, Indels: 72
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
43 14 0.05
44 63 0.21
45 179 0.60
46 36 0.12
47 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCATGGAGCAGACTGAAGATACA
Found at i:10927840 original size:89 final size:89
Alignment explanation
Indices: 10927476--10927916 Score: 296
Period size: 89 Copynumber: 4.9 Consensus size: 89
10927466 CAGAAATGGC
* ** *
10927476 GAGTCTTATCTCCATGTATCTGTTATGGAGCAGATTTTAGCCAGTAGTCTTATCTTCCTGAAGTT
1 GAGTCTTATCTCCATGTATCTGCTATGGAGCAGATTAAAGCCACTAGTCTTATCTTCCTGAAGTT
*
10927541 GCAGGAAGTAGACTGAAAATTTACA
66 GCAGGAAGCAGACTGAAAA-TTACA
* * * *** * *
10927566 GA-TCTTATCTCCATGTATCGGCTATGGAACAGATGGAAAATGACAAGTCTTATCTCCCTGAAGT
1 GAGTCTTATCTCCATGTATCTGCTATGGAGCAGAT-TAAAGCCACTAGTCTTATCTTCCTGAAGT
* *
10927630 TGCAGTGGAGCAGACTGAAGA-TAGCA
65 TGCAG-GAAGCAGACTGAAAATTA-CA
* ** * * * **
10927656 -AGTCTTATCTTTC-TAAAGT-TGC-AAGAAGCAGACTGAAAGTTAC-AGATCTTATC-TCCATG
1 GAGTCTTATC-TCCATGTA-TCTGCTATGGAGCAGA-TTAAAGCCACTAG-TCTTATCTTCC-TG
* * **
10927715 TA-TTGGCTATGG-AGCAGA-TCAGAAATGGC-
61 AAGTT-GC-A-GGAAGCAGACTGA-AAATTACA
* **
10927744 GAGTCTTATCTCCATGTATCTGCTATGGATCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTT
1 GAGTCTTATCTCCATGTATCTGCTATGGAGCAGATTAAAGCCACTAGTCTTATCTTCCTGAAGTT
*
10927809 GTAGGAAGCAGACTGAAAATTTACA
66 GCAGGAAGCAGACTGAAAA-TTACA
* * *** * *
10927834 GA-TCTTATCTCCATATATCGGCTATGGAGCAGATTGAAAATAACAAGTCTTATCTCCCTGAAGT
1 GAGTCTTATCTCCATGTATCTGCTATGGAGCAGATT-AAAGCCACTAGTCTTATCTTCCTGAAGT
*
10927898 TGCAGTGGAGCAGACTGAA
65 TGCAG-GAAGCAGACTGAA
10927917 GACAGCAAGT
Statistics
Matches: 266, Mismatches: 58, Indels: 53
0.71 0.15 0.14
Matches are distributed among these distances:
87 2 0.01
88 21 0.08
89 131 0.49
90 84 0.32
91 28 0.11
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (89 bp):
GAGTCTTATCTCCATGTATCTGCTATGGAGCAGATTAAAGCCACTAGTCTTATCTTCCTGAAGTT
GCAGGAAGCAGACTGAAAATTACA
Found at i:10928504 original size:17 final size:17
Alignment explanation
Indices: 10928482--10928520 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10928472 ACCCGACTTG
10928482 CCACT-AACTCCATCACC
1 CCACTAAAC-CCATCACC
*
10928499 CCACTAAACCCATTACC
1 CCACTAAACCCATCACC
10928516 CCACT
1 CCACT
10928521 TGCCTAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (17 bp):
CCACTAAACCCATCACC
Found at i:10929063 original size:21 final size:20
Alignment explanation
Indices: 10929037--10929075 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10929027 TTATGAACAT
10929037 TTTTTAAATATTATATTATTA
1 TTTTTAAATATTAT-TTATTA
*
10929058 TTTTTATATATTATTTAT
1 TTTTTAAATATTATTTAT
10929076 ATTAAGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAAATATTATTTATTA
Found at i:10929318 original size:2 final size:2
Alignment explanation
Indices: 10929311--10929336 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10929301 CTTTTAAATC
10929311 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10929337 ATTTATGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10930264 original size:125 final size:124
Alignment explanation
Indices: 10929837--10930273 Score: 459
Period size: 125 Copynumber: 3.4 Consensus size: 124
10929827 CTTAAGGGAT
* * ** *
10929837 TATTTCGTGTTTAGAGGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTTTCCATT
1 TATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTC-A---ATTTTCCATT
* * * *
10929902 CAACTAAAATACGAAATATCCTTTGGAAATTTTGTCCATGCTTTT-TAAAACTAAAACGA-G-AC
62 CGACTAAAATACG-AATATCCTTTTGAAATTTTATCCATG-TTTTCTAAAACTAAAACGAGGCAA
* * *
10929964 TATTTCGTGTTTGGAGAGTCTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGA
1 TATTTCGTGTTTGGA-AGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGA
* * * * *
10930029 CTAAAATATGGAATAGCCTTTTTTTTGAAATTTTATTCATGTTTTCTTAAACTAAAACGAGGCAG
65 CTAAAATA-CGAATATCC----TTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * *
10930094 TATTTCGCGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTTCTGGGCTTCAATTTTCCATTCGAC
1 TATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGAC
* * * *
10930159 TAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTTTCTCAAATTAAAATGAGGCAA
66 TAAAATAC-GAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * *
10930219 TGTTTCGTATTTGGAAATTTG-GTAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TATTTCGTGTTTGGAAGTTTGAG-AAATCGTGCCCAATCGTGCTGGGTTTCAATTT
10930274 ACCGTTTGGG
Statistics
Matches: 264, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
124 25 0.09
125 83 0.31
127 19 0.07
128 61 0.23
129 61 0.23
130 15 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (124 bp):
TATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGAC
TAAAATACGAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
Found at i:10930766 original size:3 final size:3
Alignment explanation
Indices: 10930752--10930989 Score: 160
Period size: 3 Copynumber: 77.0 Consensus size: 3
10930742 TGGTTTTGAC
*
10930752 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
10930800 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAG ACCAT AAT AAA AAA AAGA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AA-T
* * * * * *
10930848 AAT AAT AAC ATGT AAAT AAT AAT AAT GAC AAT AAT AGAA AAT AAT AAA
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * * * *
10930896 AAT AAAT AA- ACT ATGT CAAT AAG GAT AAT AGT AGT AAT AGT AAT AA-
1 AAT -AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
10930942 AA- AAT AAT AAT AAT AA- ATAT AAT AAT AGAA AAT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT
10930987 AAT
1 AAT
10930990 TAATTTGAAA
Statistics
Matches: 186, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
2 6 0.03
3 162 0.87
4 14 0.08
5 4 0.02
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10936060 original size:12 final size:12
Alignment explanation
Indices: 10936043--10936096 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
10936033 TTTAAAAACA
10936043 TAAAACAAATAT
1 TAAAACAAATAT
10936055 TAAAACAAATA-
1 TAAAACAAATAT
*
10936066 -AAAA-ATAATAC
1 TAAAACA-AATAT
* *
10936077 TAAAACAATTCT
1 TAAAACAAATAT
10936089 TAAAACAA
1 TAAAACAA
10936097 TACACAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
9 1 0.03
10 8 0.23
12 25 0.71
13 1 0.03
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAACAAATAT
Found at i:10936161 original size:15 final size:16
Alignment explanation
Indices: 10936131--10936163 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10936121 AAATGGTTAT
10936131 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
10936148 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
10936163 A
1 A
10936164 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:10937606 original size:22 final size:20
Alignment explanation
Indices: 10937558--10937598 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10937548 TCTTTTGTTT
* *
10937558 TTTTTTACATATTTTTCTTC
1 TTTTTTACATATATTTCTAC
*
10937578 TCTTTTACATATATTTCTAC
1 TTTTTTACATATATTTCTAC
10937598 T
1 T
10937599 AGTTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTACATATATTTCTAC
Found at i:10938439 original size:3 final size:3
Alignment explanation
Indices: 10938427--10938478 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
10938417 TTTAAAAAAA
* *
10938427 ATT ATT -TT ATT ATT ATT A-T ATT ATT ATT AAT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10938473 ATT ATT
1 ATT ATT
10938479 TTAACTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10938464 original size:12 final size:12
Alignment explanation
Indices: 10938434--10938500 Score: 66
Period size: 12 Copynumber: 5.4 Consensus size: 12
10938424 AAAATTATTT
10938434 TATTATTATT-A
1 TATTATTATTAA
10938445 TATTATTATTAA
1 TATTATTATTAA
* *
10938457 TATCATTATTAT
1 TATTATTATTAA
10938469 TATTATTATTTTAA
1 TATTATTA--TTAA
10938483 CTATT-TTATTTAA
1 -TATTATTA-TTAA
10938496 TATTA
1 TATTA
10938501 CTTCATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
11 10 0.21
12 22 0.47
13 5 0.11
14 6 0.13
15 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:10943323 original size:25 final size:25
Alignment explanation
Indices: 10943295--10943377 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
10943285 GTATGCTTAT
* *
10943295 ACGAGCTATGAATTGGTATGCTCTC
1 ACGAGCTATGAATCGGTAAGCTCTC
10943320 ACGAGCTATGAATCGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
*
10943345 ACGAGCTGA-GAATCAGTAAGCTCTC
1 ACGAGCT-ATGAATCGGTAAGCTCTC
*
10943370 ACAAGCTA
1 ACGAGCTA
10943378 CAAATCGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 2 0.04
25 47 0.92
26 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
ACGAGCTATGAATCGGTAAGCTCTC
Found at i:10950455 original size:20 final size:21
Alignment explanation
Indices: 10950410--10950455 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
10950400 CACTAGGAAC
10950410 TATGTGATCTGAGCCCATGAG
1 TATGTGATCTGAGCCCATGAG
* **
10950431 T-TGTGGTCTGAGTTCATGA-
1 TATGTGATCTGAGCCCATGAG
10950450 TATGTG
1 TATGTG
10950456 TGACACATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 19 0.90
21 1 0.05
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (21 bp):
TATGTGATCTGAGCCCATGAG
Found at i:10955704 original size:19 final size:19
Alignment explanation
Indices: 10955663--10955703 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10955653 TTAAATTTTC
10955663 TTTTAATCTAATATTTACA
1 TTTTAATCTAATATTTACA
10955682 TTTTAAT-T-ATATTATACA
1 TTTTAATCTAATATT-TACA
10955700 TTTT
1 TTTT
10955704 TTATCACCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 7 0.33
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATCTAATATTTACA
Found at i:10957090 original size:22 final size:22
Alignment explanation
Indices: 10957057--10957107 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
10957047 GCAAATTTTG
10957057 CTCAAA-TTCTAAGTAGAGGAA
1 CTCAAACTTCTAAGTAGAGGAA
10957078 CTCAAACTTCTAAGTAGAGGAA
1 CTCAAACTTCTAAGTAGAGGAA
10957100 CTCAAACT
1 CTCAAACT
10957108 AGTTGTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (22 bp):
CTCAAACTTCTAAGTAGAGGAA
Found at i:10962129 original size:26 final size:26
Alignment explanation
Indices: 10962100--10962206 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
10962090 TGGTATAAAT
10962100 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** * *
10962126 TGATAATGTATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10962152 TGATAAT-GGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10962177 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10962203 TGAT
1 TGAT
10962207 GGCCATTTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
25 20 0.29
26 49 0.71
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10963705 original size:26 final size:26
Alignment explanation
Indices: 10963667--10963716 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
10963657 CTATGTATAG
*
10963667 AAAATTACAGTTATACCCTTAGGTGC
1 AAAATTACAGTTATACCCCTAGGTGC
*
10963693 AAAATTACCGTTATACCCCTAGGT
1 AAAATTACAGTTATACCCCTAGGT
10963717 TTAATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (26 bp):
AAAATTACAGTTATACCCCTAGGTGC
Found at i:10963901 original size:32 final size:27
Alignment explanation
Indices: 10963838--10963902 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
10963828 AGGCCACAAT
10963838 TATCTGATCTGGTGGCTCTACCACATA
1 TATCTGATCTGGTGGCTCTACCACATA
* *
10963865 TATCTGTTCTGGTGGCTCTGCCACA-A
1 TATCTGATCTGGTGGCTCTACCACATA
10963891 TATCTGTATCTG
1 TATCTG-ATCTG
10963903 CTGACTTCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
TATCTGATCTGGTGGCTCTACCACATA
Found at i:10967702 original size:27 final size:27
Alignment explanation
Indices: 10967652--10967703 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10967642 ATAAAGTAGG
** * *
10967652 GGACAAAACTATAATTTTTTAAAAAAA
1 GGACAAAACTATAAAATATGAAAAAAA
10967679 GGACAAAACTATAAAATATGAAAAA
1 GGACAAAACTATAAAATATGAAAAA
10967704 TAGGGGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.23
Consensus pattern (27 bp):
GGACAAAACTATAAAATATGAAAAAAA
Found at i:10967719 original size:28 final size:28
Alignment explanation
Indices: 10967683--10967798 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 28
10967673 AAAAAAGGAC
*
10967683 AAAACTATAAAATATGAAAAATAGGGGT
1 AAAATTATAAAATATGAAAAATAGGGGT
* * *
10967711 AAAATTATAAAATCT-AAAAAGAATGGGT
1 AAAATTATAAAATATGAAAAA-TAGGGGT
* * *
10967739 AAAATTATAAAATTTGAAAAATAAGGGA
1 AAAATTATAAAATATGAAAAATAGGGGT
** *
10967767 AAAATTGCAATATATGAAAAATAGGGGAT
1 AAAATTATAAAATATGAAAAATAGGGG-T
10967796 AAA
1 AAA
10967799 TTTGTAATAT
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
27 5 0.07
28 58 0.82
29 8 0.11
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAATTATAAAATATGAAAAATAGGGGT
Found at i:10967799 original size:28 final size:29
Alignment explanation
Indices: 10967753--10967823 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
10967743 TTATAAAATT
10967753 TGAAAAATAAGGGAAAAA-TTGCAATATA
1 TGAAAAATAAGGGAAAAATTTGCAATATA
* * * *
10967781 TGAAAAATAGGGGATAAATTTGTAATATT
1 TGAAAAATAAGGGAAAAATTTGCAATATA
*
10967810 TAAAAAATAAGGGA
1 TGAAAAATAAGGGA
10967824 CACATAGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 16 0.44
29 20 0.56
ACGTcount: A:0.54, C:0.01, G:0.20, T:0.25
Consensus pattern (29 bp):
TGAAAAATAAGGGAAAAATTTGCAATATA
Found at i:10973238 original size:24 final size:26
Alignment explanation
Indices: 10973208--10973265 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
10973198 TGCTCTATTC
10973208 GGTTCTGTTCTG-TTTGATTTG-TTT
1 GGTTCTGTTCTGTTTTGATTTGCTTT
* *
10973232 GGTTCTGCTCTGTTTTGTTTTGCTTT
1 GGTTCTGTTCTGTTTTGATTTGCTTT
10973258 -GTTCTGTT
1 GGTTCTGTT
10973266 GTACTACCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.38
25 15 0.52
26 3 0.10
ACGTcount: A:0.02, C:0.12, G:0.24, T:0.62
Consensus pattern (26 bp):
GGTTCTGTTCTGTTTTGATTTGCTTT
Found at i:10980176 original size:40 final size:40
Alignment explanation
Indices: 10980131--10980297 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
10980121 CGGAATATAA
10980131 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
10980171 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
10980211 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10980251 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10980290 CCGGATAT
1 CCGGATAT
10980298 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10980281 original size:80 final size:79
Alignment explanation
Indices: 10980147--10980297 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
10980137 ATAATCACGT
*
10980147 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
10980212 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
10980227 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
10980290 CCGGATAT
64 CCGGATAT
10980298 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:10981600 original size:56 final size:55
Alignment explanation
Indices: 10981485--10981599 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
10981475 ATCCTCCCCC
*
10981485 TTTTCCCTTAGTAATTTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTCTT
1 TTTTTCCTTAGTAATTTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTCTT
*** * *
10981540 TTTTTCCTTAGTACA-TTCGGCCAAGCCTATG-GAGAAGGATGAACACATTTTTTTT
1 TTTTTCCTTAGTA-ATTTCGGCCAAGAAGATGAGA-AAGGATGAACAAATTTTTCTT
10981595 TTTTT
1 TTTTT
10981600 TTTTTTCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 2 0.04
55 49 0.94
56 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (55 bp):
TTTTTCCTTAGTAATTTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTCTT
Found at i:10988181 original size:40 final size:39
Alignment explanation
Indices: 10988136--10988301 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
10988126 CGGAATATAA
10988136 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
10988176 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
10988215 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
10988255 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
10988294 CCGGATAT
1 CCGGATAT
10988302 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:10988258 original size:79 final size:79
Alignment explanation
Indices: 10988152--10988301 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
10988142 ATAATCACGT
*
10988152 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
10988215 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
10988231 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
10988296 GGATAT
66 GGATAT
10988302 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:10989148 original size:17 final size:19
Alignment explanation
Indices: 10989125--10989170 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
10989115 AAGAAGCATG
10989125 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
10989143 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
10989161 AATCATGCTC
1 AATCATGCTC
10989171 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:10997727 original size:40 final size:39
Alignment explanation
Indices: 10997567--10997729 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
10997557 TGTGTATGAA
*
10997567 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
10997606 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
10997645 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
10997684 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
10997724 TGTGCG
1 TGTGCG
10997730 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:10997745 original size:40 final size:39
Alignment explanation
Indices: 10997567--10997760 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
10997557 TGTGTATGAA
* *
10997567 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
10997606 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
10997645 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
10997684 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
10997724 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
10997761 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11005533 original size:39 final size:39
Alignment explanation
Indices: 11005479--11005641 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
11005469 TGTGTATGAA
*
11005479 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
11005518 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11005557 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11005596 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
11005636 TGTGCG
1 TGTGCG
11005642 GTTACCATAA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11005667 original size:39 final size:39
Alignment explanation
Indices: 11005479--11005671 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
11005469 TGTGTATGAA
* *
11005479 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
11005518 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11005557 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11005596 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
** * *
11005636 TGTGCG-GTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
11005672 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 121 0.88
40 17 0.12
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11005692 original size:79 final size:78
Alignment explanation
Indices: 11005496--11005709 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
11005486 ATTGTGATAT
** * *
11005496 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
** *
11005561 CGAGCTATGATAT
66 CGAGCTACCATAA
** * * *
11005574 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATGGT
*
11005639 GCG-GTTACCATAA
65 GCGAGCTACCATAA
* ** *
11005652 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
11005710 TATGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 76 0.64
79 40 0.34
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
CGAGCTACCATAA
Found at i:11008368 original size:48 final size:45
Alignment explanation
Indices: 11008224--11008537 Score: 167
Period size: 49 Copynumber: 6.7 Consensus size: 45
11008214 ATGGATGTGT
* * * *
11008224 GCTAGTGTAAGACATGTCAGGGACAT-GTATCGGTCA-CATTATGAG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-G-CATCAATATGAA
* * * *
11008269 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC-GCATCAATATGA-A
*
11008317 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
* * * * * *
11008365 GCTAGTGTAAGACCTATCTGAGACATGGCATCGGCAT-GACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATCAATATGAA
* * * * *
11008409 G-TCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGAGGACA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCG-CATC-A-ATATGA-A
* * *
11008458 TCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
*
11008507 G-TCAGTGTAAGATC-TGTTTGGGACATGGCAT
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCAT
11008538 AGACTTAGAT
Statistics
Matches: 213, Mismatches: 36, Indels: 36
0.75 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 11 0.05
46 26 0.12
47 28 0.13
48 40 0.19
49 71 0.33
50 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGCATCAATATGAA
Found at i:11012043 original size:27 final size:27
Alignment explanation
Indices: 11012013--11012527 Score: 617
Period size: 27 Copynumber: 19.1 Consensus size: 27
11012003 ATACTCCCGG
*
11012013 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
11012040 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11012067 TTTATAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
11012093 GTTTACAGAATTACTGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
11012121 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
11012148 TTTGTAAAATTATCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11012175 TTTACAGAATTACCGTTTTACACTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11012201 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* * *
11012229 TTTATAAAATTACCATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
11012256 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11012283 TTTACAGAATTACCGTTTTACCCT-TA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
11012309 GTTTACAGAATTACTATTTTACCCTCAA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
11012337 TTTACAGAATTACCATTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11012363 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* *
11012391 TTTACAGAATTATCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
11012418 TTTGTAAAATTACCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
11012445 TTTACAGAATTACTGGTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* * *
11012471 GTTTACAAAATTATCGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
** *
11012499 TTTACAGAATTACAATTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
11012526 TT
1 TT
11012528 GTGAAATTAC
Statistics
Matches: 422, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 412 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCGA
Found at i:11012527 original size:108 final size:109
Alignment explanation
Indices: 11012013--11012523 Score: 685
Period size: 108 Copynumber: 4.7 Consensus size: 109
11012003 ATACTCCCGG
* *
11012013 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
11012078 ACCGTTTTACCC-TCAGTTTACAGAATTACTGTTTTACCCTTGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
** *
11012121 TTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
11012186 ACCGTTTTACAC-TCAGTTTACAGAATTACTGTTTTACCCTCGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * **
11012229 TTTATAAAATTACCATTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
* *
11012294 ACCGTTTTACCCTT-AGTTTACAGAATTACTATTTTACCCTCAA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * * *
11012337 TTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* * * * *
11012401 TATCGTTTTACCCTTGATTTGTA-A-AATTACCGTTTTACCCTTGA
65 TACCGTTTTACCCTTCAGTT-TACAGAATTACTGTTTTACCCTCGA
* * * * *
11012445 TTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTTGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
**
11012509 TACAATTTTACCCTT
65 TACCGTTTTACCCTT
11012524 GATTGTGAAA
Statistics
Matches: 364, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
107 1 0.00
108 356 0.98
109 5 0.01
110 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (109 bp):
TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
Found at i:11012562 original size:27 final size:27
Alignment explanation
Indices: 11012532--11012726 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
11012522 TTGATTGTGA
*
11012532 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11012559 AATTTCCGAAATA-CCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11012585 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11012612 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11012639 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11012666 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11012693 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
11012720 AATTACC
1 AATTACC
11012727 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.16
27 121 0.84
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:11012963 original size:27 final size:26
Alignment explanation
Indices: 11012925--11013007 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
11012915 CGGAGGAAGC
*
11012925 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
11012952 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
11012978 GTATTTGGTGACTCTACCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
11013005 GTT
1 GTT
11013008 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:11013340 original size:27 final size:27
Alignment explanation
Indices: 11013318--11013384 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
11013308 TAGGTGGGTT
*
11013318 TGCCACATTATCTGAT-TCTGGTGGCTC
1 TGCCACAATATCT-ATATCTGGTGGCTC
*
11013345 TGCCACAATATCTATATCTGGTGACTC
1 TGCCACAATATCTATATCTGGTGGCTC
* *
11013372 TGACACGATATCT
1 TGCCACAATATCT
11013385 GTTCTGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
TGCCACAATATCTATATCTGGTGGCTC
Found at i:11013517 original size:6 final size:6
Alignment explanation
Indices: 11013508--11013609 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
11013498 TTGCATTCAC
* * *
11013508 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
11013557 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
11013605 ATTCT
1 ATTCT
11013610 CATTTTGGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.08
6 66 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:11013630 original size:30 final size:30
Alignment explanation
Indices: 11013508--11013609 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
11013498 TTGCATTCAC
*
11013508 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
11013539 ATTTTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
11013569 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
11013599 ATTCTGATTCT
1 ATTCTGATTCT
11013610 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.66
31 21 0.32
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:11018952 original size:27 final size:26
Alignment explanation
Indices: 11018922--11019017 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 26
11018912 TGTAGCTAGT
11018922 ATTACTGAAATGCCTCTATAGGGTAGA
1 ATTACTGAAATGCC-CTATAGGGTAGA
*
11018949 ATTACTGAAATGCCCTATAGGATAGA
1 ATTACTGAAATGCCCTATAGGGTAGA
* * *
11018975 ATTACT-AAACTACCCCTGTAGGGTAAA
1 ATTACTGAAA-T-GCCCTATAGGGTAGA
* *
11019002 ATTATTGAAATACCCT
1 ATTACTGAAATGCCCT
11019018 TGGTTTACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.05
26 22 0.37
27 31 0.53
28 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (26 bp):
ATTACTGAAATGCCCTATAGGGTAGA
Found at i:11018974 original size:26 final size:27
Alignment explanation
Indices: 11018922--11018980 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
11018912 TGTAGCTAGT
*
11018922 ATTACTGAAATGCCTCTATAGGGTAGA
1 ATTACTGAAATGCCTCTATAGGATAGA
11018949 ATTACTGAAATGCC-CTATAGGATAGA
1 ATTACTGAAATGCCTCTATAGGATAGA
11018975 ATTACT
1 ATTACT
11018981 AAACTACCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (27 bp):
ATTACTGAAATGCCTCTATAGGATAGA
Found at i:11019029 original size:27 final size:26
Alignment explanation
Indices: 11019010--11019070 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
11019000 AAATTATTGA
11019010 AATACCCTTGGTTTACAAAATTACCG
1 AATACCCTTGGTTTACAAAATTACCG
* *
11019036 AATACCCTTGGTTTATAAAATTACCAA
1 AATACCCTTGGTTTACAAAATTACC-G
11019063 AATACCCT
1 AATACCCT
11019071 CAATTAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
AATACCCTTGGTTTACAAAATTACCG
Found at i:11019039 original size:26 final size:27
Alignment explanation
Indices: 11019009--11019343 Score: 160
Period size: 27 Copynumber: 12.4 Consensus size: 27
11018999 AAAATTATTG
11019009 AAATACCCTTGGTTTACAAAATTACC-
1 AAATACCCTTGGTTTACAAAATTACCA
* *
11019035 GAATACCCTTGGTTTATAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
***
11019062 AAATACCC-TCAATTAGCAAAATTACCA
1 AAATACCCTTGGTTTA-CAAAATTACCA
* **
11019089 AAATAACCC-TAGTTTGTAAAATTACCA
1 AAAT-ACCCTTGGTTTACAAAATTACCA
* * *** ** *
11019116 AAATACCCCTGATTTGTGAAATTGTCG
1 AAATACCCTTGGTTTACAAAATTACCA
* * * **
11019143 AGATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* ** * *
11019170 AAATACCCCTAATTGATAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* **
11019197 AAATACCCTTGATTTGGAAAATTA-CA
1 AAATACCCTTGGTTTACAAAATTACCA
* *
11019223 GAAATACCCCTGATTTACAAAATTA-CA
1 -AAATACCCTTGGTTTACAAAATTACCA
* * * *
11019250 AGTATATCCTTGACTTT-CAAAAATTACAA
1 A-AATACCCTTG-GTTTAC-AAAATTACCA
* * ***
11019279 AAATACCATTGGTTTGCAAAATTATTG
1 AAATACCCTTGGTTTACAAAATTACCA
* ** * *
11019306 AAATACTCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
*
11019333 AAACACCCTTG
1 AAATACCCTTG
11019344 TAGGGTGAAA
Statistics
Matches: 238, Mismatches: 61, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
26 35 0.15
27 176 0.74
28 25 0.11
29 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACCA
Found at i:11019230 original size:81 final size:81
Alignment explanation
Indices: 11019026--11019248 Score: 242
Period size: 81 Copynumber: 2.8 Consensus size: 81
11019016 CTTGGTTTAC
* * ** * *
11019026 AAAATTACC-GAATACCCTTGGTTTATAAAATTACCA-AAATACCCTCAATTAGCAAAATTACCA
1 AAAATTACCAAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCTCGATTTGCAAAATTACCA
*
11019089 AAATAACCCTAGTTTGT
65 AAATAACCCTAGATTGT
* * * *
11019106 AAAATTACCAAAATACCCCTGATTTGTG-AAATTGTC-GAGATACCCTCGATTTGTAAAATTACC
1 AAAATTACCAAAATACCCTTGATTTG-GAAAATT-ACAGAAATACCCTCGATTTGCAAAATTACC
*
11019169 AAAATACCCCTA-ATTGAT
64 AAAATAACCCTAGATTG-T
*
11019187 AAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCC-CTGATTTACAAAATTAC
1 AAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCCTC-GATTTGCAAAATTAC
11019249 AAGTATATCC
Statistics
Matches: 118, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
80 15 0.13
81 103 0.87
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCCTCGATTTGCAAAATTACCAA
AATAACCCTAGATTGT
Found at i:11019236 original size:27 final size:27
Alignment explanation
Indices: 11019026--11019248 Score: 197
Period size: 27 Copynumber: 8.3 Consensus size: 27
11019016 CTTGGTTTAC
* * * *
11019026 AAAATTACC-GAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11019052 AAAATTACCAAAATA-CCCTCAATTAGC
1 AAAATTACCAAAATACCCCT-GATTTGT
*
11019079 AAAATTACCAAAATAACCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
11019106 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** * *
11019133 GAAATTGTCGAGATA-CCCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
11019160 AAAATTACCAAAATACCCCT-AATTGAT
1 AAAATTACCAAAATACCCCTGATTTG-T
* *
11019187 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
**
11019214 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATACCCCTGATTTGT
11019241 AAAATTAC
1 AAAATTAC
11019249 AAGTATATCC
Statistics
Matches: 159, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 23 0.14
27 123 0.77
28 13 0.08
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:11019261 original size:54 final size:53
Alignment explanation
Indices: 11019009--11019285 Score: 220
Period size: 54 Copynumber: 5.1 Consensus size: 53
11018999 AAAATTATTG
* * * * * *
11019009 AAATACCCTTGGTTTACAAAATTAC-CGAATACCCTTGGTTTATAAAATTACCA
1 AAATACCCCTGATTTATAAAATTACAAG-ATACCCTTGATTTGTAAAATTACCA
* * * * *
11019062 AAATA-CCCTCAATTAGCAAAATTACCAAAATAACCCTAG-TTTGTAAAATTACCA
1 AAATACCCCTGATTTA-TAAAATTA-CAAGAT-ACCCTTGATTTGTAAAATTACCA
* * * * *
11019116 AAATACCCCTGATTTGTGAAATTGTCGAGATACCCTCGATTTGTAAAATTACCA
1 AAATACCCCTGATTTATAAAATT-ACAAGATACCCTTGATTTGTAAAATTACCA
* * * *
11019170 AAATACCCCTAATTGATAAAATTACCAAAATACCCTTGATTTGGAAAATTA-CA
1 AAATACCCCTGATTTATAAAATTA-CAAGATACCCTTGATTTGTAAAATTACCA
* * ** *
11019223 GAAATACCCCTGATTTACAAAATTACAAGTATATCCTTGACTTTCAAAAATTACAA
1 -AAATACCCCTGATTTATAAAATTACAAG-ATACCCTTGA-TTTGTAAAATTACCA
11019279 AAATACC
1 AAATACC
11019286 ATTGGTTTGC
Statistics
Matches: 178, Mismatches: 34, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
52 6 0.03
53 24 0.13
54 117 0.66
55 30 0.17
56 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (53 bp):
AAATACCCCTGATTTATAAAATTACAAGATACCCTTGATTTGTAAAATTACCA
Found at i:11019626 original size:41 final size:41
Alignment explanation
Indices: 11019581--11019703 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
11019571 GGAGGAAGAA
*
11019581 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
11019622 ATTGAGGATCGTATGGTTACTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
11019663 ATTAAGGATCACATGGTTGCTTGACGACCGTGAATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
11019704 GTGGCTTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:11019885 original size:22 final size:22
Alignment explanation
Indices: 11019850--11019908 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
11019840 TATTTTGATC
* *
11019850 ATGGCTTTGCGCCAACCTACA-T
1 ATGGCTGTGTGCCAACCTA-ATT
11019872 ATGGCTGTGTGCCAACCTAATT
1 ATGGCTGTGTGCCAACCTAATT
11019894 ATGGCTGTGTGCCAA
1 ATGGCTGTGTGCCAA
11019909 ACGTATTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (22 bp):
ATGGCTGTGTGCCAACCTAATT
Found at i:11020161 original size:22 final size:22
Alignment explanation
Indices: 11020119--11020161 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11020109 GATGTTTATG
* *
11020119 GCTATGTGCTGTCCTGCTTACA
1 GCTATGTGCTATCCTACTTACA
*
11020141 GCTATGTGCTATCCTATTTAC
1 GCTATGTGCTATCCTACTTAC
11020162 GGCCTTGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (22 bp):
GCTATGTGCTATCCTACTTACA
Found at i:11025979 original size:27 final size:27
Alignment explanation
Indices: 11025940--11026344 Score: 178
Period size: 27 Copynumber: 15.3 Consensus size: 27
11025930 TTAGTTTACC
** *
11025940 AAATTACTGAAGTACCCTCGACTTGTA
1 AAATTACCAAAGTACCCTCGATTTGTA
*
11025967 AAATTACCAAAGTACTCC-CGATTTATA
1 AAATTACCAAAGTAC-CCTCGATTTGTA
* *
11025994 AAATTACCCAAA-TATCCTTGATTTGTA
1 AAATTA-CCAAAGTACCCTCGATTTGTA
*
11026021 AAATTACCGAAA-TA----AGA----TA
1 AAATTACC-AAAGTACCCTCGATTTGTA
* *** * * **
11026040 GAATTACCATTTTACTCTCAATTTACA
1 AAATTACCAAAGTACCCTCGATTTGTA
**** **
11026067 AAATTACCTTTTTACCCTCGATTTACA
1 AAATTACCAAAGTACCCTCGATTTGTA
*** ***
11026094 AAATTACCATTTTACCCTCGATCAATA
1 AAATTACCAAAGTACCCTCGATTTGTA
* *
11026121 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAGTACCCTC-GATTTGTA
* *
11026148 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAGTACCCTCGA-TTTGTA
* * *
11026175 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAGTACCCTC-GATTTGTA
* * *
11026202 AAACTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAGTACCCTC-GATTTGTA
* *
11026229 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAGTACCCTC-GATTTGTA
* * **
11026256 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAGTACCCTCGATTTGTA
** *
11026283 AAATTATTGAAA-TACCCTCGACTTGTA
1 AAATTA-CCAAAGTACCCTCGATTTGTA
*
11026310 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAGTACCCTCGATTTGTA
*
11026337 GAATTACC
1 AAATTACC
11026345 GTTTTACCCT
Statistics
Matches: 306, Mismatches: 51, Indels: 42
0.77 0.13 0.11
Matches are distributed among these distances:
18 1 0.00
19 11 0.04
23 3 0.01
26 8 0.03
27 272 0.89
28 11 0.04
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAGTACCCTCGATTTGTA
Found at i:11026151 original size:54 final size:54
Alignment explanation
Indices: 11026119--11026344 Score: 251
Period size: 54 Copynumber: 4.2 Consensus size: 54
11026109 CCTCGATCAA
*
11026119 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-TAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGA-TTTG
* *
11026173 TAAAATTATCAAAATACCCCTGGTTTGTAAAACTACCAAAATACCC-CTGATTTG
1 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTC-GATTTG
* * * * **
11026227 TGAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTG
1 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGATTTG
*** ** * *
11026281 TAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTCGATTTG
*
11026335 TAGAATTACC
1 TAAAATTACC
11026345 GTTTTACCCT
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.03
54 137 0.96
55 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGATTTG
Found at i:11026164 original size:81 final size:81
Alignment explanation
Indices: 11026079--11026383 Score: 249
Period size: 81 Copynumber: 3.8 Consensus size: 81
11026069 ATTACCTTTT
* *** * *
11026079 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATCAATAAAATTACCAAAATACCCCTGGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATCTATAAAATTACCAAAATACCCCTGATT
11026144 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * * * * * *
11026160 TACCCT-TAGTTTGTAAAATTATCAAAATACCC-CTGGTTTGTAAAACTACCAAAATACCCCTGA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCTC-GATCTATAAAATTACCAAAATACCCCTGA
*
11026223 TTTGTGAAATTACCAAAA
64 TTTGTAAAATTACCAAAA
* * * * * ***
11026241 TACCC-CTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTCGATCTATAAAATTACCAAAATACCCCT-GA
* *
11026304 CTTGTAAAATTACCAAAG
64 TTTGTAAAATTACCAAAA
* **** * * **
11026322 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGAAATACCCCTG
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATCTATAAAATTACCAAAATACCCCTG
11026384 TAGGGTAGAA
Statistics
Matches: 175, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
80 6 0.03
81 162 0.93
82 7 0.04
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTCGATCTATAAAATTACCAAAATACCCCTGATT
TGTAAAATTACCAAAA
Found at i:11026379 original size:27 final size:27
Alignment explanation
Indices: 11026256--11026380 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
11026246 CTGATTTGTG
* * *
11026256 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* *
11026283 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* *
11026310 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGACTTATA
* * *** * *
11026337 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTATA
11026364 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
11026381 CTGTAGGGTA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTATA
Found at i:11026402 original size:27 final size:27
Alignment explanation
Indices: 11026365--11026532 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
11026355 CGATTTACAA
*
11026365 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11026392 AAATACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11026419 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11026446 AATTATCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
11026473 AATTACTGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11026500 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
11026526 AATTACC
1 AATTACC
11026533 ATTTTACCCC
Statistics
Matches: 122, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 15 0.12
27 107 0.88
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:11027212 original size:27 final size:27
Alignment explanation
Indices: 11027182--11027280 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
11027172 ATTCTGTTAA
* *
11027182 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
11027209 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
11027236 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
11027263 GTGACTCTGTCACAATAT
1 GTGGCTATGCCACAATAT
11027281 ATGATAACTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 49 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:11027458 original size:6 final size:6
Alignment explanation
Indices: 11027420--11027540 Score: 70
Period size: 6 Copynumber: 19.3 Consensus size: 6
11027410 TTGCATTCAC
* * *
11027420 ATTCTG ATTTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
11027470 -TTACCTG ATCCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG A-TTCTG
11027521 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
11027541 AATGTTTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
5 7 0.08
6 58 0.66
7 19 0.22
8 4 0.05
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:11027466 original size:31 final size:31
Alignment explanation
Indices: 11027420--11027532 Score: 145
Period size: 31 Copynumber: 3.6 Consensus size: 31
11027410 TTGCATTCAC
11027420 ATTCTGATTTTTGATTCTATTACCTGATACTG
1 ATTCTGA-TTTTGATTCTATTACCTGATACTG
* *
11027452 ATTCTGATTTTGATTCTGTTACCTGATCCTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
* * *
11027483 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
* *
11027514 ATTTTTGATTCTGATTCTA
1 A-TTCTGATTTTGATTCTA
11027533 GTTCTGATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 52 0.71
32 21 0.29
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:11029602 original size:40 final size:40
Alignment explanation
Indices: 11029536--11029702 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
11029526 AAATTGAATG
* * *
11029536 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
11029575 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
11029615 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
11029655 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
11029695 ATATCCGG
1 ATATCCGG
11029703 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:11036555 original size:40 final size:40
Alignment explanation
Indices: 11036489--11036653 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
11036479 AAATTGAATG
* * *
11036489 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
11036528 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
11036568 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* ** *
11036608 CTATCCGGGCTAAGACCCGAAGGC-ATT-TGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
11036646 ATATCCGG
1 ATATCCGG
11036654 TTATATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
38 15 0.14
39 16 0.15
40 74 0.70
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:11039205 original size:24 final size:23
Alignment explanation
Indices: 11039124--11039233 Score: 89
Period size: 23 Copynumber: 4.7 Consensus size: 23
11039114 AAGATCTATC
11039124 AGCTCATTA-GAGCTG-AACAGTA
1 AGCTC-TTACGAGCTGAAACAGTA
* * *
11039146 AGCTCTTATGAGCTGAAACGGTC
1 AGCTCTTACGAGCTGAAACAGTA
** *
11039169 AGCTCCAATGAGCTGAAAACAGTA
1 AGCTCTTACGAGCTG-AAACAGTA
11039193 AGCTCTTACGAGCTGATATATCAGTA
1 AGCTCTTACGAGCTGA-A-A-CAGTA
* *
11039219 AGCTCATACAAGCTG
1 AGCTCTTACGAGCTG
11039234 TGGTGAGTCT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.04
22 11 0.15
23 19 0.27
24 19 0.27
25 1 0.01
26 18 0.25
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (23 bp):
AGCTCTTACGAGCTGAAACAGTA
Found at i:11039299 original size:32 final size:32
Alignment explanation
Indices: 11039257--11039322 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
11039247 ACAAATGCAA
* *
11039257 GTGCTCGACCAAAAAGGTAATCCCAGTAACAT
1 GTGCTCGACCAAAAAGGCAACCCCAGTAACAT
*
11039289 GTGCTTGACCAAAAAGGCAACCCCAGTAACAT
1 GTGCTCGACCAAAAAGGCAACCCCAGTAACAT
11039321 GT
1 GT
11039323 CACTTGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (32 bp):
GTGCTCGACCAAAAAGGCAACCCCAGTAACAT
Found at i:11041614 original size:42 final size:42
Alignment explanation
Indices: 11041567--11041677 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
11041557 TGAAAAATCG
*
11041567 TAAGGGTTAAACGGAAGCTCATATGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATATGAGCTGAACGGAAACCCA
* * * * *
11041609 TAAGGGTTAAACTAAAGTTCAAAAGAGCTGAACTGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATATGAGCTGAACGGAAACCCA
* * * *
11041651 GAATGGTTAAATTGAAACTCATATGAG
1 TAAGGGTTAAACTGAAGCTCATATGAG
11041678 TTAACTGAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCATATGAGCTGAACGGAAACCCA
Found at i:11042298 original size:18 final size:18
Alignment explanation
Indices: 11042275--11042311 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11042265 CACGATTTGG
11042275 TCCTAAAATCAAATTCTA
1 TCCTAAAATCAAATTCTA
11042293 TCCTAAAATCAAATTCTA
1 TCCTAAAATCAAATTCTA
11042311 T
1 T
11042312 TGAAACTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (18 bp):
TCCTAAAATCAAATTCTA
Found at i:11047564 original size:16 final size:16
Alignment explanation
Indices: 11047543--11047575 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11047533 TCTTGCATAA
11047543 ATTCATTAAA-CCATTG
1 ATTCA-TAAACCCATTG
11047559 ATTCATAAACCCATTG
1 ATTCATAAACCCATTG
11047575 A
1 A
11047576 ACATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTCATAAACCCATTG
Found at i:11048854 original size:21 final size:21
Alignment explanation
Indices: 11048824--11048899 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
11048814 ACTGAAGCAC
*
11048824 ATAAGTGTTAAACAGAAACCT
1 ATAAGAGTTAAACAGAAACCT
* * *
11048845 GTAAGAGTTAAAC-GGAAGCT
1 ATAAGAGTTAAACAGAAACCT
* *
11048865 CATAGGAGTTGAACAGAAACCT
1 -ATAAGAGTTAAACAGAAACCT
*
11048887 ATAAGGGTTAAAC
1 ATAAGAGTTAAAC
11048900 TGAAGTCAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 5 0.12
21 31 0.76
22 5 0.12
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (21 bp):
ATAAGAGTTAAACAGAAACCT
Found at i:11048881 original size:42 final size:42
Alignment explanation
Indices: 11048814--11048957 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
11048804 CGAAGGCTAC
* * * * * *
11048814 ACTGAAGCACATAAGTGTTAAACAGAAACCTGTAAGAGTTAA
1 ACTGAAGCTCATAGGAGTTGAACAGAAACCTATAAGGGTTAA
*
11048856 ACGGAAGCTCATAGGAGTTGAACAGAAACCTATAAGGGTTAA
1 ACTGAAGCTCATAGGAGTTGAACAGAAACCTATAAGGGTTAA
* * * *
11048898 ACTGAAG-TCAAAAGG-GCTGAACTGAAACCTAAAAGGGTTAA
1 ACTGAAGCTC-ATAGGAGTTGAACAGAAACCTATAAGGGTTAA
* *
11048939 ACTGAAACTCATATGAGTT
1 ACTGAAGCTCATAGGAGTT
11048958 AATTGAAGCT
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 34 0.41
42 49 0.59
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (42 bp):
ACTGAAGCTCATAGGAGTTGAACAGAAACCTATAAGGGTTAA
Found at i:11048928 original size:41 final size:42
Alignment explanation
Indices: 11048834--11048949 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 42
11048824 ATAAGTGTTA
* * * * *
11048834 AACAGAAACCTGTAAGAGTTAAACGGAAGCTCATAGGAGTTG
1 AACAGAAACCTATAAGGGTTAAACTGAAGCTCAAAGGAGCTG
11048876 AACAGAAACCTATAAGGGTTAAACTGAAG-TCAAAAGG-GCTG
1 AACAGAAACCTATAAGGGTTAAACTGAAGCTC-AAAGGAGCTG
* * *
11048917 AACTGAAACCTAAAAGGGTTAAACTGAAACTCA
1 AACAGAAACCTATAAGGGTTAAACTGAAGCTCA
11048950 TATGAGTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 32 0.50
42 32 0.50
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (42 bp):
AACAGAAACCTATAAGGGTTAAACTGAAGCTCAAAGGAGCTG
Found at i:11048933 original size:21 final size:21
Alignment explanation
Indices: 11048880--11048946 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
11048870 GAGTTGAACA
*
11048880 GAAACCTATAAGGGTTAAACT
1 GAAACCTAAAAGGGTTAAACT
** * *
11048901 GAAGTC-AAAAGGGCTGAACT
1 GAAACCTAAAAGGGTTAAACT
11048921 GAAACCTAAAAGGGTTAAACT
1 GAAACCTAAAAGGGTTAAACT
11048942 GAAAC
1 GAAAC
11048947 TCATATGAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (21 bp):
GAAACCTAAAAGGGTTAAACT
Found at i:11054510 original size:2 final size:2
Alignment explanation
Indices: 11054503--11054537 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11054493 GTTGTAAGCT
11054503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11054538 GCATGCATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11056620 original size:14 final size:13
Alignment explanation
Indices: 11056603--11056637 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
11056593 GTTTTCCCCT
11056603 TTTCTTTTTCTTTC
1 TTTCTTTTTC-TTC
11056617 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
11056630 TTTCTTTT
1 TTTCTTTT
11056638 CCCTATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:11064910 original size:11 final size:10
Alignment explanation
Indices: 11064863--11064915 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 10
11064853 ATTTTAGTAA
*
11064863 AATTTTAATT
1 AATTTAAATT
11064873 AA-TT-AATT
1 AATTTAAATT
11064881 AA-TT-AATT
1 AATTTAAATT
*
11064889 AATATAAATT
1 AATTTAAATT
11064899 AATTTCAAATT
1 AATTT-AAATT
11064910 AATTTA
1 AATTTA
11064916 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 14 0.37
9 3 0.08
10 11 0.29
11 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
AATTTAAATT
Found at i:11064913 original size:4 final size:4
Alignment explanation
Indices: 11064867--11064902 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
11064857 TAGTAAAATT
11064867 TTAA TTAA TTAA TTAA TTAA TTAA TATAAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA T-T-AA TTAA TT
11064903 TCAAATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 25 0.83
5 2 0.07
6 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:11067516 original size:9 final size:9
Alignment explanation
Indices: 11067502--11067526 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11067492 AATAAACTAT
11067502 TAAAAATTA
1 TAAAAATTA
11067511 TAAAAATTA
1 TAAAAATTA
11067520 TAAAAAT
1 TAAAAAT
11067527 AGGTTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11067675 original size:17 final size:17
Alignment explanation
Indices: 11067655--11067700 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
11067645 TATTTTAAAC
11067655 AAAAATATAAAATTTGA
1 AAAAATATAAAATTTGA
* ** *
11067672 AAAACTATAATTTTTTA
1 AAAAATATAAAATTTGA
11067689 AAAAATATAAAA
1 AAAAATATAAAA
11067701 AAATCTCTTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAATTTGA
Found at i:11067731 original size:29 final size:29
Alignment explanation
Indices: 11067685--11067759 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
11067675 ACTATAATTT
** *
11067685 TTTAAAAAATATAAAAAAATCTCTTTA-AAA
1 TTTAAAAAAT-TTTAAAAATAT-TTTAGAAA
*
11067715 TTTAAAAAATTTTAAAACTATTTTAGAAA
1 TTTAAAAAATTTTAAAAATATTTTAGAAA
*
11067744 TATAAAAAA-TTTAAAA
1 TTTAAAAAATTTTAAAA
11067760 TTCAATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 11 0.28
29 18 0.46
30 10 0.26
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (29 bp):
TTTAAAAAATTTTAAAAATATTTTAGAAA
Found at i:11069048 original size:3 final size:3
Alignment explanation
Indices: 11069040--11069393 Score: 272
Period size: 3 Copynumber: 116.7 Consensus size: 3
11069030 AGATGAAAAT
* * * * *
11069040 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA ATA ACA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
11069087 GTA ATA ATA GT- ATG TTA A-A CGATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
* *
11069132 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ACA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * * * * *
11069178 GTA ATA CACAA ATG ATA ATA GTA ATA A-A ATA A-G ATG GTA ATA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11069223 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
11069271 ATA ATA ATA ATA ATA GAAA ATA ATA AAA ATA A-A TATA CTA TGTCA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA -AT-A ATA
** * * * * * *
11069319 AGG ATA ATA GTA GTA ATA GTA ATA AAA ACA ATA ATA ACA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
11069367 ATA ATA GAAA ATA ATA ATA AAA ATA AT
1 ATA ATA -ATA ATA ATA ATA ATA ATA AT
11069394 TAATTTGAAA
Statistics
Matches: 277, Mismatches: 56, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
2 8 0.03
3 253 0.91
4 13 0.05
5 3 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:11070456 original size:33 final size:32
Alignment explanation
Indices: 11070385--11070446 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11070375 TGTTGTTGGC
*
11070385 TGTTGGGTTTAGGTTTAGGTTTGGGTTTTAAT
1 TGTTGGGTTTAGGTTTAGGATTGGGTTTTAAT
* *
11070417 TTTTGGGCTTTAGGTTTA-GATTGGTTTTTA
1 TGTTGGG-TTTAGGTTTAGGATTGGGTTTTA
11070447 TTGGGTTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.13, C:0.02, G:0.31, T:0.55
Consensus pattern (32 bp):
TGTTGGGTTTAGGTTTAGGATTGGGTTTTAAT
Found at i:11070904 original size:45 final size:45
Alignment explanation
Indices: 11070834--11071137 Score: 251
Period size: 45 Copynumber: 6.8 Consensus size: 45
11070824 TTATTTATAG
* * * *
11070834 CTTCAATCTGTTCCA-TGCAATTTCAGGGAAATAAGATTCGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * * *
11070878 CTTCAGTCTGATCCACTGCAACTTCAGAGAGATAAGGTTTGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * * ** *
11070923 CTT-TGATCTACTCCGCTATAACTTCAGGGAGATAAGA-TCTACTAT
1 CTTCAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCTAT
* * *
11070968 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTT-G-TAA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTAT
** * * * * * * **
11071012 CTTCAACCTGCTCTACTGTAACTTTAGAGAGATAAGGTTTGC-GG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* * * *
11071056 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
*
11071101 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
11071138 CTTGTGAATT
Statistics
Matches: 208, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
43 2 0.01
44 83 0.40
45 121 0.58
46 1 0.00
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
Found at i:11071109 original size:133 final size:134
Alignment explanation
Indices: 11070834--11071142 Score: 365
Period size: 133 Copynumber: 2.3 Consensus size: 134
11070824 TTATTTATAG
* * * * * ** * *
11070834 CTTCAATCTGTTCCA-TGCAATTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGATCCACTGC
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGCTCTACTGC
* * * *
11070897 AACTTCAGAGAGATAAGGTTTGCTATCTTTGATCTACTCCGCTATAACTTCAGGGAGATAAGATC
64 AACTTCAGAGAGATAAGGTTTGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATC
*
11070962 TACTAT
129 TACCAT
* * *
11070968 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGTAA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAA
* * * *
11071033 CTTTAGAGAGATAAGGTTTGC-GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TC
66 CTTCAGAGAGATAAGGTTTGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATCT-
11071096 ACCAT
130 ACCAT
*
11071101 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
11071143 GAATTTACCG
Statistics
Matches: 148, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
132 1 0.01
133 76 0.51
134 51 0.34
135 18 0.12
136 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (134 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAA
CTTCAGAGAGATAAGGTTTGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATCTA
CCAT
Found at i:11076427 original size:15 final size:15
Alignment explanation
Indices: 11076407--11076436 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11076397 ACTGATTAAA
11076407 AGGGGTATTTCAATT
1 AGGGGTATTTCAATT
11076422 AGGGGTATTTCAATT
1 AGGGGTATTTCAATT
11076437 CTTCCCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (15 bp):
AGGGGTATTTCAATT
Found at i:11078225 original size:16 final size:16
Alignment explanation
Indices: 11078206--11078236 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11078196 CTTCTTCACT
11078206 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
11078222 TACTTACTTACTTAA
1 TACTCACTTACTTAA
11078237 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:11078242 original size:20 final size:20
Alignment explanation
Indices: 11078203--11078242 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11078193 AAACTTCTTC
* *
11078203 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
11078223 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
11078243 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:11078595 original size:53 final size:53
Alignment explanation
Indices: 11078474--11078678 Score: 213
Period size: 53 Copynumber: 3.8 Consensus size: 53
11078464 TACCTTTTGA
* *
11078474 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
11078527 AACTCACCAATGCCATGCCTTG-CATGGTC-TACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
11078579 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
11078632 AAACCTTACCAATTTCCATGCCTTGGCATGG-CTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
11078679 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.02
51 17 0.13
52 8 0.06
53 41 0.32
54 28 0.22
55 29 0.23
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:11083249 original size:40 final size:40
Alignment explanation
Indices: 11083141--11083349 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
11083131 CGGGATTTAA
* * * * *
11083141 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
11083181 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
11083221 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
11083261 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
11083301 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
11083340 CCGGATATAT
1 CCGGATATAT
11083350 TCCAAATTTC
Statistics
Matches: 152, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 20 0.13
40 132 0.87
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:11092837 original size:28 final size:29
Alignment explanation
Indices: 11092767--11092841 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
11092757 CTGGAAATAT
* *
11092767 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * *
11092796 ATGGCACTGTGTGTGCGGGCT-AAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
11092824 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
11092842 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:11103654 original size:29 final size:29
Alignment explanation
Indices: 11103620--11103695 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
11103610 TACTCGATTT
* *
11103620 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTTAAGCC
* * * *
11103649 CGCACACATAGTGCCATACCCTTTGAGCT
1 CGCACACTTAGTGCCATACCATTTAAGCC
11103678 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
11103696 TATTTCCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTTAAGCC
Found at i:11111101 original size:28 final size:29
Alignment explanation
Indices: 11111063--11111132 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
11111053 ATTTAAGCCC
* * *
11111063 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATACACTTCCAGCAT
* *
11111091 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT
11111120 GCACACTTAGTGC
1 GCACACTTAGTGC
11111133 TAATCTCGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATACACTTCCAGCAT
Found at i:11136826 original size:27 final size:26
Alignment explanation
Indices: 11136795--11136867 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
11136785 AAGAATAGTG
*
11136795 AAATTACTTGA-ATACCCCTATGTATGA
1 AAATTAC-TGATATACCCCTAAGTAT-A
*
11136822 AAATTACTGATATACCCCTAAGTGTA
1 AAATTACTGATATACCCCTAAGTATA
*
11136848 AAATTAC-CATTATACCCCTA
1 AAATTACTGA-TATACCCCTA
11136868 GGGTTACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 21 0.51
27 19 0.46
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACTGATATACCCCTAAGTATA
Found at i:11137014 original size:27 final size:26
Alignment explanation
Indices: 11136973--11137078 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 26
11136963 AGGAAGCATC
11136973 CTGGTGGCTAC-GCCACAATCATCTGAT
1 CTGGTGGCT-CTGCCACAAT-ATCTGAT
*
11137000 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
11137027 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-AATATCTG-AT
* * *
11137055 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACAATATCTG
11137079 TTTTGGTAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.73
28 18 0.26
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:11137077 original size:54 final size:54
Alignment explanation
Indices: 11136973--11137085 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
11136963 AGGAAGCATC
*
11136973 CTGGTGGCTACGCCACAATCATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
11137027 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATCATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
*
11137081 TTGGT
1 CTGGT
11137086 AGTCATGCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.63
55 18 0.35
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:11142515 original size:48 final size:47
Alignment explanation
Indices: 11142448--11142567 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 47
11142438 AAGCTGACGC
* *
11142448 CATGTCCCAGACAGGTCTTACACTAGCTTGTA-TAGCGCGAGGCTGATG
1 CATGTCCCAG-CATGTCTTACACTAGCTT-AACTAGCGCGAGGCTGATG
* *
11142496 CATGTCCCGAGCATGTCTTACACTAGCTTAACTATCTCGAGGCTGATG
1 CATGTCCC-AGCATGTCTTACACTAGCTTAACTAGCGCGAGGCTGATG
* **
11142544 CACGTCCCAAAAATGTCTTACACT
1 CATGTCCC-AGCATGTCTTACACT
11142568 GGCTCTCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.02
48 59 0.95
49 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGCATGTCTTACACTAGCTTAACTAGCGCGAGGCTGATG
Found at i:11147846 original size:13 final size:13
Alignment explanation
Indices: 11147828--11147854 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11147818 TTAATTTATA
11147828 TGTGTGAAAATTT
1 TGTGTGAAAATTT
11147841 TGTGTGAAAATTT
1 TGTGTGAAAATTT
11147854 T
1 T
11147855 ATCGTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:11149041 original size:42 final size:43
Alignment explanation
Indices: 11148993--11149105 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 43
11148983 GTGATTTATG
11148993 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAG-TT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATTACA
* * * *
11149035 TGTAAGACCCTGTATGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
** *
11149078 TGTAAGACCACATCTGGGACATTCGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
11149106 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 6 0.10
42 29 0.49
43 24 0.41
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
Found at i:11149096 original size:43 final size:42
Alignment explanation
Indices: 11148938--11149099 Score: 124
Period size: 42 Copynumber: 3.9 Consensus size: 42
11148928 CATAGGATTC
* *
11148938 CGATATGTGA-TTCGTGTAA-AGCCACATCTGAGAC--GGCAT
1 CGATATGTGAGTTCATGTAAGA-CCACATCTGGGACATGGCAT
* * **
11148977 CGATTTGTGA-TTTATGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTGAGTTCA--TGTAAGACCACATCTGGGACA-TGGCAT
* * *
11149021 CG-TATATGAGTTCATGTAAGACC-CTGTATGGGACAGTGGCAT
1 CGATATGTGAGTTCATGTAAGACCAC-ATCTGGGACA-TGGCAT
11149063 CGATATGTGA-TTACATGTAAGACCACATCTGGGACAT
1 CGATATGTGAGTT-CATGTAAGACCACATCTGGGACAT
11149100 TCGCATTGTA
Statistics
Matches: 97, Mismatches: 15, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
39 11 0.11
41 15 0.15
42 30 0.31
43 30 0.31
44 11 0.11
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
CGATATGTGAGTTCATGTAAGACCACATCTGGGACATGGCAT
Found at i:11149810 original size:13 final size:13
Alignment explanation
Indices: 11149794--11149822 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11149784 TTTAATAAGC
11149794 TTGGTATATGGAT
1 TTGGTATATGGAT
11149807 TTGGTATATGGAT
1 TTGGTATATGGAT
11149820 TTG
1 TTG
11149823 ATTAGCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (13 bp):
TTGGTATATGGAT
Found at i:11153993 original size:40 final size:40
Alignment explanation
Indices: 11153881--11154033 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
11153871 GGATATAGCG
* * * * ***
11153881 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
11153921 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
11153961 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
11154001 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
11154034 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:11162012 original size:40 final size:40
Alignment explanation
Indices: 11161900--11162052 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
11161890 GGATATAGCG
* * * * ***
11161900 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
11161940 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
11161980 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
11162020 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
11162053 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:11179943 original size:18 final size:18
Alignment explanation
Indices: 11179922--11179958 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11179912 TTTACAAGGC
* *
11179922 AATATACATAGCAAACTA
1 AATATACACACCAAACTA
11179940 AATATACACACCAAACTA
1 AATATACACACCAAACTA
11179958 A
1 A
11179959 CATCATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AATATACACACCAAACTA
Found at i:11184852 original size:49 final size:49
Alignment explanation
Indices: 11184776--11184946 Score: 165
Period size: 50 Copynumber: 3.6 Consensus size: 49
11184766 AGATGCAGAC
*
11184776 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTTGAT
1 GCCATGTACCAGACATGGTCTTACACTGG-TCTCATCTATCGGTGTTGAT
* * * * * ** *
11184826 GCCATGTACCAGATA-GGTCTTACACT-GAC-AAAC-AAC-AAGTTGAC
1 GCCATGTACCAGACATGGTCTTACACTGGTCTCATCTATCGGTGTTGAT
* *
11184870 GCCATGTCCCAGACATGGTCTTACACTGGTTCTCATCTATCGGTGTCGAT
1 GCCATGTACCAGACATGGTCTTACACTGG-TCTCATCTATCGGTGTTGAT
* *
11184920 GTCATGTACCAGATA-GGTCTTACACTG
1 GCCATGTACCAGACATGGTCTTACACTG
11184947 ACAAACAACA
Statistics
Matches: 93, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
44 18 0.19
45 13 0.14
46 3 0.03
47 2 0.02
48 3 0.03
49 25 0.27
50 29 0.31
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
GCCATGTACCAGACATGGTCTTACACTGGTCTCATCTATCGGTGTTGAT
Found at i:11184934 original size:94 final size:94
Alignment explanation
Indices: 11184773--11184989 Score: 366
Period size: 94 Copynumber: 2.3 Consensus size: 94
11184763 TAAAGATGCA
*
11184773 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTTGATGCCATGTACCAG
1 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTACCAG
11184838 ATAGGTCTTACACTGACAAACAACAAGTT
66 ATAGGTCTTACACTGACAAACAACAAGTT
* *
11184867 GACGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATCTATCGGTGTCGATGTCATGTACCAG
1 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTACCAG
11184932 ATAGGTCTTACACTGACAAACAACAAGTT
66 ATAGGTCTTACACTGACAAACAACAAGTT
* *
11184961 GACACCATG-CCCTAGATA-GGTCTTACACT
1 GACGCCATGTCCC-AGACATGGTCTTACACT
11184990 ATCTTGTATC
Statistics
Matches: 117, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
93 14 0.12
94 103 0.88
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (94 bp):
GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTACCAG
ATAGGTCTTACACTGACAAACAACAAGTT
Found at i:11189539 original size:20 final size:20
Alignment explanation
Indices: 11189514--11189572 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
11189504 TAAATATGGT
11189514 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
11189534 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
11189554 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
11189573 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:11189679 original size:24 final size:24
Alignment explanation
Indices: 11189623--11189717 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
11189613 GAGGAAGTGC
11189623 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
11189646 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
11189670 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
11189694 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
11189718 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:11189960 original size:38 final size:38
Alignment explanation
Indices: 11189909--11190058 Score: 224
Period size: 38 Copynumber: 4.1 Consensus size: 38
11189899 CGTTTACAGT
11189909 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
11189947 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
11189978 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
11190016 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
11190054 AAAGG
1 AAAGG
11190059 GCCACGGCCC
Statistics
Matches: 101, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
31 29 0.29
33 1 0.01
36 1 0.01
38 70 0.69
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:11189971 original size:31 final size:31
Alignment explanation
Indices: 11189933--11190048 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
11189923 AGTATTATGA
11189933 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
11189964 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
11190000 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
11190033 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
11190049 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:11189985 original size:69 final size:69
Alignment explanation
Indices: 11189909--11190048 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
11189899 CGTTTACAGT
11189909 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
11189974 ATGA
66 ATGA
*
11189978 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
11190043 ATGA
66 ATGA
11190047 AA
1 AA
11190049 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:11191593 original size:2 final size:2
Alignment explanation
Indices: 11191586--11191616 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11191576 GAGACTAGTC
11191586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11191617 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11199609 original size:28 final size:29
Alignment explanation
Indices: 11199557--11199611 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
11199547 ACAGGGGTTT
11199557 TCACACAGCCTGACACATACCCGTGTCCC
1 TCACACAGCCTGACACATACCCGTGTCCC
*
11199586 TCACACGGCCATGACAC-T-CCCGTGTC
1 TCACACAGCC-TGACACATACCCGTGTC
11199612 TAAAAAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 10 0.42
30 6 0.25
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.18
Consensus pattern (29 bp):
TCACACAGCCTGACACATACCCGTGTCCC
Found at i:11200649 original size:94 final size:93
Alignment explanation
Indices: 11200529--11200747 Score: 215
Period size: 94 Copynumber: 2.3 Consensus size: 93
11200519 CTATCAGTGT
* * * * * * *
11200529 CGATGCCATGTCTCAAACAGGTCTTACACTGATACACACAACAA-GCTGACTCCATGTCCCAGAT
1 CGATG-CATGTCCCAGACATGTCTTACACTGAT-CACACAACAATGCCGA-TCCATATCCCAAAC
* ** * *
11200593 AGGTGTTACACTAGCTTGTATCTCGCGAGGC
63 AGGTCTTACACTAGCTTAAATATCGCAAGGC
* * * ** * *
11200624 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCCTCAATGCCGATGCATATCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACT-GATCACACAACAATGCCGATCCATATCCCAAACAG
*
11200689 GTCTTACACTAGCTTAAATATCTCAAGGC
65 GTCTTACACTAGCTTAAATATCGCAAGGC
11200718 CGATGCATGTCCCAGACATGTCTTACACTG
1 CGATGCATGTCCCAGACATGTCTTACACTG
11200748 GCTCTCATAC
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
93 1 0.01
94 90 0.88
95 11 0.11
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTGATCACACAACAATGCCGATCCATATCCCAAACAGG
TCTTACACTAGCTTAAATATCGCAAGGC
Found at i:11200731 original size:48 final size:46
Alignment explanation
Indices: 11200620--11200795 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
11200610 GTATCTCGCG
*
11200620 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACCTCA
* * * * *
11200666 ATGCCGATGCATATCCCAAACATGTCTTACACTAGCT-TAAATATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CACCTCA
* * *
11200714 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-G
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CCTCA
* * * *
11200760 TGGCTGATGGATGTCCTAGACATGTCTTACACTAGC
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
11200796 ACACAAATAA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.62
47 2 0.02
48 37 0.35
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACCTCA
Found at i:11202608 original size:28 final size:27
Alignment explanation
Indices: 11202540--11202631 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 27
11202530 GATACGACAT
*
11202540 TGTGCTAAGTGAAATAAGACCATGG--
1 TGTGCTAAGTGAAATAAGTCCATGGCA
* *
11202565 TAT-CTAAGCGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
11202592 TGTGCTAAGTGAAATAATTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
11202619 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
11202632 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 19 0.34
25 2 0.04
27 3 0.05
28 32 0.57
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:11202710 original size:51 final size:51
Alignment explanation
Indices: 11202655--11202904 Score: 358
Period size: 51 Copynumber: 4.9 Consensus size: 51
11202645 TGAATCTTAG
* * *
11202655 GAATAAAATAGATTTGGACACAAGTGTGGCACTATGTGAAGGCCACTCTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* **
11202706 GAATATAATAGCTTTGGACACAAGTGCAGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * * *
11202757 GAATATAATAACTTTGGACACAAGTGAGGTACTATGTAAAGGCCAGTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
11202808 GAATAAAATAGCTTTAGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
11202859 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
11202905 AGTGTTTCTG
Statistics
Matches: 177, Mismatches: 21, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 176 0.99
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:11205454 original size:20 final size:20
Alignment explanation
Indices: 11205411--11205455 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11205401 AGAACATGTA
* * *
11205411 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTG
*
11205431 TTCATCAAATTTTACAACTG
1 TTCATAAAATTTTACAACTG
11205451 TTCAT
1 TTCAT
11205456 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTG
Found at i:11209027 original size:35 final size:34
Alignment explanation
Indices: 11208973--11209040 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
11208963 ACAATTGTCT
* * *
11208973 GTTCATCCGACTAGCGTTGGGCTCAAACATTATTG
1 GTTCATCCAAATAGAGTTGGGCTCAAA-ATTATTG
*
11209008 GTTCATCCAAATAGAGTTGGGCTCACAATTATT
1 GTTCATCCAAATAGAGTTGGGCTCAAAATTATT
11209041 ATCATCGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (34 bp):
GTTCATCCAAATAGAGTTGGGCTCAAAATTATTG
Done.