Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 45 of 230
Found at i:12093937 original size:175 final size:176
Alignment explanation
Indices: 12093332--12093922 Score: 771
Period size: 175 Copynumber: 3.4 Consensus size: 176
12093322 TCTCCCTGGT
* * *
12093332 CAGCAGTGGAATAGGTTAGAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAA
1 CAGCAGTGGAGTAGGTT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
*
12093396 GACGGGGAATCTTATCTT-CCCCAGAAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCT
65 GACGGCGAATCTTATCTTCCCCCAG-AGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCT
* *
12093460 G-GACAGCAGGGGAATAGGTTGAGGATTGTAGACCTTATCTCCCTGAG
129 GAGACAGCAGGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAG
* *
12093507 CAGCAGTGGAGTAGGTTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 CAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * *
12093572 ACGGCGAATCTTATCTT-CTCTAGGAGTAAGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCT-
66 ACGGCGAATCTTATCTTCCCCCA-GAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTG
*
12093635 AGATAGCAGGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAG
130 AGACAGCAGGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAG
* * * * *
12093682 CAGCAATGGAGTAGGTTGAAAATTACAAATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
1 CAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * ** *
12093747 ACGGCGAATCTTATCTTCCCCCTGAGTAGGGAAGCAGATTTAAGCCACAAACCCTATCTCCCTGA
66 ACGGCGAATCTTATCTTCCCCCAGAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTGA
* * * ** * * * *
12093812 G-CAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATATCCTTAAG
131 GACAGCAGGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAG
* * * ** * *
12093857 CAGTAGTGGAGTAGATCGAAGATGGCAGATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGAAG
1 CAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
12093922 A
66 A
12093923 TGGTAGATCT
Statistics
Matches: 362, Mismatches: 49, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
174 2 0.01
175 355 0.98
176 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (176 bp):
CAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
ACGGCGAATCTTATCTTCCCCCAGAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTGA
GACAGCAGGGGAATAGGTTGAAGATTGTAGACCTTATCTCCCTAAG
Found at i:12094361 original size:44 final size:43
Alignment explanation
Indices: 12094177--12094376 Score: 183
Period size: 44 Copynumber: 4.6 Consensus size: 43
12094167 TTGAAAATTA
* * *
12094177 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAATC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATC
* * * ***
12094220 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATC
1 -CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATC
* * * * *
12094263 TAG-TCTTATCTCTCTGAAGTTGCAGTGGAGAAGACAAAAGAACC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TAA-AATC
*
12094307 CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATC
*
12094349 GTAGATCTTATCTCCCT-AAGGTTGCAGT
1 -CAGATCTTATCTCCCTGAA-GTTGCAGT
12094377 AGAGTAGATT
Statistics
Matches: 125, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
41 29 0.23
42 5 0.04
43 9 0.07
44 82 0.66
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATC
Found at i:12094445 original size:36 final size:38
Alignment explanation
Indices: 12094396--12094502 Score: 92
Period size: 36 Copynumber: 2.8 Consensus size: 38
12094386 TGAAGCCATT
* *
12094396 AATCCTATTTCCCTGAGGTTGCAGCGGAGCGGAT-T-A
1 AATCTTATCTCCCTGAGGTTGCAGCGGAGCGGATCTCA
* * ** *
12094432 AATCTTATCTCCCTAAAGTTGCAGTAGAGTGGATCGCGTCA
1 AATCTTATCTCCCTGAGGTTGCAGCGGAGCGGAT--C-TCA
**
12094473 GGTCTTATCTCCCTGAGGTTGCAGCGGAGC
1 AATCTTATCTCCCTGAGGTTGCAGCGGAGC
12094503 AGACTGAGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
36 27 0.52
40 1 0.02
41 24 0.46
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (38 bp):
AATCTTATCTCCCTGAGGTTGCAGCGGAGCGGATCTCA
Found at i:12094702 original size:50 final size:49
Alignment explanation
Indices: 12094557--12094724 Score: 158
Period size: 50 Copynumber: 3.3 Consensus size: 49
12094547 GACTAAGAAT
* * ** *
12094557 AGCGAATTTTACTTCCCTAACAGTGTAGTGGAGCAGATTGAAGCTACAAC
1 AGCGAATCTTACTTCCC-AACAGTGCAGTGGAAAAGATTGAAGCCACAAC
* * * * **
12094607 AGTGAATC-TAGCTTTCCCGACATTGCAATTAAAAATGATTGAAGCCACAAC
1 AGCGAATCTTA-C-TTCCCAACAGTGCAGTGGAAAA-GATTGAAGCCACAAC
*
12094658 AGCGAATCTTACTTCCCAAGCAGTGCAGTGGAATAGATTGAAGCCACAAC
1 AGCGAATCTTACTTCCCAA-CAGTGCAGTGGAAAAGATTGAAGCCACAAC
* *
12094708 CGCGAATCTTGCTTCCC
1 AGCGAATCTTACTTCCC
12094725 TGACATCACA
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.02
50 52 0.56
51 37 0.40
52 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (49 bp):
AGCGAATCTTACTTCCCAACAGTGCAGTGGAAAAGATTGAAGCCACAAC
Found at i:12100579 original size:49 final size:49
Alignment explanation
Indices: 12100466--12101040 Score: 409
Period size: 49 Copynumber: 11.7 Consensus size: 49
12100456 TACTATCTTC
** ** * * * *
12100466 AATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * *
12100516 AATCTGTTCCACTGCATTGCCAAGAAATAATATTCGCTGTTGTAGCTTT
1 AATCTGTTCCACTGCAATGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * ** ** ** * *
12100565 AATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCTGTTGTAGCTTT
*
12100615 AATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
1 AATCTGTTCCACTGCAATGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * ** **
12100664 AATCT-TT-AACTGTAATGTCGGGGAAGCAAGATTCG-TCGTTGT-GACTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCT-GTTGTAG-CTTT
* *
12100712 AATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTGGCTTT
1 AATCTGTTCCACTGCAATGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * ** * *
12100761 AATCT-TT-AACTGCAATGTCGAGGAAGCAAGATTCGCCGTTGTGGCTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCTGTTGTAGCTTT
** * * *
12100809 AAT-TAGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTT
1 AATCT-GTTCCACTGCAATGCCA-GGAAATAAGATTCGCTGTTGTAGCTTT
* ** ** ** *
12100859 AATCT-TT-AACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * *
12100907 AATCTGTTCCACTGCACTTCCAGGAAATAAGATTCGCTGTTTTAGCTTT
1 AATCTGTTCCACTGCAATGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
* * ** *
12100956 AATCT-TT-AACTGCAATGTCGAGGAAGCAAGATTCG-TCGTTGTGGCTTT
1 AATCTGTTCCACTGCAATG-CCAGGAAATAAGATTCGCT-GTTGTAGCTTT
* * * *
12101004 AATCTATTCCACTGCACTGCCTGAGAAGTAAGATTCG
1 AATCTGTTCCACTGCAATGCCAG-GAAATAAGATTCG
12101041 TAATTTTTAA
Statistics
Matches: 412, Mismatches: 91, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
47 26 0.06
48 127 0.31
49 134 0.33
50 124 0.30
51 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (49 bp):
AATCTGTTCCACTGCAATGCCAGGAAATAAGATTCGCTGTTGTAGCTTT
Found at i:12100724 original size:97 final size:97
Alignment explanation
Indices: 12100472--12101040 Score: 861
Period size: 97 Copynumber: 5.8 Consensus size: 97
12100462 CTTCAATCTG
* * * * *
12100472 TTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTGCATTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
* * *
12100537 AAGAAATAATATTCGCTGTTGTAGCTTTAATATT
66 AGGAAATAAGATTCGCTGTTGTAGCTTT-A-ATC
12100571 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
12100636 AGGAAATAAGATTCGCTGTTGTAGCTTTAATC
66 AGGAAATAAGATTCGCTGTTGTAGCTTTAATC
* * *
12100668 TTTAACTGTAATGTCGGGGAAGCAAGATTCGTCGTTGTGACTTTAATCTGTTCCACTGCACTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
*
12100733 AGGAAATAAGATTCGCTGTTGTGGCTTTAATC
66 AGGAAATAAGATTCGCTGTTGTAGCTTTAATC
* *
12100765 TTTAACTGCAATGTCGAGGAAGCAAGATTCGCCGTTGTGGCTTTAAT-TAGTTCCACTGCACCGC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT-GTTCCACTGCACTGC
* * *
12100829 CAGGGAAGTAAGATTCGCCGTTGTGGCTTTAATC
65 CA-GGAAATAAGATTCGCTGTTGTAGCTTTAATC
* *
12100863 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTTAATCTGTTCCACTGCACTTCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
*
12100928 AGGAAATAAGATTCGCTGTTTTAGCTTTAATC
66 AGGAAATAAGATTCGCTGTTGTAGCTTTAATC
* * *
12100960 TTTAACTGCAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTATTCCACTGCACTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
* *
12101025 TGAGAAGTAAGATTCG
66 AG-GAAATAAGATTCG
12101041 TAATTTTTAA
Statistics
Matches: 432, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
96 1 0.00
97 242 0.56
98 102 0.24
99 87 0.20
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (97 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
AGGAAATAAGATTCGCTGTTGTAGCTTTAATC
Found at i:12100911 original size:195 final size:196
Alignment explanation
Indices: 12100472--12101040 Score: 885
Period size: 195 Copynumber: 2.9 Consensus size: 196
12100462 CTTCAATCTG
* * * * *
12100472 TTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTGCATTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
* * * *
12100537 AAGAAATAATATTCGCTGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
66 AGGAAATAAGATTCGCTGTTGTAGCTTT-A-ATCTTTAACTGCAATGTCGAGGAAGCAAGATTCG
* *
12100602 CCGTTGTGGCTTTAATCT-GTTCCACTGCACTGCCA-GGAAATAAGATTCGCTGTTGTAGCTTTA
129 CCGTTGTGGCTTTAATCTAGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTTA
12100665 ATC
194 ATC
* * *
12100668 TTTAACTGTAATGTCGGGGAAGCAAGATTCGTCGTTGTGACTTTAATCTGTTCCACTGCACTGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
*
12100733 AGGAAATAAGATTCGCTGTTGTGGCTTTAATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGCC
66 AGGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGCC
* *
12100798 GTTGTGGCTTTAAT-TAGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTTAAT
131 GTTGTGGCTTTAATCTAGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAAT
12100862 C
196 C
* *
12100863 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTTAATCTGTTCCACTGCACTTCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
* *
12100928 AGGAAATAAGATTCGCTGTTTTAGCTTTAATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGTC
66 AGGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGCC
* *
12100993 GTTGTGGCTTTAATCTA-TTCCACTGCACTGCCTGAGAAGTAAGATTCG
131 GTTGTGGCTTTAATCTAGTTCCACTGCACTGCCAGGGAAGTAAGATTCG
12101041 TAATTTTTAA
Statistics
Matches: 342, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
193 1 0.00
194 64 0.19
195 193 0.56
196 84 0.25
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (196 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACTGCC
AGGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGCC
GTTGTGGCTTTAATCTAGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTTAAT
C
Found at i:12100997 original size:292 final size:294
Alignment explanation
Indices: 12100472--12101040 Score: 894
Period size: 292 Copynumber: 1.9 Consensus size: 294
12100462 CTTCAATCTG
* **
12100472 TTTAACTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTGCATTGCC
1 TTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTGCACCGCC
* * *
12100537 AAGAAATAATATTCGCTGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
66 AAGAAATAAGATTCGCCGTTGTAGCTTTAATATCTTTAACTGCAATGTCGGGGAAGCAAGATTCG
*
12100602 CCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTAGCTTTAAT
131 CCATTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTAGCTTTAAT
* * *
12100667 CTTTAACTGTAATGTCGGGGAAGCAAGATTCGTCGTTGTGACTTTAATCTGTTCCACTGCACTGC
196 CTTTAACTGCAATGTCGAGGAAGCAAGATTCGTCGTTGTGACTTTAATCTATTCCACTGCACTGC
12100732 CAG-GAAATAAGATTCGCTGTTGTGGCTTTAATC
261 CAGAGAAATAAGATTCGCTGTTGTGGCTTTAATC
* * * *
12100765 TTTAACTGCAATGTCGAGGAAGCAAGATTCGCCGTTGTGGCTTTAAT-TAGTTCCACTGCACCGC
1 TTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTTAATCT-GTTCCACTGCACCGC
* * *
12100829 CAGGGAAGTAAGATTCGCCGTTGTGGCTTT-A-ATCTTTAACTGCAATGTCGGGGAAGCAAGATT
65 CA-AGAAATAAGATTCGCCGTTGTAGCTTTAATATCTTTAACTGCAATGTCGGGGAAGCAAGATT
* *
12100892 CGCCATTGTGGCTTTAATCTGTTCCACTGCACTTCCAGGAAATAAGATTCGCTGTTTTAGCTTTA
129 CGCCATTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTAGCTTTA
*
12100957 ATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTATTCCACTGCACT
194 ATCTTTAACTGCAATGTCGAGGAAGCAAGATTCGTCGTTGTGACTTTAATCTATTCCACTGCACT
* *
12101022 GCCTGAGAAGTAAGATTCG
259 GCCAGAGAAATAAGATTCG
12101041 TAATTTTTAA
Statistics
Matches: 251, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
292 159 0.63
293 70 0.28
294 22 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (294 bp):
TTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTTAATCTGTTCCACTGCACCGCC
AAGAAATAAGATTCGCCGTTGTAGCTTTAATATCTTTAACTGCAATGTCGGGGAAGCAAGATTCG
CCATTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGAAATAAGATTCGCTGTTGTAGCTTTAAT
CTTTAACTGCAATGTCGAGGAAGCAAGATTCGTCGTTGTGACTTTAATCTATTCCACTGCACTGC
CAGAGAAATAAGATTCGCTGTTGTGGCTTTAATC
Found at i:12101092 original size:44 final size:45
Alignment explanation
Indices: 12101044--12101174 Score: 120
Period size: 47 Copynumber: 2.9 Consensus size: 45
12101034 AGATTCGTAA
**
12101044 TTTTTAACCTACTCCAAAACTGCTTAGGGAGACAAGGCTG-AGCG
1 TTTTTAACCTACTCCACTACTGCTTAGGGAGACAAGGCTGAAGCG
* * * * * * ***
12101088 TTTTTTATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATTT
1 TTTTTAACCTACTCCACTACTGCTTAGGGAGACAAG-GCTG-AAGCG
* *
12101135 TTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTG
1 TTTTTAACCTACTCCACTACTGCTTAGGGAGACAAGGCTG
12101175 GGGACTTCGA
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
44 29 0.45
45 3 0.05
46 3 0.05
47 30 0.46
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
TTTTTAACCTACTCCACTACTGCTTAGGGAGACAAGGCTGAAGCG
Found at i:12101213 original size:90 final size:91
Alignment explanation
Indices: 12101044--12101222 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 91
12101034 AGATTCGTAA
* ** **
12101044 TTTTTAACCTACTCCAAAACTGCTTAGGGAGACAAGGCTGAGCGTTTTTTATCTGCTCCACTACT
1 TTTTTAACCTACTCCAAAACTGCTCAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
12101109 GCTTAGGAAGATAAGATCTGTAATTT
66 GCTTAGGAAGATAAGATCTGTAATTT
*** *
12101135 TTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTG-GGGACTTCGATCTGCTCCACTACT
1 TTTTTAACCTACTCCAAAACTGCTCAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
*
12101199 GCTTAGGGAGATAAGATCTGTAAT
66 GCTTAGGAAGATAAGATCTGTAAT
12101223 CTTCAATCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 42 0.54
91 36 0.46
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (91 bp):
TTTTTAACCTACTCCAAAACTGCTCAGGGAGACAAGGCTGAGCGACTTCGATCTGCTCCACTACT
GCTTAGGAAGATAAGATCTGTAATTT
Found at i:12101477 original size:131 final size:131
Alignment explanation
Indices: 12101179--12101783 Score: 928
Period size: 131 Copynumber: 4.6 Consensus size: 131
12101169 AGGCTGGGGA
*
12101179 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAATCTATTCCACTGCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAACCTATTCCACTGCT
* *
12101243 GACCAGGGAGATAGGA-TTAGTGGCTTAAATCTGC-TCCCTACTCTTGGGGAAGATACGATTCGC
65 GACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGC
12101306 CGT
129 CGT
* *
12101309 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTCCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* *
12101374 ACCAGGGAGATATGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGAAAGATAAGATTCGCCG
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
12101439 T
131 T
* * * *
12101440 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTCTAACCTATTCTACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * **
12101505 ACCAGGGAGATAGGACTTGTGACTTAAATCTGGTTCTCTACTCCCAGGGAAGATAAGATTCGCCG
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
12101570 T
131 T
* * *
12101571 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
* * * *
12101636 ACCACGGAGATAGGACTTGCGGCTTAAATCTGATTCCCTACTCTTGGGGAAGATAAGATTCGCCG
66 ACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
12101701 T
131 T
* * * *
12101702 CTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCCATTCCAGTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
12101767 ACCAGGGAGATAGGACT
66 ACCAGGGAGATAGGACT
12101784 AGGGTCGTCG
Statistics
Matches: 433, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
129 2 0.00
130 88 0.20
131 343 0.79
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
ACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCG
T
Found at i:12103816 original size:22 final size:23
Alignment explanation
Indices: 12103798--12103847 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
12103788 TTCTTTTTCT
12103798 TTTTCATTTC-ATCATTTTTTTA
1 TTTTCATTTCAATCATTTTTTTA
*
12103820 TTTTGATTTCAATCATTTTTTTTA
1 TTTTCATTTCAATCA-TTTTTTTA
12103844 TTTT
1 TTTT
12103848 TTGATTTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 4 0.16
24 12 0.48
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTCATTTCAATCATTTTTTTA
Found at i:12103828 original size:14 final size:14
Alignment explanation
Indices: 12103811--12103881 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 14
12103801 TCATTTCATC
12103811 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
*
12103825 ATTTCAATCATTT-TTTTT
1 ATTT---T--TTTATTTTG
* *
12103843 ATTTTTTGATTTCG
1 ATTTTTTTATTTTG
12103857 ATTTTTTTATTTTG
1 ATTTTTTTATTTTG
12103871 ATTTTTTTATT
1 ATTTTTTTATT
12103882 GAATCTGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.04
14 30 0.67
15 1 0.02
17 1 0.02
18 8 0.18
19 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (14 bp):
ATTTTTTTATTTTG
Found at i:12103849 original size:26 final size:23
Alignment explanation
Indices: 12103791--12103874 Score: 86
Period size: 22 Copynumber: 3.7 Consensus size: 23
12103781 TTTTCTTTTC
* *
12103791 TTTTTCTTTTTCATTTCATCATT
1 TTTTTATTTTTGATTTCATCATT
12103814 TTTTTA-TTTTGATTTCAATCATTT
1 TTTTTATTTTTGATTTC-ATCA-TT
*
12103838 TTTTTATTTTTTGATTTC--GATT
1 TTTTTA-TTTTTGATTTCATCATT
12103860 TTTTTA-TTTTGATTT
1 TTTTTATTTTTGATTT
12103875 TTTTATTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
20 9 0.17
22 17 0.31
23 10 0.19
24 8 0.15
26 10 0.19
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.71
Consensus pattern (23 bp):
TTTTTATTTTTGATTTCATCATT
Found at i:12103862 original size:24 final size:23
Alignment explanation
Indices: 12103812--12103874 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
12103802 CATTTCATCA
12103812 TTTTTTTATTTTGATTTCAATCAT
1 TTTTTTTATTTTGATTTCAAT-AT
*
12103836 TTTTTTTATTTTTTGATTTC--GA-
1 TTTTTTTA--TTTTGATTTCAATAT
12103858 TTTTTTTATTTTGATTT
1 TTTTTTTATTTTGATTT
12103875 TTTTATTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.25
22 8 0.22
23 1 0.03
24 8 0.22
26 10 0.28
ACGTcount: A:0.16, C:0.05, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTTTGATTTCAATAT
Found at i:12104795 original size:25 final size:25
Alignment explanation
Indices: 12104745--12104810 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
12104735 AAGAAAATCC
* *
12104745 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATAAAAGAATAATTACTCA
*
12104770 AAAAGAATAAAAGAAT-ATTGGCTCA
1 AAAAGAATAAAAGAATAATT-ACTCA
12104795 AAAATGAATGAAAAGA
1 AAAA-GAAT-AAAAGA
12104811 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 4 0.11
27 6 0.17
ACGTcount: A:0.61, C:0.05, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAGAATAAAAGAATAATTACTCA
Found at i:12109697 original size:28 final size:28
Alignment explanation
Indices: 12109665--12109721 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
12109655 GCAAAAACAC
12109665 ACTTGGAGATGTGCATGACTTCCTAAGG
1 ACTTGGAGATGTGCATGACTTCCTAAGG
12109693 ACTTGGAGATGTGCATGACTTCCTAAGG
1 ACTTGGAGATGTGCATGACTTCCTAAGG
12109721 A
1 A
12109722 TTTACACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (28 bp):
ACTTGGAGATGTGCATGACTTCCTAAGG
Found at i:12112686 original size:20 final size:20
Alignment explanation
Indices: 12112657--12112706 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
12112647 AAAAAATACA
* *
12112657 AAAAAATTAAA-TTAATTTT
1 AAAAATTTAAATTTAAATTT
12112676 CAAAAATTTAAATTTAAATTT
1 -AAAAATTTAAATTTAAATTT
12112697 -AAAATTTAAA
1 AAAAATTTAAA
12112707 ATATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 10 0.37
21 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTTAAATTTAAATTT
Found at i:12128264 original size:35 final size:35
Alignment explanation
Indices: 12128224--12128296 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
12128214 TGCCCTAAAT
12128224 GACTTATATACCATTTACACGATGTTACCCTGAAG
1 GACTTATATACCATTTACACGATGTTACCCTGAAG
* * * *
12128259 GACTTATATATCATTTACACGGTGTTGCCTTGAAG
1 GACTTATATACCATTTACACGATGTTACCCTGAAG
12128294 GAC
1 GAC
12128297 CAGTAGATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (35 bp):
GACTTATATACCATTTACACGATGTTACCCTGAAG
Found at i:12130036 original size:56 final size:58
Alignment explanation
Indices: 12129974--12130095 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 58
12129964 ATTTTCAGGT
12129974 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAA-ATTT-TCATTTCTC
1 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
* *
12130030 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATATTTCTCATTTCTC
1 TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
12130088 TATTTTCA
1 TATTTTCA
12130096 CCATTTTTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 41 0.66
57 4 0.06
58 17 0.27
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (58 bp):
TATTTTCATTTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
Found at i:12139065 original size:22 final size:24
Alignment explanation
Indices: 12139027--12139070 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
12139017 TGATAATATG
12139027 TTTTGATATAAAAAATTAAAGTGT
1 TTTTGATATAAAAAATTAAAGTGT
12139051 TTTTGA-AT-AAAAATTAAAGT
1 TTTTGATATAAAAAATTAAAGT
12139071 TGAACAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAGTGT
Found at i:12139208 original size:20 final size:20
Alignment explanation
Indices: 12139170--12139208 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12139160 TTAACATTAA
* **
12139170 AATCAAGTTAAAATGATTTT
1 AATCAAGTGAAAACAATTTT
12139190 AATCAAGTGAAAACAATTT
1 AATCAAGTGAAAACAATTT
12139209 AAACTAGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (20 bp):
AATCAAGTGAAAACAATTTT
Found at i:12144248 original size:46 final size:45
Alignment explanation
Indices: 12144169--12144306 Score: 177
Period size: 46 Copynumber: 3.0 Consensus size: 45
12144159 ACAATGCAAT
* * * * *
12144169 AACTCAGTATAGTTTTCTTCACTAAAATGCCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAC
*
12144215 AACTCAATATGGTTTTCGTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
* *
12144261 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAC
12144307 CCTTTACCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 79 0.98
47 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAC
Found at i:12151130 original size:46 final size:44
Alignment explanation
Indices: 12151056--12151194 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 44
12151046 ACAATGCTAT
* * *
12151056 AACTCAGTATGATTTTCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACT-AAATACCATACCTACGTTCCAC
*
12151102 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTGCGTTCCAC
1 AACTCAGTATGGTTTTC-TTACT-AAATACCATACCTACGTTCCAC
*
12151148 AACTCAGTATGGTTTTCTTTACTAAATTACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTC-TTACTAAA-TACCATACCTACGTTCCAC
12151194 A
1 A
12151195 CTTTTCCATG
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
45 3 0.04
46 78 0.94
47 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (44 bp):
AACTCAGTATGGTTTTCTTACTAAATACCATACCTACGTTCCAC
Found at i:12156799 original size:35 final size:36
Alignment explanation
Indices: 12156760--12156892 Score: 146
Period size: 35 Copynumber: 3.8 Consensus size: 36
12156750 GGTTAGACTA
* *
12156760 GCTCTTATGAGCAT-TGGTGTGTTTTGAAAGGATTT
1 GCTCTTATGAGCATCTGGTGTGTTTTGAAGGGATTG
* *
12156795 GCTCTTATGAGCAT-TGGTTTGTTTTGGAGGGATTG
1 GCTCTTATGAGCATCTGGTGTGTTTTGAAGGGATTG
* * * *
12156830 GCTCGTGTGAGCATCTGGTCTGTCTT-AGAGGGATTG
1 GCTCTTATGAGCATCTGGTGTGTTTTGA-AGGGATTG
* *
12156866 GCTCTTGTGAGCATCTAGTGTGTTTTG
1 GCTCTTATGAGCATCTGGTGTGTTTTG
12156893 GTTGGACTGA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
35 43 0.52
36 39 0.48
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (36 bp):
GCTCTTATGAGCATCTGGTGTGTTTTGAAGGGATTG
Found at i:12156863 original size:36 final size:36
Alignment explanation
Indices: 12156802--12156881 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
12156792 TTTGCTCTTA
* * *
12156802 TGAGCAT-TGGTTTGTTTTGGAGGGATTGGCTCGTG
1 TGAGCATCTGGTCTGTCTTAGAGGGATTGGCTCGTG
*
12156837 TGAGCATCTGGTCTGTCTTAGAGGGATTGGCTCTTG
1 TGAGCATCTGGTCTGTCTTAGAGGGATTGGCTCGTG
12156873 TGAGCATCT
1 TGAGCATCT
12156882 AGTGTGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 7 0.17
36 33 0.82
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.38
Consensus pattern (36 bp):
TGAGCATCTGGTCTGTCTTAGAGGGATTGGCTCGTG
Found at i:12159086 original size:20 final size:23
Alignment explanation
Indices: 12159042--12159086 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 23
12159032 TGATAATAGG
12159042 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATT-AAATGT
12159066 TTTTGA-ATAA-AAATT-AATGT
1 TTTTGATATAACAAATTAAATGT
12159086 T
1 T
12159087 GAACAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
22 5 0.24
23 4 0.19
24 6 0.29
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTTGATATAACAAATTAAATGT
Found at i:12159221 original size:20 final size:20
Alignment explanation
Indices: 12159183--12159221 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12159173 TCAACCTTAA
*
12159183 AATCAAGTTAAAAAGATTTT
1 AATCAAGTTAAAAAAATTTT
12159203 AATCAAG-TAAAACAAATTT
1 AATCAAGTTAAAA-AAATTT
12159222 CAACTAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AATCAAGTTAAAAAAATTTT
Found at i:12160241 original size:16 final size:16
Alignment explanation
Indices: 12160211--12160245 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12160201 TCTTTTGAGC
12160211 TCACTAAGACATTTAT
1 TCACTAAGACATTTAT
12160227 TCACATAAGAC-TTTAT
1 TCAC-TAAGACATTTAT
12160243 TCA
1 TCA
12160246 TTCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
TCACTAAGACATTTAT
Found at i:12162028 original size:18 final size:18
Alignment explanation
Indices: 12161979--12162021 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
12161969 TGTATATATA
12161979 GATTATGAAAATAATAAT
1 GATTATGAAAATAATAAT
*
12161997 GATTATAAAAATAATAAT
1 GATTATGAAAATAATAAT
12162015 GATTATG
1 GATTATG
12162022 TATATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (18 bp):
GATTATGAAAATAATAAT
Found at i:12162832 original size:39 final size:39
Alignment explanation
Indices: 12162778--12162898 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
12162768 AAAATCTTGT
12162778 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
12162817 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
** *
12162856 TTACATTGATTTGATTCTCAATCCATTGAGTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
12162895 TTAC
1 TTAC
12162899 TGTTTTGCTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.51
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
Found at i:12162884 original size:20 final size:20
Alignment explanation
Indices: 12162781--12162884 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 20
12162771 ATCTTGTTTA
12162781 CATTGATTTGATTCTCAATC
1 CATTGATTTGATTCTCAATC
** ** * *
12162801 TTTTGATTTCTTTC-CATTA
1 CATTGATTTGATTCTCAATC
12162820 CATTGATTTGATTCTCAATC
1 CATTGATTTGATTCTCAATC
** ** * *
12162840 TTTTGATTTCTTTC-CATTA
1 CATTGATTTGATTCTCAATC
12162859 CATTGATTTGATTCTCAATC
1 CATTGATTTGATTCTCAATC
12162879 CATTGA
1 CATTGA
12162885 GTTCTTTCCA
Statistics
Matches: 58, Mismatches: 24, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
19 26 0.45
20 32 0.55
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (20 bp):
CATTGATTTGATTCTCAATC
Found at i:12163529 original size:44 final size:44
Alignment explanation
Indices: 12163479--12163586 Score: 173
Period size: 44 Copynumber: 2.5 Consensus size: 44
12163469 TTTGTTTACT
*
12163479 TTCAACCTATTCCACTGCTGACCAA-GGAGATAGGATTCTCAATC
1 TTCAACCTATTCCACTGCTGA-CAAGGGAGATAGGATTCACAATC
*
12163523 TTCAACCTATTCCATTGCTGACAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACAAGGGAGATAGGATTCACAATC
*
12163567 TTCAATCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTG
12163587 CCTAGGGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 3 0.05
44 56 0.95
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACAAGGGAGATAGGATTCACAATC
Found at i:12163876 original size:132 final size:132
Alignment explanation
Indices: 12163546--12164218 Score: 1075
Period size: 132 Copynumber: 5.1 Consensus size: 132
12163536 ATTGCTGACA
* * *
12163546 AGGGAGATAGGAT-TCACAATCTTCAATCTATTCCACTGCTG-CCTAGGGAAGTAGAATTACTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGG
* * * *
12163609 ATTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCGCTATCTTC-ATCTGCTCCGCTACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACT
12163673 GCTT
129 GCTT
* *
12163677 AGGGAGATAAGATCTGAAAT-TTTAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * *
12163741 TCAATGTACTCCACTGTAACTATAGGGAGGTAAAATCTACCATCTTCGATCTACTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
12163806 TT
131 TT
* * *
12163808 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCCAGGAAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
12163873 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
12163938 TT
131 TT
*
12163940 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
*
12164005 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
12164070 TT
131 TT
* *
12164072 AGGGAGATAAGATCTAAAATCTTAAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * *
12164137 TCAATGTACTCCACTGGAACCACAGGGAGGTAAAATCAGCCATCTTCGATCTACTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
12164202 TT
131 TT
12164204 AGGGAGATAAGATCT
1 AGGGAGATAAGATCT
12164219 AGAGTCTTCG
Statistics
Matches: 503, Mismatches: 35, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
130 79 0.16
131 55 0.11
132 369 0.73
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
TT
Found at i:12173276 original size:46 final size:46
Alignment explanation
Indices: 12173251--12173512 Score: 200
Period size: 46 Copynumber: 5.5 Consensus size: 46
12173241 GATCAAGTGA
* * *
12173251 CAAGTGGA-AAGT-GATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
* *
12173296 CAAGTGACAAAGT-GATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
12173342 CAAGTGACAAGTGGA-AAGTGATAAG-TAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGTGGATAAGTGAT-AGCT-ATA------GCTACACTTATCTGAT
*
12173394 CAAGTGACAAAGT-GATAAGTGATAGCT-TCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
12173440 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAGT-----G-GATAAGTGATAGCTATAGCTACACTTATCTGAT
*
12173492 CAAGAGACAGAGT-GATAAGTG
1 CAAGTGACA-AGTGGATAAGTG
12173513 GCTACACTTA
Statistics
Matches: 181, Mismatches: 11, Indels: 49
0.75 0.05 0.20
Matches are distributed among these distances:
44 2 0.01
45 20 0.11
46 76 0.42
47 1 0.01
51 1 0.01
52 65 0.36
53 16 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:12173277 original size:52 final size:51
Alignment explanation
Indices: 12173206--12173512 Score: 382
Period size: 52 Copynumber: 6.1 Consensus size: 51
12173196 ATCAAGTGAC
* *
12173206 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
12173258 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
12173304 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
12173356 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
12173402 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
12173453 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
12173506 ATAAGTG
1 A-AAGTG
12173513 GCTACACTTA
Statistics
Matches: 221, Mismatches: 20, Indels: 27
0.82 0.07 0.10
Matches are distributed among these distances:
46 85 0.38
52 127 0.57
53 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:12173312 original size:98 final size:98
Alignment explanation
Indices: 12173192--12173513 Score: 554
Period size: 98 Copynumber: 3.3 Consensus size: 98
12173182 TTTGAGTACT
12173192 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
12173257 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
12173290 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
12173355 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
12173388 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
12173453 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
12173486 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
12173514 CTACACTTAT
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 213 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:12173519 original size:37 final size:37
Alignment explanation
Indices: 12173476--12173658 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
12173466 GATAGCTTTA
* *
12173476 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12173513 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12173550 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
12173587 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
12173624 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12173659 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:12175933 original size:59 final size:59
Alignment explanation
Indices: 12175836--12176010 Score: 244
Period size: 59 Copynumber: 3.0 Consensus size: 59
12175826 TTGATTTATA
* * * *
12175836 TTTGAATATATTTATAGATATTGTTTTTATATTGTTTCATTTAATAAAATAGAAGTTCT
1 TTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCT
* * *
12175895 TTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTACTAAAATAGAAGTTCT
1 TTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCT
* * *
12175954 TTTGAATATTTTCATACAAATTATTTTT-TCATTGTTTCATTTAATAAATTAGGAGTT
1 TTTGAATATTTTTATACAAATTATTTTTAT-ATTGTTTCATTTAATAAAATAGAAGTT
12176011 ATTTCAATTT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 1 0.01
59 101 0.99
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.53
Consensus pattern (59 bp):
TTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCT
Found at i:12177908 original size:156 final size:156
Alignment explanation
Indices: 12177635--12177933 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 156
12177625 GTCCAGCTGG
* * * *
12177635 GAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTATTTTTCAACCCTAATTATCA
1 GAGCTTTTTCAGTACTTTTCCTGACAGTGCATCCTGCTTGAAGCATTTTTCAACCCCAACTATCA
* ** * *
12177700 GATTTCCTATGAATCTTGGGATATTCTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
66 GATTTCCTAGGAATCTCAGGATACTCTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAACCA
12177765 ACTGTACAAAAAAAACGTCCAATTGA
131 ACTGTACAAAAAAAACGTCCAATTGA
* ** * *
12177791 GAGCTTTTTCAGTATTTTTCCTGATTGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATTA
1 GAGCTTTTTCAGTACTTTTCCTGACAGTGCATCCTGCTTGAAGCATTTTTCAACCCCAACTATCA
* *
12177856 GATTT-CTCGGAAATCTCAGGATAC-CTTTTCTGAACCATCTTCTCAAAATTATTTTTTCAGAAC
66 GATTTCCTAGG-AATCTCAGGATACTC-TTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAC
12177919 CAACTGTACAAAAAA
129 CAACTGTACAAAAAA
12177934 GTGTCTAGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
155 4 0.03
156 121 0.97
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (156 bp):
GAGCTTTTTCAGTACTTTTCCTGACAGTGCATCCTGCTTGAAGCATTTTTCAACCCCAACTATCA
GATTTCCTAGGAATCTCAGGATACTCTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAACCA
ACTGTACAAAAAAAACGTCCAATTGA
Found at i:12184784 original size:21 final size:22
Alignment explanation
Indices: 12184758--12184802 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
12184748 TTTATTTTTT
12184758 TTCAAAATTCAAAT-AAAAATA
1 TTCAAAATTCAAATAAAAAATA
**
12184779 TTCAAAATTTTAATAAAAAATA
1 TTCAAAATTCAAATAAAAAATA
12184801 TT
1 TT
12184803 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TTCAAAATTCAAATAAAAAATA
Found at i:12185992 original size:16 final size:15
Alignment explanation
Indices: 12185962--12185995 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12185952 GGCAAGAGAT
12185962 AAGAAATTAGAAGGA
1 AAGAAATTAGAAGGA
*
12185977 AAGAAAGTTGGAAGGA
1 AAGAAA-TTAGAAGGA
12185993 AAG
1 AAG
12185996 TGAAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (15 bp):
AAGAAATTAGAAGGA
Found at i:12186555 original size:39 final size:39
Alignment explanation
Indices: 12186498--12186576 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
12186488 AAGCAAAACA
* *
12186498 GTAATGGAAAGAACTCAAAGGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
12186537 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
12186576 G
1 G
12186577 CAAACAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:12188987 original size:46 final size:46
Alignment explanation
Indices: 12188962--12189223 Score: 200
Period size: 46 Copynumber: 5.5 Consensus size: 46
12188952 GATCAAGTGA
* * *
12188962 CAAGTGGA-AAGT-GATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
* *
12189007 CAAGTGACAAAGT-GATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
12189053 CAAGTGACAAGTGGA-AAGTGATAAG-TAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGTGGATAAGTGAT-AGCT-ATA------GCTACACTTATCTGAT
*
12189105 CAAGTGACAAAGT-GATAAGTGATAGCT-TCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
12189151 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAGT-----G-GATAAGTGATAGCTATAGCTACACTTATCTGAT
*
12189203 CAAGAGACAGAGT-GATAAGTG
1 CAAGTGACA-AGTGGATAAGTG
12189224 GCTACACTTA
Statistics
Matches: 181, Mismatches: 11, Indels: 49
0.75 0.05 0.20
Matches are distributed among these distances:
44 2 0.01
45 20 0.11
46 76 0.42
47 1 0.01
51 1 0.01
52 65 0.36
53 16 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:12188988 original size:52 final size:51
Alignment explanation
Indices: 12188917--12189223 Score: 382
Period size: 52 Copynumber: 6.1 Consensus size: 51
12188907 ATCAAGTGAC
* *
12188917 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
12188969 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
12189015 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
12189067 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
12189113 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
12189164 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
12189217 ATAAGTG
1 A-AAGTG
12189224 GCTACACTTA
Statistics
Matches: 221, Mismatches: 20, Indels: 27
0.82 0.07 0.10
Matches are distributed among these distances:
46 85 0.38
52 127 0.57
53 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:12189023 original size:98 final size:98
Alignment explanation
Indices: 12188903--12189224 Score: 554
Period size: 98 Copynumber: 3.3 Consensus size: 98
12188893 TTTGAGTACT
12188903 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
12188968 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
12189001 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
12189066 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
12189099 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
12189164 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
12189197 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
12189225 CTACACTTAT
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 213 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:12189230 original size:37 final size:37
Alignment explanation
Indices: 12189187--12189369 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
12189177 GATAGCTTTA
* *
12189187 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12189224 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12189261 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
12189298 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
12189335 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12189370 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:12192129 original size:7 final size:7
Alignment explanation
Indices: 12192119--12192155 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
12192109 AAAAGAAGAA
12192119 AAAAATC
1 AAAAATC
12192126 AAAAATC
1 AAAAATC
12192133 AAAAA-C
1 AAAAATC
12192139 -AAAATC
1 AAAAATC
12192145 AAAAA-C
1 AAAAATC
12192151 AAAAA
1 AAAAA
12192156 AAGAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.14
6 8 0.29
7 16 0.57
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAAATC
Found at i:12192142 original size:12 final size:12
Alignment explanation
Indices: 12192127--12192154 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12192117 AAAAAAATCA
12192127 AAAATCAAAAAC
1 AAAATCAAAAAC
12192139 AAAATCAAAAAC
1 AAAATCAAAAAC
12192151 AAAA
1 AAAA
12192155 AAAGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAATCAAAAAC
Found at i:12192196 original size:77 final size:76
Alignment explanation
Indices: 12192094--12192243 Score: 180
Period size: 77 Copynumber: 2.0 Consensus size: 76
12192084 TCGAAAGGGT
12192094 TCAAATTCAAAAAAAAAAAGAAGAAAAAAATCAAAAATCAAAA-ACAAA-ATCAAAAACAAAAAA
1 TCAAATTCAAAAAAAAAAAGAAGAAAAAAATC-AAAATCAAAATA-AAATATCAAAAA-AAAAAA
12192157 AGAAAAGAAAAAAA
63 AGAAAAGAAAAAAA
* * ** * * *
12192171 TCAAATTCAAAAGCAAAATAG-AGAAATCAATCAAAGTCAAAATAAAATATGAAAAAAGAAAAAG
1 TCAAATTCAAAA-AAAAAAAGAAGAAAAAAATCAAAATCAAAATAAAATATCAAAAAAAAAAAAG
12192235 AAAAGAAAA
65 AAAAGAAAA
12192244 GGAGAGGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
76 28 0.44
77 29 0.46
78 6 0.10
ACGTcount: A:0.73, C:0.09, G:0.08, T:0.11
Consensus pattern (76 bp):
TCAAATTCAAAAAAAAAAAGAAGAAAAAAATCAAAATCAAAATAAAATATCAAAAAAAAAAAAGA
AAAGAAAAAAA
Found at i:12194011 original size:87 final size:87
Alignment explanation
Indices: 12193863--12194298 Score: 669
Period size: 87 Copynumber: 5.0 Consensus size: 87
12193853 TGAAAATTGG
* * * *
12193863 AAACAAAGCCTTGCCTCTATCGGTTGTAGTTGGAGCTGATTAAAGATAACAGATTTTGCCTTCCT
1 AAACAAAGCCTTGCCTCCATCGGTTGTAG-TGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* *
12193928 GCGTTAGCAGCGAAGCAGACCGA
65 GCGTTAACAGCGAAGCAGATCGA
12193951 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
*
12194016 CGTTAACAGTGAAGCAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
* * * *
12194038 AAACGAAGCCTTGCCTCCATCGGTTGTAATGCAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTA
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
* **
12194103 CGTTAACAGCAAAGCAGATAAA
66 CGTTAACAGCGAAGCAGATCGA
* *
12194125 AAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
12194190 CGTTAA-AGCGAAGCAGATAC-A
66 CGTTAACAGCGAAGCAGAT-CGA
* *
12194211 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
*
12194276 CGTTAACAGTGAAGCAGATCGA
66 CGTTAACAGCGAAGCAGATCGA
12194298 A
1 A
12194299 GATTATAAGT
Statistics
Matches: 319, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
86 82 0.26
87 209 0.66
88 28 0.09
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
CGTTAACAGCGAAGCAGATCGA
Found at i:12194441 original size:44 final size:43
Alignment explanation
Indices: 12194388--12194515 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 43
12194378 TAGATCACAT
*
12194388 CAAGCCTTATCACCCTGAGGTTGCAGTGGAGCAGACTG-AGAAAA
1 CAAGTCTTATC-CCCTGAGGTTGCAGTGGAGCAGACTGAAG-AAA
* ** * *
12194432 CAAGTCTTATCCCCTTGAAGTCACAGTGGGGCAGACTGAAGAAG
1 CAAGTCTTATCCCC-TGAGGTTGCAGTGGAGCAGACTGAAGAAA
* * *
12194476 CAAATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGAA
1 CAAGTCTTATC-CCCTGAGGTTGCAGTGGAGCAGACTGAA
12194516 TTTGAATCCT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.04
44 60 0.88
45 5 0.07
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (43 bp):
CAAGTCTTATCCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAA
Found at i:12195955 original size:24 final size:23
Alignment explanation
Indices: 12195923--12195967 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12195913 ATGAATGTTG
12195923 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTATCACA-ATTATTAT
*
12195947 TTTAAATTTATCATAATTATT
1 TTTAAATTTATCACAATTATT
12195968 TTAAGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATTTATCACAATTATTAT
Found at i:12199092 original size:22 final size:21
Alignment explanation
Indices: 12199045--12199111 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
12199035 ACCGACTGTT
*
12199045 ATAAAAAATTATAAAAA--AA
1 ATAATAAATTATAAAAATGAA
12199064 TATTAATTAAATTATAAAAATGAA
1 -A-TAA-TAAATTATAAAAATGAA
12199088 ATAATAATATTA-AAAAATTGAA
1 ATAATAA-ATTATAAAAA-TGAA
12199110 AT
1 AT
12199112 TAATCCTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 25 0.62
23 1 0.03
24 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
ATAATAAATTATAAAAATGAA
Found at i:12203729 original size:4 final size:4
Alignment explanation
Indices: 12203722--12203748 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
12203712 GAGATAGCCA
12203722 GCCT GCCT GCCT GCCT GCCT GCCT GCC
1 GCCT GCCT GCCT GCCT GCCT GCCT GCC
12203749 CCCCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.26, T:0.22
Consensus pattern (4 bp):
GCCT
Found at i:12206597 original size:11 final size:11
Alignment explanation
Indices: 12206581--12206606 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12206571 GATGCATACA
12206581 ATATGACGTGT
1 ATATGACGTGT
12206592 ATATGACGTGT
1 ATATGACGTGT
12206603 ATAT
1 ATAT
12206607 ATTATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (11 bp):
ATATGACGTGT
Found at i:12209841 original size:25 final size:23
Alignment explanation
Indices: 12209813--12209858 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
12209803 TTAATATAGA
12209813 GGTTACAAATTACAATTATATCAAC
1 GGTTA-AAATTACAA-TATATCAAC
* *
12209838 GGTTAACATTAGAATATATCA
1 GGTTAAAATTACAATATATCA
12209859 TTACAAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 7 0.37
25 5 0.26
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
GGTTAAAATTACAATATATCAAC
Found at i:12213705 original size:8 final size:8
Alignment explanation
Indices: 12213692--12213718 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12213682 AATAAATATA
12213692 TTTTTTAT
1 TTTTTTAT
12213700 TTTTTTAT
1 TTTTTTAT
12213708 TTTTTTAT
1 TTTTTTAT
12213716 TTT
1 TTT
12213719 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:12226086 original size:19 final size:19
Alignment explanation
Indices: 12226062--12226105 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12226052 CAATTCATGG
* *
12226062 TATCATTGATATACTATCA
1 TATCATTAAAATACTATCA
*
12226081 TATCATTAAAATATTATCA
1 TATCATTAAAATACTATCA
12226100 TATCAT
1 TATCAT
12226106 CCATTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (19 bp):
TATCATTAAAATACTATCA
Found at i:12234110 original size:14 final size:14
Alignment explanation
Indices: 12234091--12234130 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12234081 TTGATTGACA
12234091 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
12234105 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
12234119 GAAAAATGTTTT
1 GTAAAATGTTTT
12234131 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:12234143 original size:34 final size:35
Alignment explanation
Indices: 12234099--12234165 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
12234089 CAGTAAAATG
* *
12234099 TTTTCCGTAAAATGA-TTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
* *
12234133 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTT
12234166 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
Found at i:12234152 original size:20 final size:20
Alignment explanation
Indices: 12234114--12234153 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12234104 CGTAAAATGA
**
12234114 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
12234134 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
12234154 GGAAAATATT
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:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:12235699 original size:13 final size:13
Alignment explanation
Indices: 12235681--12235706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12235671 CCAGAAACTG
12235681 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
12235694 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
12235707 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:12241736 original size:16 final size:16
Alignment explanation
Indices: 12241715--12241762 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12241705 ACCTACGAAA
12241715 TTTTTTTATTTTTTAT
1 TTTTTTTATTTTTTAT
** *
12241731 TTTTTTCGTATTTTAT
1 TTTTTTTATTTTTTAT
12241747 TTTTTTATACTTTTTT
1 TTTTTT-TA-TTTTTT
12241763 GATCACTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 19 0.79
18 5 0.21
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTATTTTTTAT
Found at i:12245346 original size:25 final size:23
Alignment explanation
Indices: 12245288--12245353 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
12245278 ACAACTACTT
12245288 TTTTATATTAAAATA-TTTTTTTA
1 TTTT-TATTAAAATATTTTTTTTA
* * *
12245311 CTTTAAATAAAATATTATTATTTTA
1 TTTTTATTAAAATATT-TT-TTTTA
12245336 TTTTTATTAAAAATATTT
1 TTTTTATT-AAAATATTT
12245354 AAATATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 8 0.24
23 4 0.12
24 2 0.06
25 11 0.33
26 8 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTATTAAAATATTTTTTTTA
Found at i:12245929 original size:60 final size:60
Alignment explanation
Indices: 12245830--12245948 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
12245820 TAAATTTTTT
* * * *
12245830 TAATTATTTTAAATTTAATTTGTTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
1 TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
* *
12245890 TAATAATTTAAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTT
12245949 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATAATTTAAAAATTAATTTATTAGTAATTTAAGATTATGTTACAAATTGTTGTGTTTG
Found at i:12246312 original size:23 final size:23
Alignment explanation
Indices: 12246286--12246333 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
12246276 GTTATATAAA
* *
12246286 TTGTTAGTGTTTAGTTATGTATT
1 TTGTGAGTGTTTAGTAATGTATT
* *
12246309 TTGTGATTTTTTAGTAATGTATT
1 TTGTGAGTGTTTAGTAATGTATT
12246332 TT
1 TT
12246334 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (23 bp):
TTGTGAGTGTTTAGTAATGTATT
Found at i:12246377 original size:101 final size:103
Alignment explanation
Indices: 12246146--12246528 Score: 519
Period size: 101 Copynumber: 3.7 Consensus size: 103
12246136 TTATAGTTAT
* * * **
12246146 TTATTTTGTTAGTAATTTATGGGATTA-GAT-TACACATTGTTAGTGTTTAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTG
*
12246208 TGATTTTTTTAGTAATTTAATTTTTTTAAAATAATTTTATAG
64 TGATTTTTTTAGTAATGT-ATTTTTTT-AAATAATTTTATAG
*
12246250 TTATTTTGTTAGTAATTTATGCTTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTATTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
12246314 A-TTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
66 ATTTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
*
12246351 TTATTTTGTTAGTAATTTATTATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GTATTTTTGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTA-TTTTGT
* ***
12246415 AATTTTTTTAGTAATGTATTTTAAAAAAAATAATTTTATAG
65 GATTTTTTTAGTAATGTATTTT--TTTAAATAATTTTATAG
* **
12246456 TTATTTTGTTAGTAATTTATGATTAGATTATATAAATTGTTAGTGTTTAGTT-TAGTGCTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
12246520 ATTTTTTTA
66 ATTTTTTTA
12246529 ATGTAATTTT
Statistics
Matches: 253, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
101 69 0.27
102 19 0.08
103 34 0.13
104 62 0.25
105 69 0.27
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATAGTATTTTGTG
ATTTTTTTAGTAATGTATTTTTTTAAATAATTTTATAG
Found at i:12246499 original size:206 final size:202
Alignment explanation
Indices: 12246146--12246539 Score: 535
Period size: 206 Copynumber: 1.9 Consensus size: 202
12246136 TTATAGTTAT
* * *
12246146 TTATTTTGTTAGTAATTTATGGGATTAGATTACACATTGTTAGTGTTTAGTATAGGGTTTTGTGA
1 TTATTTTGTTAGTAATTTAT-GGATTAGATTACAAATTGTTAGTGTTTAGTATAGAGTTTTGTAA
* *** *
12246211 TTTTTTTAGTAATTTAATTTTTTTAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGCTTAG
65 TTTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAG
* * *
12246276 GTTATATAAATTGTTAGTGTTTAG-TTATGTATTTTGTGATTTTTTAGTAATGTATTTTTTTAAA
130 ATTATATAAATTGTTAGTGTTTAGTTTA-GTACTTTGTGATTTTTT--TAATGTAATTTTTTAAA
12246340 TAATTTTATAG
192 TAATTTTATAG
* * * *
12246351 TTATTTTGTTAGTAATTTAT-TATTAGGTTATATAAATTGTTAGTGTTTAGT-TATGTATTTTTG
1 TTATTTTGTTAGTAATTTATGGATTA-GAT-TACAAATTGTTAGTGTTTAGTATA-G-AGTTTTG
12246414 TAATTTTTTTAGTAATGT-ATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGA
62 TAATTTTTTTAGTAATGTAATTTT-AAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGA
*
12246478 TTAGATTATATAAATTGTTAGTGTTTAGTTTAGTGCTTTGTGATTTTTTTAATGTAATTTTT
126 TTAGATTATATAAATTGTTAGTGTTTAGTTTAGTACTTTGTGATTTTTTTAATGTAATTTTT
12246540 ATATAATGTA
Statistics
Matches: 167, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
203 4 0.02
204 16 0.10
205 45 0.27
206 99 0.59
207 3 0.02
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (202 bp):
TTATTTTGTTAGTAATTTATGGATTAGATTACAAATTGTTAGTGTTTAGTATAGAGTTTTGTAAT
TTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGA
TTATATAAATTGTTAGTGTTTAGTTTAGTACTTTGTGATTTTTTTAATGTAATTTTTTAAATAAT
TTTATAG
Found at i:12246573 original size:18 final size:18
Alignment explanation
Indices: 12246552--12246594 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12246542 ATAATGTAAT
*
12246552 TTTATTTGATAATTTTTA
1 TTTATTTGACAATTTTTA
12246570 TTTATTTGACAATTTTTA
1 TTTATTTGACAATTTTTA
*
12246588 TTGATTT
1 TTTATTT
12246595 ATTAAAACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTATTTGACAATTTTTA
Found at i:12248103 original size:132 final size:132
Alignment explanation
Indices: 12247866--12248127 Score: 488
Period size: 132 Copynumber: 2.0 Consensus size: 132
12247856 ATATACCGTT
12247866 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
1 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
*
12247931 TATCTCACTCAATCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
66 TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
12247996 CA
131 CA
*
12247998 TGATGATTGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
1 TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
* *
12248063 TATCTCACTCAACCCGTGTTAATATAATAATGTTATTAACTGTGCAGTTCATTTGGATGTCGTAT
66 TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
12248128 TTTGTTTCAG
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 126 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (132 bp):
TGATGATCGAGAATCATGTTGGAGAGGGGGTAAGTTTTTCCAATATCAACTTAATTTTATTATTT
TATCTCACTCAACCCGTGTTAATATAACAATGTTATTAACTGTGCAGTTCATTTGAATGTCGTAT
CA
Found at i:12248794 original size:19 final size:20
Alignment explanation
Indices: 12248763--12248826 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
12248753 CGTATACACT
12248763 GCCGTACTCCACTCCTCCCG
1 GCCGTACTCCACTCCTCCCG
12248783 GCCGTA-TCCA---CT----
1 GCCGTACTCCACTCCTCCCG
12248795 GCCGTACTCCACTCCTCCCG
1 GCCGTACTCCACTCCTCCCG
12248815 GCCGTA-TCCACT
1 GCCGTACTCCACT
12248827 GCCGTACTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 17
0.68 0.00 0.32
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
16 4 0.11
19 10 0.28
20 12 0.33
ACGTcount: A:0.12, C:0.50, G:0.16, T:0.22
Consensus pattern (20 bp):
GCCGTACTCCACTCCTCCCG
Found at i:12248795 original size:32 final size:32
Alignment explanation
Indices: 12248733--12248842 Score: 175
Period size: 32 Copynumber: 3.4 Consensus size: 32
12248723 ATCCACCTTA
* * * *
12248733 GTACTTCAATCCTTCCGGCCCGTATACACTGCC
1 GTACTCCACTCCTCCCGG-CCGTATCCACTGCC
12248766 GTACTCCACTCCTCCCGGCCGTATCCACTGCC
1 GTACTCCACTCCTCCCGGCCGTATCCACTGCC
12248798 GTACTCCACTCCTCCCGGCCGTATCCACTGCC
1 GTACTCCACTCCTCCCGGCCGTATCCACTGCC
12248830 GTACTCCACTCCT
1 GTACTCCACTCCT
12248843 ATCGGCTCAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 58 0.79
33 15 0.21
ACGTcount: A:0.15, C:0.46, G:0.15, T:0.25
Consensus pattern (32 bp):
GTACTCCACTCCTCCCGGCCGTATCCACTGCC
Found at i:12248800 original size:12 final size:12
Alignment explanation
Indices: 12248783--12248839 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
12248773 ACTCCTCCCG
12248783 GCCGTATCCACT
1 GCCGTATCCACT
12248795 GCCGTACTCCACT
1 GCCGTA-TCCACT
*
12248808 -CC---TCC-CG
1 GCCGTATCCACT
12248815 GCCGTATCCACT
1 GCCGTATCCACT
12248827 GCCGTACTCCACT
1 GCCGTA-TCCACT
12248840 CCTATCGGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.03
8 5 0.14
11 3 0.08
12 15 0.42
13 12 0.33
ACGTcount: A:0.14, C:0.47, G:0.16, T:0.23
Consensus pattern (12 bp):
GCCGTATCCACT
Found at i:12249209 original size:78 final size:77
Alignment explanation
Indices: 12249040--12249416 Score: 578
Period size: 78 Copynumber: 4.9 Consensus size: 77
12249030 AATAACTTCA
* * *
12249040 TATTTATGTAATAAATTTTTTGTCATTTTATTTATCAATTTTATGGGTTTTTTTTTTGCAATTTA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGG--TTTTTTTTGCAATTTA
* **
12249105 AATAGTCAACGTCA
64 AATAGTCAACTTTG
* *
12249119 TATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTTGCAATTTAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGG-TTTTTTTTGCAATTTAA
12249184 ATAGTCAACTTTG
65 ATAGTCAACTTTG
* *
12249197 TATTTATGTAATGACTTTTTTTCCATTTT-TTTATCAATTTTATGGGTTTTTTTTCCAATTTAAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
12249261 TAGTCAACTTTG
66 TAGTCAACTTTG
* * * *
12249273 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGGGGTTTTTTTACAATTTAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTAT-GGGTTTTTTTTGCAATTTAA
12249338 ATAGTCAACTTTG
65 ATAGTCAACTTTG
12249351 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTAT-GGTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
12249415 TA
66 TA
12249417 AATAAACTTT
Statistics
Matches: 277, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
76 76 0.27
77 30 0.11
78 127 0.46
79 44 0.16
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (77 bp):
TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
TAGTCAACTTTG
Found at i:12249302 original size:154 final size:155
Alignment explanation
Indices: 12249040--12249416 Score: 580
Period size: 154 Copynumber: 2.4 Consensus size: 155
12249030 AATAACTTCA
* *
12249040 TATTTATGTAATAAATTTTTTGT-CATTTTATTTATCAATTTTATGGGTTTTTTTTTTGCAATTT
1 TATTTATGTAATGACTTTTTT-TCCATTTTATTTATCAATTTTATGGG--TTTTTTTTGCAATTT
* **
12249104 AAATAGTCAACGTCATATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTTATGGGTTT
63 AAATAGTCAACGTCATATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTGATGGGGGT
*
12249169 TTTTTTGCAATTTAAATAGTCAACTTTG
128 TTTTTTACAATTTAAATAGTCAACTTTG
*
12249197 TATTTATGTAATGACTTTTTTTCCATTTT-TTTATCAATTTTATGGGTTTTTTTTCCAATTTAAA
1 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
* ** * * *
12249261 TAGTCAACTTTGTATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTGATGGGGGTTTT
66 TAGTCAACGTCATATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTGATGGGGGTTTT
12249326 TTTACAATTTAAATAGTCAACTTTG
131 TTTACAATTTAAATAGTCAACTTTG
*
12249351 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTAT-GGTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
12249415 TA
66 TA
12249417 AATAAACTTT
Statistics
Matches: 203, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
154 146 0.72
155 14 0.07
156 18 0.09
157 25 0.12
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (155 bp):
TATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTTGCAATTTAAA
TAGTCAACGTCATATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTGATGGGGGTTTT
TTTACAATTTAAATAGTCAACTTTG
Found at i:12251101 original size:106 final size:106
Alignment explanation
Indices: 12250910--12251447 Score: 841
Period size: 106 Copynumber: 5.1 Consensus size: 106
12250900 GTAACATGGA
* *
12250910 TTGAAA-TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCA-AAACCCAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAT-AGAAACCCAGCACGTTAGG
* *
12250973 GCACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
65 GCACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
12251015 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* * *
12251080 CACATTTTCTCGATTTTCCAAACGCAAAATATTGTCTTACT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* * *
12251121 TTGAAATTTTAAAAGAATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* *
12251186 CAC-GTTTCTCAAATTTCCAAACGCAAAATATTGCCTTGCT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* * *
12251226 TTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAGAAATCGAAACCCAGCACTTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* *
12251291 CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTGCT
66 CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
12251332 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCA-AAACCCAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAT-AGAAACCCAGCACGTTAGG
* * * *
12251396 GAACATTTTCTCGATTTTCCAAACGCAAAATATTGTCTTACT
65 GCACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
12251438 TTGAAATTTT
1 TTGAAATTTT
12251448 TGAATTAGAA
Statistics
Matches: 398, Mismatches: 31, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
105 103 0.26
106 295 0.74
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
CACATTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
Found at i:12251278 original size:211 final size:211
Alignment explanation
Indices: 12250910--12251447 Score: 880
Period size: 211 Copynumber: 2.5 Consensus size: 211
12250900 GTAACATGGA
*
12250910 TTGAAA-TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGG
*
12250974 CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCTTTGAAATTTTAAAAGGATATTTGG
66 CACG-TTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGG
* * *
12251039 CTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGATTTTCCAAACG
130 CTATTTCGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACG
*
12251104 CAAAATATTGTCTTACT
195 CAAAATATTGCCTTACT
* *
12251121 TTGAAATTTTAAAAGAATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGG
*
12251186 CACGTTTCTCAAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGC
66 CACGTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGC
* * *
12251251 TATTTCGTCGAACGAGAAATCGAAACCCAGCACTTTAGGGCACGTTTTCTCGAATTTACAAACGC
131 TATTTCGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACGC
*
12251316 AAAATATTGCCTTGCT
196 AAAATATTGCCTTACT
*
12251332 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGG
* * * * *
12251397 AACATTTTCTCGATTTTCCAAACGCAAAATATTGTCTTACTTTGAAATTTT
66 CAC-GTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTT
12251448 TGAATTAGAA
Statistics
Matches: 303, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
211 202 0.67
212 101 0.33
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (211 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACGTTAGGG
CACGTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGGATATTTGGC
TATTTCGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTACAAACGC
AAAATATTGCCTTACT
Found at i:12252884 original size:22 final size:20
Alignment explanation
Indices: 12252845--12252885 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
12252835 TCTCTAATCA
12252845 TTATTTTTTTTGTCGTTTTG
1 TTATTTTTTTTGTCGTTTTG
*
12252865 TTATTTGTTTGTTGTTGTTTT
1 TTATTT-TTT-TTGTCGTTTT
12252886 TTTGTTTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.05, C:0.02, G:0.17, T:0.76
Consensus pattern (20 bp):
TTATTTTTTTTGTCGTTTTG
Found at i:12253606 original size:44 final size:45
Alignment explanation
Indices: 12253546--12253658 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 45
12253536 ATTTTAATCC
* * * *
12253546 GCTCCATTGCAGCTTCAGGGAGATATG-ATTAATAGCTTAAATCT
1 GCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTAAACCT
* * ** * *
12253590 GCTCCGCTGCAACTTCAGAGAGAT-GGAATTGGTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTAAACCT
12253634 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
12253659 AGGCTTGATG
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAGGAATTAATAGCTTAAACCT
Found at i:12253724 original size:85 final size:85
Alignment explanation
Indices: 12253537--12254259 Score: 306
Period size: 85 Copynumber: 8.4 Consensus size: 85
12253527 GGATTCATCA
* * * * * *
12253537 TTTTAATCCGCTCCATTGCAGCTTCAGGGAGATATGA-TTAATAGCTTAAATCTGCTCCGCTGCA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTGCA
* *
12253601 ACTTCAGAGAGAT-GGA-AT-TGG
62 ACTTCAGAGAGATAAGATCTGTGG
* * *
12253622 TATCTTCAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGATGCGATCTACTCTACTGCA
1 T-T-TT-AATCC-GCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCCACTGCA
12253686 ACTTCAGAGAGATAAGATCTGTGG
62 ACTTCAGAGAGATAAGATCTGTGG
* * * * * *
12253710 TTTTAATCCCCTCCACTGCAACTTCAGGCAGATAGGA-TTGGTTTCTTCTG-TCTGCTCCACTAC
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTT-G---ATGC-GATCTGCTCCACTGC
*
12253773 AACTTCAGGGAGATAAGA-C--TGG
61 AACTTCAGAGAGATAAGATCTGTGG
* *** ** * * * * * *
12253795 ATACGATCTACTCTACTGTAACTTCAGAGAGATAATATTTG-TG-GTTTTAATCTGCTCCACTGT
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCG-----ATCTGCTCCACTGC
* * * *
12253858 AACTTTAGGGAGATAGGAT-TG-GT
61 AACTTCAGAGAGATAAGATCTGTGG
** * * * *
12253881 TTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAAC
1 TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCCACTGCAAC
12253946 TTCAGAGAGATAAGATCTGTGG
64 TTCAGAGAGATAAGATCTGTGG
* * * * * *
12253968 TTTTAATCCGCTCCACCGCAACTTCAGAGAGATAGGA-TTGGTTTCTTCTG-TCTACTCCACTGC
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTT-G---ATGC-GATCTGCTCCACTGC
12254031 AACTTCA-AGGAGATAAGA-C--TGG
61 AACTTCAGA-GAGATAAGATCTGTGG
* *** ** * * * *** * *
12254053 ATGCGATCTACTCTACTGCAACTTCAGATG-GATAAGATCTGTGGTTTTAATCCGCTCCACTGTA
1 TTTTAATCCGCTCCACTGCAACTTCAG-GGAGATAAGA-CT-T-GATGCGATCTGCTCCACTGCA
* * *
12254117 ACTTCAGGGAGATAGGAT-TG-GT
62 ACTTCAGAGAGATAAGATCTGTGG
** * * * * *
12254139 TTCTTCTGTCCGCTCTACTGCAACTTTAGGGAGATAAGA-TTGGATGCGATTTTCTCTACTGCAA
1 TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTT-GATGCGATCTGCTCCACTGCAA
* *
12254203 CTTAAGAGAGATAAGATCTATGG
63 CTTCAGAGAGATAAGATCTGTGG
* * *
12254226 TTTTAATCCGCTTCACTACAATTTCAGGGAGATA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
12254260 GGATTGACTT
Statistics
Matches: 470, Mismatches: 118, Indels: 100
0.68 0.17 0.15
Matches are distributed among these distances:
79 1 0.00
81 1 0.00
84 3 0.01
85 272 0.58
86 22 0.05
87 17 0.04
88 145 0.31
89 8 0.02
90 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCCACTGCAACTT
CAGAGAGATAAGATCTGTGG
Found at i:12253733 original size:44 final size:44
Alignment explanation
Indices: 12253585--12254359 Score: 323
Period size: 44 Copynumber: 18.0 Consensus size: 44
12253575 TAATAGCTTA
* * *
12253585 AATCTGCTCCGCTGCAACTTCAGAGAGAT-GGA-AT-TGGTATCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT-T-TT
* * * * **
12253628 CAACCTGCTCCACTGCAACTTCAGGGAGATAAG-GCT-T-GATGC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
12253670 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
** * *
12253714 AATCCCCTCCACTGCAACTTCAG-GCAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCTGTGGTT-TT
** * * * **
12253757 CTGTCTGCTCCACTACAACTTCAGGGAGATAAGA-C--TGGATAC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * * *
12253799 GATCTACTCTACTGTAACTTCAGAGAGATAATATTTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * *
12253843 AATCTGCTCCACTGTAACTTTAGGGAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
** * * *
12253886 CTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* *
12253928 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * *
12253972 AATCCGCTCCACCGCAACTTCAGAGAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
** * * **
12254015 CTGTCTACTCCACTGCAACTTCA-AGGAGATAAGA-C--TGGATGC
1 -AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTGGTTTT
* * *
12254057 GATCTACTCTACTGCAACTTCAGATG-GATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTGGTTTT
* * * * *
12254101 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TG-GTTTCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT
** * * * * *
12254144 CTGTCCGCTCTACTGCAACTTTAGGGAGATAAGAT-TGGATGCGATTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-G-TG-GTTTT
* *
12254191 --TCT-CT--ACTGCAACTTAAGAGAGATAAGATCTATGGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * * * * ** *
12254230 AATCCGCTTCACTACAATTTCAGGGAGATAGGAT-TG-ACTTCT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * **
12254272 --TCTGCCTGTCCCACTGCAACTTCAGGGAGATAAGA-C--TGGATAC
1 AATCTG-C--T-CCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * *
12254315 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAGTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
12254359 A
1 A
12254360 CCGATCTTTT
Statistics
Matches: 538, Mismatches: 139, Indels: 108
0.69 0.18 0.14
Matches are distributed among these distances:
39 4 0.01
40 5 0.01
41 154 0.29
42 27 0.05
43 32 0.06
44 303 0.56
45 9 0.02
47 3 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:12253788 original size:129 final size:129
Alignment explanation
Indices: 12253585--12254359 Score: 1106
Period size: 129 Copynumber: 6.0 Consensus size: 129
12253575 TAATAGCTTA
* * * * ***
12253585 AATCTGCTCCGCTGCAACTTCAGAGAGAT-GGAATTGGTATCTTCAACCTGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGG-ATTGGTTTCTTCTGTCTGCTCCACTGCAACTT
* *
12253649 CAGGGAGATAAGGCTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
65 CAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
12253714 AATCCCCTCCACTGCAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * *
12253779 AGGGAGATAAGACTGGATACGATCTACTCTACTGTAACTTCAGAGAGATAATATTTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
12253843 AATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* *
12253908 AGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
12253972 AATCCGCTCCACCGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
*
12254037 AAGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGATG-GATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGA-GAGATAAGATCTGTGGTTTT
* * * *
12254101 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCCGCTCTACTGCAACTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
* * * * *
12254166 AGGGAGATAAGATTGGATGCGATTTTCTCTACTGCAACTTAAGAGAGATAAGATCTATGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * * ** *
12254230 AATCCGCTTCACTACAATTTCAGGGAGATAGGATTGACTTCTTCTGCCTG-TCCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCT-CCACTGCAACTT
* * * *
12254294 CAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAGTTTT
65 CAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
12254359 A
1 A
12254360 CCGATCTTTT
Statistics
Matches: 575, Mismatches: 67, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
128 2 0.00
129 570 0.99
130 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:12259099 original size:24 final size:24
Alignment explanation
Indices: 12259072--12259122 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
12259062 GCCTTCTACC
12259072 TCTCTTGCCTCATTTCCAACTCTT
1 TCTCTTGCCTCATTTCCAACTCTT
12259096 TCTCTTGCCTCATTTCCAACTCTT
1 TCTCTTGCCTCATTTCCAACTCTT
12259120 TCT
1 TCT
12259123 TTCTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.37, G:0.04, T:0.47
Consensus pattern (24 bp):
TCTCTTGCCTCATTTCCAACTCTT
Found at i:12260799 original size:22 final size:22
Alignment explanation
Indices: 12260773--12260817 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12260763 TTTTAATAAA
12260773 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
12260795 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
12260817 A
1 A
12260818 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:12265399 original size:22 final size:22
Alignment explanation
Indices: 12265374--12265418 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12265364 TTTAATAAAA
12265374 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
12265396 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
12265418 A
1 A
12265419 CAAGACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:12269708 original size:15 final size:15
Alignment explanation
Indices: 12269690--12269721 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12269680 AAATAACGTA
12269690 GACATACAAAACGAT
1 GACATACAAAACGAT
12269705 GACATACAAAACGAT
1 GACATACAAAACGAT
12269720 GA
1 GA
12269722 AGACTATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (15 bp):
GACATACAAAACGAT
Found at i:12270453 original size:106 final size:106
Alignment explanation
Indices: 12270262--12270800 Score: 846
Period size: 106 Copynumber: 5.1 Consensus size: 106
12270252 ATAACATGGA
* * *
12270262 TTGAAA-TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAACACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
** *
12270326 CACGTTTTCTCGAATTTCCAAACATAAAATATTACCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
*
12270367 TTGAAATTTTAAAAGGATATTTGGCTATTTCGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * *
12270432 CACGTTTTCTCGATTTTCCAAAGGCAAAATATTGCCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* *
12270473 TTGAAATTTTAAAACGATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* *
12270538 CACGTTATCTCGAATTTCCAAACGTAAAATATTGCCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* *
12270579 TTGAAATTTTGAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
**
12270644 CACGTTTTCTCGAATTTCTGAACGCAAAATATTGCCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
* * *
12270685 TTGAAATTTTAAAATGATATTTGACTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * * *
12270750 CACGTTTTCTCGATTTTACAAACGCAAAATATTGTCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
12270791 TTGAAATTTT
1 TTGAAATTTT
12270801 TCAATTAGAA
Statistics
Matches: 396, Mismatches: 37, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
105 6 0.02
106 390 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTGCT
Found at i:12280560 original size:17 final size:17
Alignment explanation
Indices: 12280538--12280576 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
12280528 TATAATTAAT
12280538 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
12280555 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
*
12280572 CTTAA
1 TTTAA
12280577 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATTTTAATATA
Found at i:12280675 original size:146 final size:152
Alignment explanation
Indices: 12280504--12280789 Score: 359
Period size: 146 Copynumber: 1.9 Consensus size: 152
12280494 TTCTAAAAGT
** * * *
12280504 TTAAATATATTAAAAAATATTAAGTATAATTAATTTTAAAAT-TTTAATA-TATTTAAAATTTTA
1 TTAAATATATTAAAAAATATTAAGTATAACAAATTTTAAAATATTCAATATTATTTAAAAATGTA
* *
12280567 ATAT-ACTTAAT-ATATATTTTTAATAGGTAAAGACAAAAAA-A-TTCGTAATATATTTAAAATT
66 ATATAAATTAATAATAGATTTTTAATAGGTAAAGACAAAAAAGATTTCGTAATATATTTAAAATT
12280628 TTAAAAAATATATTTTAAAAAA
131 TTAAAAAATATATTTTAAAAAA
* * *
12280650 TTAAATATATTAAAAAATGTTAAGTATAACAAATTTTAATATATTCAATATCTTTTTTAAAAATG
1 TTAAATATATTAAAAAATATTAAGTATAACAAATTTTAAAATATTCAATA--TTATTTAAAAATG
* * ** * **
12280715 TATTTTAAATTTTTAATAGATTTTTAATAGGTAAAGAGAAAAAAGATTTTTTAATATATTTAAAA
64 TAATATAAATTAATAATAGATTTTTAATAGGTAAAGACAAAAAAGATTTCGTAATATATTTAAAA
12280780 TTTTAAAAAA
129 TTTTAAAAAA
12280790 CACAAAAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
146 38 0.33
147 6 0.05
150 13 0.11
151 4 0.03
152 27 0.23
153 1 0.01
154 26 0.23
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (152 bp):
TTAAATATATTAAAAAATATTAAGTATAACAAATTTTAAAATATTCAATATTATTTAAAAATGTA
ATATAAATTAATAATAGATTTTTAATAGGTAAAGACAAAAAAGATTTCGTAATATATTTAAAATT
TTAAAAAATATATTTTAAAAAA
Found at i:12280821 original size:17 final size:17
Alignment explanation
Indices: 12280796--12280832 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12280786 AAAACACAAA
12280796 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
* *
12280813 AAAATTTTAAATATGTT
1 AAAAATTTAAATATATT
12280830 AAA
1 AAA
12280833 GAAAATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:12280888 original size:70 final size:68
Alignment explanation
Indices: 12280805--12280950 Score: 195
Period size: 70 Copynumber: 2.1 Consensus size: 68
12280795 AAAAAATTTA
* * * *
12280805 AATATATTAAAATTTTAAATATGTTAAAGAAAATGTTGAGTATAA-CATATTTTAAAATTTTAAT
1 AATATATTAAAATTTTAAACATGTTAAAAAAAAT-TTAAGTATAACCA-AATTTAAAATTTTAAT
12280869 ATACTT
64 AT-CTT
* *
12280875 AATATATTAAAATTTTGAACATTTTAAAAAAAATTTAAGTATAACCAAATTTAAAATTTTAATAT
1 AATATATTAAAATTTTAAACATGTTAAAAAAAATTTAAGTATAACCAAATTTAAAATTTTAATAT
*
12280940 TTT
66 CTT
12280943 AATATATT
1 AATATATT
12280951 TTTTAATAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
68 10 0.15
69 26 0.38
70 32 0.47
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (68 bp):
AATATATTAAAATTTTAAACATGTTAAAAAAAATTTAAGTATAACCAAATTTAAAATTTTAATAT
CTT
Found at i:12281127 original size:9 final size:9
Alignment explanation
Indices: 12281115--12281213 Score: 54
Period size: 9 Copynumber: 11.2 Consensus size: 9
12281105 TAATTTCTTA
12281115 AAATATTTT
1 AAATATTTT
12281124 AAATATTTT
1 AAATATTTT
12281133 AAA-ATTTT
1 AAATATTTT
12281141 AAA-ATTAGTT
1 AAATATT--TT
12281151 --ATA-TTT
1 AAATATTTT
12281157 AACAT-TTTCT
1 AA-ATATTT-T
12281167 -AATATATTT
1 AAATAT-TTT
*
12281176 AAATTTTTTT
1 AAA-TATTTT
12281186 AAA-ATTTTT
1 AAATA-TTTT
12281195 AAA-ATTTT
1 AAATATTTT
*
12281203 AAATATATT
1 AAATATTTT
12281212 AA
1 AA
12281214 GAAAATCTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 28
0.70 0.03 0.27
Matches are distributed among these distances:
6 2 0.03
8 22 0.30
9 34 0.47
10 13 0.18
11 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (9 bp):
AAATATTTT
Found at i:12281129 original size:71 final size:71
Alignment explanation
Indices: 12281054--12281205 Score: 202
Period size: 71 Copynumber: 2.2 Consensus size: 71
12281044 AAAAATATTG
* * *
12281054 AATATATTAAAAAATTAAAATTGGTTATACTTAACATTTTTTTAATATATTT-AA-TTTCTTAAA
1 AATATTTTAAAAAATTAAAATTAGTTATACTTAACA-TTTTCTAATATATTTAAATTTTCTTAAA
12281117 ATATTTTA
65 AT-TTTTA
** * *
12281125 AATATTTTAAAATTTTAAAATTAGTTATATTTAACATTTTCTAATATATTTAAATTTTTTTAAAA
1 AATATTTTAAAAAATTAAAATTAGTTATACTTAACATTTTCTAATATATTTAAATTTTCTTAAAA
12281190 TTTTTA
66 TTTTTA
12281196 AA-ATTTTAAA
1 AATATTTTAAA
12281206 TATATTAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
70 22 0.31
71 40 0.56
72 10 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (71 bp):
AATATTTTAAAAAATTAAAATTAGTTATACTTAACATTTTCTAATATATTTAAATTTTCTTAAAA
TTTTTA
Found at i:12281183 original size:19 final size:17
Alignment explanation
Indices: 12281092--12281211 Score: 68
Period size: 19 Copynumber: 6.8 Consensus size: 17
12281082 ACTTAACATT
12281092 TTTTTAATATATTT-AA
1 TTTTTAATATATTTAAA
*
12281108 TTTCTTAAAATATTTTAAA
1 TTT-TTAATATA-TTTAAA
*
12281127 TATTTTAAAAT-TTTAAA
1 T-TTTTAATATATTTAAA
* *
12281144 --ATTAGTTATATTTAACA
1 TTTTTA-ATATATTTAA-A
12281161 TTTTCTAATATATTTAAA
1 TTTT-TAATATATTTAAA
* *
12281179 TTTTTTTAAAATTTTTAAAA
1 --TTTTTAATATATTT-AAA
*
12281199 TTTTAAATATATT
1 TTTTTAATATATT
12281212 AAGAAAATCT
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 3 0.04
15 2 0.03
16 8 0.10
17 14 0.17
18 14 0.17
19 28 0.35
20 11 0.14
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:12289193 original size:2 final size:2
Alignment explanation
Indices: 12289186--12289217 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12289176 AAAGGAAATA
12289186 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12289218 CAGACGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12290320 original size:18 final size:19
Alignment explanation
Indices: 12290281--12290318 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12290271 ATTTAAAAAA
12290281 TAAATATTATCAATTTTTT
1 TAAATATTATCAATTTTTT
*
12290300 TAAATGTTATCAATTTTTT
1 TAAATATTATCAATTTTTT
12290319 AAGTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TAAATATTATCAATTTTTT
Found at i:12290860 original size:24 final size:24
Alignment explanation
Indices: 12290833--12290884 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12290823 TTTCTAGAAG
* **
12290833 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
12290857 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
12290881 ATTT
1 ATTT
12290885 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:12298488 original size:24 final size:24
Alignment explanation
Indices: 12298425--12298476 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12298415 TTTTTAGAAG
* * *
12298425 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
12298449 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
12298473 ATTT
1 ATTT
12298477 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:12299109 original size:22 final size:23
Alignment explanation
Indices: 12299084--12299126 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12299074 ATTATGATCT
*
12299084 TTTAA-TTTTATAATATATTTAG
1 TTTAATTTTTATAAAATATTTAG
12299106 TTTAATTTTTATAAAATATTT
1 TTTAATTTTTATAAAATATTT
12299127 GAAACAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTTTTATAAAATATTTAG
Found at i:12301326 original size:75 final size:73
Alignment explanation
Indices: 12301184--12301333 Score: 167
Period size: 73 Copynumber: 2.0 Consensus size: 73
12301174 TTTTAAGAAT
* * * * **
12301184 TAACACTATTATGCCAAAGTACCAAAGTGATGTACAGAAAAAAACATAAGTATCAAAATGAACAA
1 TAACACCATTAGGCCAAAGTACCAAAGTGATATACAGAAAAAAACATAAGTACCAAAACAAACAA
12301249 ATTAAAAG
66 ATTAAAAG
* **
12301257 TAACACCATTAGGCCAGAA-TATCAAAGTGATATACGAGAAATAAAGTATAAGTACCAAAACAAA
1 TAACACCATTAGGCCA-AAGTACCAAAGTGATATAC-AGAAA-AAAACATAAGTACCAAAACAAA
* *
12301321 TAAATTGAAAG
63 CAAATTAAAAG
12301332 TA
1 TA
12301334 CAAATATCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 28 0.44
74 7 0.11
75 28 0.44
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (73 bp):
TAACACCATTAGGCCAAAGTACCAAAGTGATATACAGAAAAAAACATAAGTACCAAAACAAACAA
ATTAAAAG
Found at i:12303194 original size:33 final size:33
Alignment explanation
Indices: 12303153--12303221 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
12303143 ATAAAAATGG
*
12303153 TATTTAAATAATCTAATATAATGATACATGAAA
1 TATTTAAATAATCTAATATAATGATACATAAAA
** * *
12303186 TATTTAAATGGTTTGATATAATGATACATAAAA
1 TATTTAAATAATCTAATATAATGATACATAAAA
12303219 TAT
1 TAT
12303222 AAATTAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (33 bp):
TATTTAAATAATCTAATATAATGATACATAAAA
Found at i:12303857 original size:21 final size:23
Alignment explanation
Indices: 12303831--12303873 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12303821 GGTTTTTTTT
12303831 ATCAAAAT-AT-TACAAAAAAAA
1 ATCAAAATAATATACAAAAAAAA
12303852 ATCAAAATAATATACAAAAAAA
1 ATCAAAATAATATACAAAAAAA
12303874 TTTAATTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (23 bp):
ATCAAAATAATATACAAAAAAAA
Found at i:12303874 original size:21 final size:21
Alignment explanation
Indices: 12303831--12303874 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12303821 GGTTTTTTTT
*
12303831 ATCAAAATATTACAAAAAAAA
1 ATCAAAATAATACAAAAAAAA
* *
12303852 ATCAAAATAATATACAAAAAA
1 ATCAAAATAATACAAAAAAAA
12303873 AT
1 AT
12303875 TTAATTACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (21 bp):
ATCAAAATAATACAAAAAAAA
Found at i:12305101 original size:22 final size:21
Alignment explanation
Indices: 12305075--12305402 Score: 253
Period size: 22 Copynumber: 15.1 Consensus size: 21
12305065 TAGATTAGAA
*
12305075 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTGTAA-TT
*
12305097 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
12305118 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
12305136 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
12305157 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
12305179 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
12305200 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
12305219 TTTTGTATGAATATTATAATTT
1 TTTTGTATGAATATTGTAA-TT
12305241 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
12305266 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
12305290 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
* *
12305309 TTTTGTATGAATATTATATTTT
1 TTTTGTATGAATATTGTA-ATT
12305331 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
**
12305356 AATTTTGTATGAATATTACAATTT
1 --TTTTGTATGAATATTGTAA-TT
12305380 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
12305401 TT
1 TT
12305403 GTAATTTTGT
Statistics
Matches: 250, Mismatches: 30, Indels: 53
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.01
19 49 0.20
20 21 0.08
21 25 0.10
22 94 0.38
23 11 0.04
24 6 0.02
25 8 0.03
26 2 0.01
27 31 0.12
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:12305146 original size:19 final size:19
Alignment explanation
Indices: 12305099--12305155 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
12305089 TTTAACTTTT
* *
12305099 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
12305119 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
12305138 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
12305156 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:12305262 original size:49 final size:49
Alignment explanation
Indices: 12305209--12305479 Score: 305
Period size: 49 Copynumber: 5.7 Consensus size: 49
12305199 TTTTTGTATG
12305209 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
* * **
12305258 AATATTATAGTTTTGTATGAATATTGCAA--TTTTT-T-TG--TA-TG-
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
*
12305299 AATATTGTAATTTTGTATGAATATTATATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
* *
12305348 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
* * * * ** *
12305397 AATTTTGTAATTTTGTATGAATACTGTAA--TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
*
12305442 AATATTGTAATTTTTTGTATGAATATTATAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTATAATTTTTTT
12305480 ATAATTAATT
Statistics
Matches: 182, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
41 24 0.13
42 2 0.01
43 7 0.04
44 1 0.01
45 20 0.11
46 1 0.01
47 29 0.16
48 2 0.01
49 96 0.53
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
Found at i:12305277 original size:27 final size:24
Alignment explanation
Indices: 12305219--12305426 Score: 183
Period size: 22 Copynumber: 8.8 Consensus size: 24
12305209 AATATTGTAA
*
12305219 TTTTGTATGAATATTAT-A-ATTT
1 TTTTGTATGAATATTGTAATATTT
12305241 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
12305266 AGTTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
12305290 TTTTGTATGAATATTGT-A-A---
1 TTTTGTATGAATATTGTAATATTT
*
12305309 TTTTGTATGAATATTAT-AT-TTT
1 TTTTGTATGAATATTGTAATATTT
12305331 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
12305356 AATTTTGTATGAATA-T-TACA-ATTT
1 --TTTTGTATGAATATTGTA-ATATTT
*
12305380 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAATATT-T
*
12305405 AATTTTGTATGAATACTGTAAT
1 --TTTTGTATGAATATTGTAAT
12305427 GTGGGGATAT
Statistics
Matches: 158, Mismatches: 6, Indels: 39
0.78 0.03 0.19
Matches are distributed among these distances:
19 17 0.11
22 63 0.40
23 5 0.03
24 11 0.07
25 11 0.07
26 3 0.02
27 48 0.30
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTTGTATGAATATTGTAATATTT
Found at i:12305298 original size:90 final size:89
Alignment explanation
Indices: 12305097--12305405 Score: 420
Period size: 90 Copynumber: 3.5 Consensus size: 89
12305087 ATTTTAACTT
* * * *
12305097 TTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATTATTT
1 TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
* *
12305161 TATAATTAA-ATTTGT-AT-TTATAG
66 TGT-ATGAATA-TTGTAATATTATAG
* *
12305184 TTTTG---GATTAGT--AATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
1 TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
12305244 TGTATGAATATTGTAATATTATAG
66 TGTATGAATATTGTAATATTATAG
* *
12305268 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTATATTTTTT
1 TTTTGTATGAATATTACAA-TTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTT
*
12305333 TTGTATGAATATTGTAATATTATAA
65 TTGTATGAATATTGTAATATTATAG
12305358 TTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATTTTGTA
1 TTTTGTATGAATATTACAA-TTTTTTGTATGAATATTGTAATTTTGTA
12305406 ATTTTGTATG
Statistics
Matches: 200, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
82 16 0.08
83 41 0.20
84 16 0.08
87 10 0.05
89 2 0.01
90 115 0.57
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (89 bp):
TTTTGTATGAATATTACAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTT
TGTATGAATATTGTAATATTATAG
Found at i:12305352 original size:30 final size:27
Alignment explanation
Indices: 12305331--12305426 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
12305321 ATTATATTTT
*
12305331 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAG
12305358 TTTTGTATGAATA-T-TACA-ATT-T--
1 TTTTGTATGAATATTGTA-ATATTATAG
* * *
12305380 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAG
*
12305407 TTTTGTATGAATACTGTAAT
1 TTTTGTATGAATATTGTAAT
12305427 GTGGGGATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
22 13 0.22
23 2 0.03
24 5 0.08
25 6 0.10
26 2 0.03
27 32 0.53
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAG
Found at i:12305548 original size:60 final size:60
Alignment explanation
Indices: 12305470--12305588 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
12305460 ATGAATATTA
* * * * * *
12305470 TAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
*
12305530 TAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGTTT
1 TAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTT
12305589 AGTTTAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 6 0.12
60 45 0.88
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTG
Found at i:12305667 original size:38 final size:38
Alignment explanation
Indices: 12305622--12305703 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
12305612 CATATAAAGT
12305622 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
12305660 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
12305698 TTATAA
1 TTATAA
12305704 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:12305781 original size:15 final size:15
Alignment explanation
Indices: 12305740--12305781 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
12305730 GTTAACTCAT
*
12305740 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
12305755 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
12305771 TTAAATTTTAT
1 TTAAATTTTAT
12305782 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:12310781 original size:22 final size:21
Alignment explanation
Indices: 12310746--12310790 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
12310736 TACCTAATTT
* *
12310746 TTTTCTTCTTTTCCTTCTTTC
1 TTTTCTTCTCTTCCTTCATTC
12310767 TTTTCTTCTGCTTCCTTCATTC
1 TTTTCTTCT-CTTCCTTCATTC
12310789 TT
1 TT
12310791 ATTTCTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCATTC
Found at i:12310905 original size:27 final size:27
Alignment explanation
Indices: 12310875--12310931 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
12310865 CTCTCAGAAT
* *
12310875 GGCACCACCATTGGCGCCTTCCAGGTA
1 GGCACCACCATTGGCACCTTCCAGATA
12310902 GGCACCACCATTGGCACCTTCCAGATA
1 GGCACCACCATTGGCACCTTCCAGATA
12310929 GGC
1 GGC
12310932 GCCAATACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.18
Consensus pattern (27 bp):
GGCACCACCATTGGCACCTTCCAGATA
Found at i:12315392 original size:36 final size:35
Alignment explanation
Indices: 12315343--12315435 Score: 138
Period size: 36 Copynumber: 2.7 Consensus size: 35
12315333 CTTACATCGG
*
12315343 TGTAAGTCAATATTGATAAGGGACAAATGTTGTGT
1 TGTAAGTCAATATTGATAAGGGACAAATGATGTGT
12315378 TGTTAAGTCAATATTGATAAGGGACAAATGATGTGT
1 TG-TAAGTCAATATTGATAAGGGACAAATGATGTGT
12315414 TGT--G-CAAGTATTGATAAGGGAC
1 TGTAAGTCAA-TATTGATAAGGGAC
12315436 CAACTGAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
32 3 0.05
33 15 0.27
35 3 0.05
36 34 0.62
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.32
Consensus pattern (35 bp):
TGTAAGTCAATATTGATAAGGGACAAATGATGTGT
Found at i:12315500 original size:20 final size:20
Alignment explanation
Indices: 12315471--12315586 Score: 63
Period size: 21 Copynumber: 5.7 Consensus size: 20
12315461 TGTTGGAGTT
12315471 TGAATCGATTTAAACAAGAA
1 TGAATCGATTTAAACAAGAA
* * *
12315491 TGAATTGATTCAAACAATAA
1 TGAATCGATTTAAACAAGAA
** * *
12315511 TG-ATTTAATTAAAGAAGCAA
1 TGAATCGATTTAAACAAG-AA
* *
12315531 AGAATCGATTTAAAACAACAA
1 TGAATCGATTT-AAACAAGAA
** * *
12315552 ACAATCGATTCAAATAAGTAA
1 TGAATCGATTTAAACAAG-AA
* *
12315573 AGAATCAATTTAAA
1 TGAATCGATTTAAA
12315587 ACAACAAATA
Statistics
Matches: 71, Mismatches: 21, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
19 10 0.14
20 27 0.38
21 29 0.41
22 5 0.07
ACGTcount: A:0.53, C:0.10, G:0.11, T:0.26
Consensus pattern (20 bp):
TGAATCGATTTAAACAAGAA
Found at i:12315543 original size:21 final size:20
Alignment explanation
Indices: 12315519--12315587 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
12315509 AATGATTTAA
12315519 TTAAAGAAGCAAAGAATCGAT
1 TTAAA-AAGCAAAGAATCGAT
* *
12315540 TTAAAACAACAAACAATCGAT
1 TTAAAA-AGCAAAGAATCGAT
* * *
12315561 TCAAATAAGTAAAGAATCAAT
1 TTAAA-AAGCAAAGAATCGAT
12315582 TTAAAA
1 TTAAAA
12315588 CAACAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (20 bp):
TTAAAAAGCAAAGAATCGAT
Found at i:12315782 original size:20 final size:19
Alignment explanation
Indices: 12315757--12315887 Score: 84
Period size: 20 Copynumber: 6.5 Consensus size: 19
12315747 GTTGGAGTTT
12315757 GAATCGAGTTAAACAATAAA
1 GAATCGA-TTAAACAATAAA
* *
12315777 GAATCGATTCAAATAATAAT
1 GAATCGATT-AAACAATAAA
* *
12315797 GAATCGATTAAAGAAGCAAA
1 GAATCGATTAAACAA-TAAA
*
12315817 GAATCGATTTAAAACAACAAA
1 GAATCGA-TT-AAACAATAAA
* * * *
12315838 TAATTGATTAAAGTAAGCAAA
1 GAATCGATTAAA-CAA-TAAA
12315859 GAATCGATTTAAAACAA-AAA
1 GAATCGA-TT-AAACAATAAA
*
12315879 AAATCGATT
1 GAATCGATT
12315888 CAAAGACGAA
Statistics
Matches: 90, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
19 12 0.13
20 46 0.51
21 20 0.22
22 9 0.10
23 3 0.03
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (19 bp):
GAATCGATTAAACAATAAA
Found at i:12315818 original size:40 final size:41
Alignment explanation
Indices: 12315756--12315920 Score: 142
Period size: 41 Copynumber: 4.0 Consensus size: 41
12315746 TGTTGGAGTT
* * * * *
12315756 TGAATCGAGTTAAACAA-TAAAGAATCGATTCAAATAA-TAA
1 TGAATCGA-TTAAAGAAGCAAAGAATCGATTAAAACAACAAA
12315796 TGAATCGATTAAAGAAGCAAAGAATCGATTTAAAACAACAAA
1 TGAATCGATTAAAGAAGCAAAGAATCGA-TTAAAACAACAAA
*
12315838 T-AATTGATTAAAGTAAGCAAAGAATCGATTTAAAACAA-AAA
1 TGAATCGATTAAAG-AAGCAAAGAATCGA-TTAAAACAACAAA
* * * **
12315879 -AAATCGATTCAAAGACGAAAAGAATTAATTTAAAACAACAAA
1 TGAATCGATT-AAAGAAGCAAAGAATCGA-TTAAAACAACAAA
12315921 CAAACCTAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
39 7 0.07
40 18 0.17
41 48 0.45
42 34 0.32
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (41 bp):
TGAATCGATTAAAGAAGCAAAGAATCGATTAAAACAACAAA
Done.