Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 212 of 216
Found at i:65634603 original size:142 final size:140
Alignment explanation
Indices: 65634184--65634603 Score: 422
Period size: 141 Copynumber: 3.0 Consensus size: 140
65634174 AAAAATTTGG
* * *
65634184 GCACCATATTCAAGCCCAAGTACCCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATC
1 GCACCATACTAAAGCCCAAGTGCCCCG-AAATGAAATATAATAAATAATAATTTTTATA-TTATC
** ** * * * *
65634249 -CTGAAAATTAAAAAAA-CAAGCATCACCGTACTCAAGCCCAAGTGCCTCAAAAAATGAAATGTA
64 TCAAAAAATTAAAAAAATTTAGCA-CACCATACTCAAGCCCAAATGCCTCAGAAAATGAAATATA
65634312 ATAAATAATTTTA
128 ATAAATAATTTTA
* * * * *
65634325 GCACCATACTCAAGCACAAGTGCCCCCGAAATAAAATATAATACATAATAATTTTTACAATTATC
1 GCACCATACTAAAGCCCAAGTG-CCCCGAAATGAAATATAATAAATAATAATTTTTA-TATTATC
** * * * * * *
65634390 TTGGAAAAATAAAAAAAATTTGGGA-ACCATACTCAAACTCAAATGCC-CTGAAAATGAAATATA
64 -TCAAAAAATTAAAAAAATTTAGCACACCATACTCAAGCCCAAATGCCTCAGAAAATGAAATATA
65634453 ATAAATAATTGTTA
128 ATAAATAATT-TTA
*
65634467 -CACCGTACTAAAGCCCAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTATATTATCT
1 GCACCATACTAAAGCCCAAGTGCCCCGAAA-TGAAATATAATAAATAATAATTTTTATATTATCT
* * * * *
65634530 CAAAAAATTAAAAAATATTTTTGTACCACCATAATCAAGCCCAAATACCTC-GAAAATGAGATAT
65 CAAAAAATTAAAAAA-A-TTTAGCA-CACCATACTCAAGCCCAAATGCCTCAGAAAATGAAATAT
65634594 AATAAATAAT
127 AATAAATAAT
65634604 ATTTTTTACA
Statistics
Matches: 230, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
138 13 0.06
139 7 0.03
140 18 0.08
141 110 0.48
142 67 0.29
143 13 0.06
144 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (140 bp):
GCACCATACTAAAGCCCAAGTGCCCCGAAATGAAATATAATAAATAATAATTTTTATATTATCTC
AAAAAATTAAAAAAATTTAGCACACCATACTCAAGCCCAAATGCCTCAGAAAATGAAATATAATA
AATAATTTTA
Found at i:65634820 original size:92 final size:93
Alignment explanation
Indices: 65634477--65635176 Score: 417
Period size: 94 Copynumber: 7.6 Consensus size: 93
65634467 CACCGTACTA
* ** * * *
65634477 AAGCCCAAGTGCCCCGAAATTGAAATATAATAAATAATA-ATTTTATA-TTATCTCAAAAAATT-
1 AAGCCCAAATGCCATGAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATTA
*
65634539 AAA-AAATATTTTT-GTACCACCATA-ATC
66 AAATAAATATTTTTGGT-GCACCATACA-C
* * * *
65634566 AAGCCCAAATACC-TCGAAAATGAGATATAATAAATAATATTTTTTACAGTTATCCCAGAAAATT
1 AAGCCCAAATGCCAT-GAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATT
65634630 AAAATATATATATTTTTTGGTGCACCATACTA-
65 AAAATA-A-ATA-TTTTTGGTGCACCATAC-AC
* * **
65634662 AAGCCCAAGTGCCCA--AAAATTG-AATATAATAAATCATATTTTTTACAGTTATC-CTGAAAA-
1 AAGCCCAAATG-CCATGAAAA-TGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAAT
65634722 TATAAA-AAATATTTTTGGTGCACCATACAC
64 TA-AAATAAATATTTTTGGTGCACCATACAC
* * * *** *
65634752 TAGCTCAAAATGCCATGAACATGAAATATAATAAATAATATTTTTCGTAGTTGTCTCAAAAAATT
1 AAGC-CCAAATGCCATGAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATT
* *
65634817 AAAATAAATATTTTTGCAT-CACCATACTC
65 AAAATAAATATTTTTG-GTGCACCATACAC
* * * * * * * * **
65634846 AATCCTATATGCC-TAAAAATGAAATATAAAAAATAATAATTTTTATAGTTATCCCGGAAAATT-
1 AAGCCCAAATGCCATGAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATTA
* *** *
65634909 AAAT-CATATTTTTGCACCACCGTACTA-
66 AAATAAATATTTTTGGTGCACCATAC-AC
* * *** * * * *
65634936 AAGCTCAATTGTTTTGAAAATGAAATATAATAAATAATAATTTTTACATTTATCCCATAAAATTA
1 AAGCCCAAATGCCATGAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATTA
* *
65635001 AATATATATATTTTT-GTAGCACCATACTC
66 AA-ATAAATATTTTTGGT-GCACCATACAC
** * * * * * * *
65635030 AAGTTCAAATCTCCCT-AAAATGCAATATAGTAAATAATATTTTTTTATATTTATCTCGAAAAAT
1 AAGCCCAAAT-GCCATGAAAATGAAATATAATAAATAATA-TTTTTTACAGTTATCTC-AAAAAA
* * * * *
65635094 TTTAAA-AAATATTTATT-TTACCCCATACTC
63 TTAAAATAAATATTT-TTGGTGCACCATACAC
* * * *
65635124 GAA-CTCAAATGTC-TGAAAAT-ATAATATAATAAATAATAATTTTTACAGCTATC
1 -AAGCCCAAATGCCATGAAAATGA-AATATAATAAATAATATTTTTTACAGTTATC
65635177 CTTGAAAATA
Statistics
Matches: 479, Mismatches: 93, Indels: 75
0.74 0.14 0.12
Matches are distributed among these distances:
89 34 0.07
90 51 0.11
91 71 0.15
92 87 0.18
93 42 0.09
94 100 0.21
95 58 0.12
96 31 0.06
97 4 0.01
98 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (93 bp):
AAGCCCAAATGCCATGAAAATGAAATATAATAAATAATATTTTTTACAGTTATCTCAAAAAATTA
AAATAAATATTTTTGGTGCACCATACAC
Found at i:65634921 original size:184 final size:180
Alignment explanation
Indices: 65634467--65635447 Score: 607
Period size: 184 Copynumber: 5.4 Consensus size: 180
65634457 ATAATTGTTA
* * ** *
65634467 CACCGTACTAAAGCCCAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTATA-TTATCT
1 CACCATACTCAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATCC
* * * *
65634530 CAAAAAATTAAAAAATATTTTT-GTACCACCATA-ATCAAGCCCAAATACCTCGAAAATGAGATA
66 CAGAAAATTAAAAAATATTTTTGGT-CCACCATACA-CAAGCTCAAATGCCT-GAAAATGAAATA
* *
65634593 TAATAAATAATATTTTTTACAGTTATCCCAGAAAATTAAAATATATATATTTTTTGGT
128 TAATAAATAATA-TTTTT-CAGTTATCCCAAAAAATTAAAATA-A-ATA-TTTTTGAT
* * * *
65634651 GCACCATACTAAAGCCCAAGTGCCCAAAAATTG-AATATAATAAATCATATTTTTTACAGTTAT-
1 -CACCATACTCAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATC
* * * *
65634714 CCTGAAAATATAAAAAATATTTTTGGTGCACCATACACTAGCTCAAAATGCCATGAACATGAAAT
65 CCAGAAAAT-TAAAAAATATTTTTGGTCCACCATACACAAGCTC-AAATGCC-TGAAAATGAAAT
* *
65634779 ATAATAAATAATATTTTTCGTAGTTGTCTCAAAAAATTAAAATAAATATTTTTGCAT
127 ATAATAAATAATATTTTTC--AGTTATCCCAAAAAATTAAAATAAATATTTTTG-AT
* * * *
65634836 CACCATACTCAATCCTATA-TGCCTAAAAA-TGAAATATAAAAAATAATAATTTTTATAGTTATC
1 CACCATACTCAAGCCCA-AGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATC
* ** ** * * **
65634899 CCGGAAAATTAAATCATATTTTTGCACCACCGTACTA-AAGCTCAATTGTTTTGAAAATGAAATA
65 CCAGAAAATTAAAAAATATTTTTGGTCCACCATAC-ACAAGCTCAAATG-CCTGAAAATGAAATA
* * * *
65634963 TAATAAATAATAATTTTTACATTTATCCCATAAAATTAAATATATATATTTTTGTAG
128 TAATAAATAAT-ATTTTT-CAGTTATCCCAAAAAATTAAA-ATAAATATTTTTG-AT
** * * * * * * *
65635020 CACCATACTCAAGTTCAAATCTCCCTAAAA-TGCAATATAGTAAATAATATTTTTTTATATTTAT
1 CACCATACTCAAGCCCAAGT-GCCCAAAAATTGAAATATAATAAATAATA-ATTTTTATAGTTAT
* * * *
65635084 CTC-GAAAAATTTTAAAAAATATTTATT-TTACC-CCATACTCGAA-CTCAAATGTCTGAAAAT-
64 CCCAG-AAAA--TTAAAAAATATTT-TTGGT-CCACCATACAC-AAGCTCAAATGCCTGAAAATG
* *** ** *
65635144 ATAATATAATAAATAATAATTTTTACAGCTATCCTTGAAAA-TAAAA-AAA-A--TTACAA
123 A-AATATAATAAATAAT-ATTTTT-CAGTTATCCCAAAAAATTAAAATAAATATTTTTGAT
** * * * * * * * *
65635200 CATTATACTCAAGACAAAATGCACCAAAAA-TGAAATATTATTAATAAATAATTTGTACATTTAT
1 CACCATACTCAAGCCCAAGTGC-CCAAAAATTGAAATATAATAAAT-AATAATTTTTATAGTTAT
* * * * * **
65635264 CCC-GAAATTTTAAGAAATATTTTTGAG--CACTATACTA-AA-TTCCAAGTGCTCCAAAAATGA
64 CCCAGAAA-ATTAAAAAATATTTTTG-GTCCACCATAC-ACAAGCT-CAAATGC-CTGAAAATGA
* *
65635324 AATATAATAAATAATATTTTTTATAGTTAACCCAAAAAATTTAAAA-AAATATTTTTGA-
124 AATATAATAAATAATA-TTTTT-CAGTTATCCCAAAAAA-TTAAAATAAATATTTTTGAT
* * * * *
65635382 CGCGCTATACTCAAACACAAGTGCCCTAAAAA-TGAAATATATTAAATAATAATTTTTATAATTA
1 CAC-C-ATACTCAAGCCCAAGTGCCC-AAAAATTGAAATATAATAAATAATAATTTTTATAGTTA
65635446 TC
63 TC
65635448 TTGAAAATTT
Statistics
Matches: 625, Mismatches: 123, Indels: 98
0.74 0.15 0.12
Matches are distributed among these distances:
176 4 0.01
177 13 0.02
178 49 0.08
179 5 0.01
180 55 0.09
181 7 0.01
182 1 0.00
183 68 0.11
184 160 0.26
185 81 0.13
186 59 0.09
187 93 0.15
188 24 0.04
189 6 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (180 bp):
CACCATACTCAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATCC
CAGAAAATTAAAAAATATTTTTGGTCCACCATACACAAGCTCAAATGCCTGAAAATGAAATATAA
TAAATAATATTTTTCAGTTATCCCAAAAAATTAAAATAAATATTTTTGAT
Found at i:65634974 original size:91 final size:90
Alignment explanation
Indices: 65634467--65635439 Score: 503
Period size: 91 Copynumber: 10.6 Consensus size: 90
65634457 ATAATTGTTA
* * * * * *
65634467 CACCGTACTAAAGCCCAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTATA-TTATCT
1 CACCATACTAAAGCCCAAATG-CCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCC
* * *
65634530 CAAAAAATTAAAAAATATTTTTGTAC
65 CAGAAAATTAAATAATATTTTTGCAC
* * * * *
65634556 CACCATAATCAAGCCCAAATACCTCGAAAATGAGATATAATAAATAATATTTTTTACAGTTATCC
1 CACCATACTAAAGCCCAAATGCCT-GAAAATGAAATATAATAAATAATAATTTTTACAGTTATCC
***
65634621 CAGAAAATTAAAATATATATATTTTTTGGTG
65 CAGAAAATT--AA-ATA-ATA-TTTTTGCAC
* ** * *
65634652 CACCATACTAAAGCCCAAGTGCCCAAAAATTG-AATATAATAAATCATATTTTTTACAGTTAT-C
1 CACCATACTAAAGCCCAAATGCCTGAAAA-TGAAATATAATAAATAATAATTTTTACAGTTATCC
* * ***
65634715 CTGAAAATATAAAAAATATTTTTGGTG
65 CAGAAAAT-TAAATAATATTTTTGCAC
* * *
65634742 CACCATAC-ACTAGCTCAAAATGCCATGAACATGAAATATAATAAATAAT-ATTTTT-CGTAGTT
1 CACCATACTA-AAGC-CCAAATGCC-TGAAAATGAAATATAATAAATAATAATTTTTAC--AGTT
* * * *
65634804 GTCTCAAAAAATTAAAATAAATATTTTTGCAT
61 ATCCCAGAAAATT-AAAT-AATATTTTTGCAC
* * * * * * *
65634836 CACCATACTCAATCCTATATGCCTAAAAATGAAATATAAAAAATAATAATTTTTATAGTTATCCC
1 CACCATACTAAAGCCCAAATGCCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCCC
* *
65634901 GGAAAATTAAATCATATTTTTGCAC
66 AGAAAATTAAATAATATTTTTGCAC
* * * ** *
65634926 CACCGTACTAAAGCTCAATTGTTTTGAAAATGAAATATAATAAATAATAATTTTTACATTTATCC
1 CACCATACTAAAGCCCAAATG-CCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCC
* * *
65634991 CATAAAATTAAATATATATATTTTTGTAG
65 CAGAAAATT-AA-ATA-ATATTTTTGCAC
* ** * * * * * *
65635020 CACCATACTCAAGTTCAAATCTCCCT-AAAATGCAATATAGTAAATAATATTTTTTTATATTTAT
1 CACCATACTAAAGCCCAAA--TGCCTGAAAATGAAATATAATAAATAATA-ATTTTTACAGTTAT
* * **
65635084 CTC-GAAAAATTTTAAAAAATATTTATTTTAC
63 CCCAG-AAAA--TTAAATAATATTT-TTGCAC
* * * *
65635115 C-CCATACTCGAA-CTCAAATGTCTGAAAAT-ATAATATAATAAATAATAATTTTTACAGCTATC
1 CACCATACT-AAAGCCCAAATGCCTGAAAATGA-AATATAATAAATAATAATTTTTACAGTTATC
** ** * *
65635177 CTTGAAAA-TAAA-AA-A-AATTACAA
64 CCAGAAAATTAAATAATATTTTTGCAC
** * * * ** * * * *
65635200 CATTATACTCAAGACAAAATGCACCAAAAATGAAATATTATTAATAAATAATTTGTACATTTATC
1 CACCATACTAAAGCCCAAATGC-CTGAAAATGAAATATAATAAAT-AATAATTTTTACAGTTATC
* *
65635265 CC-GAAATTTTAAGA-AATATTTTTG-AG
64 CCAGAAA-ATTAA-ATAATATTTTTGCAC
* ** * ** * * *
65635291 CACTATACTAAATTCCAAGTGCTCCAAAAATGAAATATAATAAATAATATTTTTTATAGTTAACC
1 CACCATACTAAAGCCCAAATGC-CTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCC
* *
65635356 CAAAAAATTTAAAAAAATATTTTTG-AC
65 CAGAAAA-TT-AAATAATATTTTTGCAC
* * * * * *
65635383 GCGCTATACTCAAA-CACAAGTGCCCTAAAAATGAAATATATTAAATAATAATTTTTA
1 -CACCATACT-AAAGCCCAAATG-CCTGAAAATGAAATATAATAAATAATAATTTTTA
65635440 TAATTATCTT
Statistics
Matches: 679, Mismatches: 151, Indels: 104
0.73 0.16 0.11
Matches are distributed among these distances:
85 6 0.01
86 10 0.01
87 21 0.03
88 22 0.03
89 46 0.07
90 71 0.10
91 122 0.18
92 94 0.14
93 93 0.14
94 98 0.14
95 64 0.09
96 30 0.04
97 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (90 bp):
CACCATACTAAAGCCCAAATGCCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCCC
AGAAAATTAAATAATATTTTTGCAC
Found at i:65635122 original size:278 final size:273
Alignment explanation
Indices: 65634492--65635439 Score: 667
Period size: 278 Copynumber: 3.4 Consensus size: 273
65634482 CAAGTGCCCC
* * *
65634492 GAAATTGAAATATAATAAATAATA-ATTTTATATTATCTCAAAAAATTAAAAAATATTTTTGTAC
1 GAAAATGAAATATAATAAATAATATTTTTTATATTATCTCAAAAATTTAAAAAATATTTTTGTAC
* * * * *
65634556 CACCATAATCAAGCCCAAATACCTCGAAAATGAGATATAATAAATAATATTTTTTACAGTTATCC
66 C-CCATACTCAA-CCTAAATGCCT-GAAAATGAAATATAATAAATAATAATTTTTACAGTTATCC
* ***
65634621 CAGAAAATTAAAATATATATATTTTTTGGTGCACCATACTAAAGCCCAAGTGCCCAAAAATTGAA
128 CAGAAAATT-AAATATACATATTTTTTGCACCACCATACTAAAGCCCAAGTGCCCAAAAATTGAA
* *
65634686 TATAATAAATCATATTTTTTACAGTTATCCTGAAAATATAAAAAATATTTTTGGTGCACCATACA
192 TATAATAAATAATAATTTTTACAGTTATCCTGAAAATATAAAAAATATTTTTGGTGCACCATACA
*
65634751 CTAGCTCAAAATGCCAT
257 CAAGCTCAAAATGCCAT
* ** * *
65634768 GAACATGAAATATAATAAATAATATTTTTCGTAGTTGTCTCAAAAAATTAAAATAAATATTTTTG
1 GAAAATGAAATATAATAAATAATATTTTTTATA-TTATCTC-AAAAATTTAAA-AAATATTTTTG
* * * * * *
65634833 CATCACCATACTCAATCCTATATGCCTAAAAATGAAATATAAAAAATAATAATTTTTATAGTTAT
63 TA-CCCCATACTCAA-CCTAAATGCCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTAT
* * * * ****
65634898 CCCGGAAAATT-AA-AT-CATA-TTTTTGCACCACCGTACTAAAGCTCAATTGTTTTGAAAA-TG
126 CCCAGAAAATTAAATATACATATTTTTTGCACCACCATACTAAAGCCCAAGTG-CCCAAAAATTG
*
65634958 AAATATAATAAATAATAATTTTTACATTTATCCCAT-AAAAT-TAAATATATATATTTTT-GTAG
190 -AATATAATAAATAATAATTTTTACAGTTAT-CC-TGAAAATATAAA-A-A-ATATTTTTGGT-G
* * * *
65635020 CACCATACTCAAGTTC-AAATCTCCCT
248 CACCATACACAAGCTCAAAAT-GCCAT
* *
65635046 -AAAATGCAATATAGTAAATAATATTTTTTTATATTTATCTCGAAAAATTTTAAAAAATATTTAT
1 GAAAATGAAATATAATAAATAATA-TTTTTTATA-TTATCTC-AAAAA-TTTAAAAAATATTT-T
* * *
65635110 TTTACCCCATACTCGAA-CTCAAATGTCTGAAAAT-ATAATATAATAAATAATAATTTTTACAGC
61 TGTACCCCATACTC-AACCT-AAATGCCTGAAAATGA-AATATAATAAATAATAATTTTTACAGT
** * * * ** * * * *
65635173 TATCCTTGAAAA-TAAA-A-A-A-A---ATTACAACATTATACTCAAGACAAAATGCACCAAAAA
123 TATCCCAGAAAATTAAATATACATATTTTTTGCACCACCATACTAAAGCCCAAGTGC-CCAAAAA
* * * * * * * * *
65635230 -TGAAATATTATTAATAAATAATTTGTACATTTATCCCGAAATTTTAAGAAATATTTTT-GAGCA
187 TTG-AATATAATAAAT-AATAATTTTTACAGTTATCCTGAAAATATAAAAAATATTTTTGGTGCA
* * * *
65635293 CTATACTA-AA-TTCCAAGTGCTCCA-
250 CCATAC-ACAAGCTCAAAATG--CCAT
* *
65635317 -AAAATGAAATATAATAAATAATATTTTTTATAGTTAACCCAAAAAATTTAAAAAAATATTTTTG
1 GAAAATGAAATATAATAAATAATATTTTTTATA-TTATCTC-AAAAATTT-AAAAAATATTTTTG
* * * *
65635381 -ACGCGCTATACTCAAACAC-AAGTGCCCTAAAAATGAAATATATTAAATAATAATTTTTA
63 TAC-C-CCATACTC-AAC-CTAAATG-CCTGAAAATGAAATATAATAAATAATAATTTTTA
65635440 TAATTATCTT
Statistics
Matches: 535, Mismatches: 100, Indels: 79
0.75 0.14 0.11
Matches are distributed among these distances:
268 2 0.00
269 6 0.01
270 46 0.09
271 63 0.12
272 13 0.02
273 1 0.00
274 67 0.13
275 58 0.11
276 33 0.06
277 40 0.07
278 114 0.21
279 62 0.12
280 29 0.05
281 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (273 bp):
GAAAATGAAATATAATAAATAATATTTTTTATATTATCTCAAAAATTTAAAAAATATTTTTGTAC
CCCATACTCAACCTAAATGCCTGAAAATGAAATATAATAAATAATAATTTTTACAGTTATCCCAG
AAAATTAAATATACATATTTTTTGCACCACCATACTAAAGCCCAAGTGCCCAAAAATTGAATATA
ATAAATAATAATTTTTACAGTTATCCTGAAAATATAAAAAATATTTTTGGTGCACCATACACAAG
CTCAAAATGCCAT
Found at i:65635523 original size:94 final size:93
Alignment explanation
Indices: 65634482--65635500 Score: 281
Period size: 94 Copynumber: 11.1 Consensus size: 93
65634472 TACTAAAGCC
** * * *
65634482 CAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTAT-ATTATCTCAAAAAA-TT-AAAA
1 CAAGTGCCCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAAA
* * * * *
65634543 AATATTTTTGTAC-CACCATAATCAAGCC
66 AATATTATTG-ACGCACTATACTCAAACA
* * * * * * * * *
65634571 CAAAT-ACCTCGAAAATGAGATATAATAAATAATATTTTTTACAGTTATCCCAGAAAA-TTAAAA
1 CAAGTGCCCT-AAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAA
* ** * *
65634634 TATATATATTTTTTGGTGCACCATACT-AAAGCC
65 -A-A-ATA-TTATTGACGCACTATACTCAAA-CA
* * * * * ** *
65634667 CAAGTGCCC-AAAAATTG-AATATAATAAATCATATTTTTTACAGTT-ATCCTGAAAATAT-AAA
1 CAAGTGCCCTAAAAA-TGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAA
* ** * * * * *
65634728 AAATATTTTTGGTGCACCATACACTAGCT
65 AAATATTATTGACGCACTATACTCAAACA
* * * * * * ** *
65634757 CAAAATGCCATGAACATGAAATATAATAAATAAT-ATTTTTCGTAGTTGTCTCAAAAAA-TTAAA
1 C-AAGTGCCCTAAAAATGAAATATAATAAATAATAATTTTT-ATAATTAACCCAAAAAATTTAAA
* * * *
65634820 ATAAATATTTTTG-CATCACCATACTCAATC-
64 A-AAATATTATTGAC-GCACTATACTCAAACA
* * * **
65634850 CTATA-TG-CCTAAAAATGAAATATAAAAAATAATAATTTTTATAGTTATCCCGGAAAA-TT-AA
1 C-A-AGTGCCCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAA
** * ** *
65634911 ATCATATTTTTGCAC-CACCGTACT-AAAGCT
64 AAAATATTATTG-ACGCACTATACTCAAA-CA
* *** * * * * *
65634941 CAATTGTTTTGAAAATGAAATATAATAAATAATAATTTTTACATTTATCCCATAAAA-TTAAATA
1 CAAGTGCCCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAA-A
* * * ***
65635005 TATATATTTTTGTA-GCACCATACTCAAGTT
65 -AAATATTATTG-ACGCACTATACTCAAACA
* * * * * * * * * *
65635035 CAAATCTCCCT-AAAATGCAATATAGTAAATAATATTTTTTTATATTTATCTCGAAAAATTTTAA
1 CAAGT-GCCCTAAAAATGAAATATAATAAATAATA-ATTTTTATAATTAACCCAAAAAATTTAAA
* * * *
65635099 AAAATATTTATTTTAC-C-CCATACTCGAACT
64 AAAATA-TTA-TTGACGCACTATACTCAAACA
* * * * ** * ***
65635129 CAAATG-TCTGAAAAT-ATAATATAATAAATAATAATTTTTACAGCTATCCTTGAAAA--TAAAA
1 CAAGTGCCCTAAAAATGA-AATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAA
* * *
65635190 AAA-ATTA--CA-ACATTATACTCAAGACA
65 AAATATTATTGACGCACTATACTCAA-ACA
* * * * * * * * *
65635216 -AAATGCACC-AAAAATGAAATATTATTAATAAATAATTTGTACATTTATCCC--GAAATTTTAA
1 CAAGTGC-CCTAAAAATGAAATATAATAAAT-AATAATTTTTATAATTAACCCAAAAAATTTAAA
* *
65635277 GAAATATTTTTGA-GCACTATACT-AAATTC-
64 AAAATATTATTGACGCACTATACTCAAA--CA
* *
65635306 CAAGTGCTCC-AAAAATGAAATATAATAAATAATATTTTTTATAGTTAACCCAAAAAATTTAAAA
1 CAAGTGC-CCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAA
* *
65635370 AAATATTTTTGACGCGCTATACTCAAACA
65 AAATATTATTGACGCACTATACTCAAACA
* * ** **
65635399 CAAGTGCCCTAAAAATGAAATATATTAAATAATAATTTTTATAATTATCTTGAAAATTTTTAAAA
1 CAAGTGCCCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAAC-CCAAAAAATTTAAAA
* *
65635464 AAATATTATTGCAC-CACTGTACTCAAACT
65 AAATATTATTG-ACGCACTATACTCAAACA
65635493 CAAGTGCC
1 CAAGTGCC
65635501 TCGGAAATAA
Statistics
Matches: 713, Mismatches: 151, Indels: 127
0.72 0.15 0.13
Matches are distributed among these distances:
85 2 0.00
86 15 0.02
87 17 0.02
88 30 0.04
89 34 0.05
90 70 0.10
91 113 0.16
92 105 0.15
93 92 0.13
94 141 0.20
95 64 0.09
96 28 0.04
97 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (93 bp):
CAAGTGCCCTAAAAATGAAATATAATAAATAATAATTTTTATAATTAACCCAAAAAATTTAAAAA
AATATTATTGACGCACTATACTCAAACA
Found at i:65635957 original size:92 final size:91
Alignment explanation
Indices: 65635824--65636229 Score: 271
Period size: 91 Copynumber: 4.5 Consensus size: 91
65635814 ATTAGGCACT
* * *
65635824 ATACGCAAGCCCAAGTGCCTCAAAAATGAAATATTAA-AAATAAT-TTTTTTA-AAGTTATCTTA
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATA-TAATAAATAATATTTTTTACAA-TTATCTTA
65635886 GAATATATAAAAAAATATTTTTGCAGCAAC-
64 -AA-ATATAAAAAAATATTTTTGCA-CAACA
* ** *
65635916 ATACTCAAATCCAAGTG-CTCCGAAAATGAAATATAATAAATAATAAATTTTACAATTATCTCAA
1 ATACTCAAACCCAAGTGCCT-CGAAAATGAAATATAATAAATAATATTTTTTACAATTATCTTAA
* ** *
65635980 AAAATTGAAAAATATTTTTGCACGACA
65 AATATAAAAAAATATTTTTGCACAACA
* ***
65636007 ATTCTCTTGCCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTACAATTATCCTTAA
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTACAATTAT-CTT--
* * *
65636072 AAAATTTAAAAAAATA----T-CACCACC
63 AAAATATAAAAAAATATTTTTGCACAACA
* * * * ** * * ** **
65636096 ACACTCAAGCCTAACTATCTCGAAAATGAAATATAACAAATAATAATTAGTACAATTATGCCGAA
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTACAATTAT-CTTAA
* ** *
65636161 AAGTTTAAAAAAATATTTTTTGGGC-ACC
65 AA-TATAAAAAAATA-TTTTTGCACAACA
* * *
65636189 ATACTCAATCCTAAGT--CTCTAAAAATGAAATATAATAAATA
1 ATACTCAAACCCAAGTGCCTC-GAAAATGAAATATAATAAATA
65636230 GTTATTAATA
Statistics
Matches: 250, Mismatches: 47, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
87 4 0.02
88 12 0.05
89 53 0.21
90 4 0.02
91 75 0.30
92 58 0.23
93 29 0.12
94 15 0.06
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.30
Consensus pattern (91 bp):
ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTACAATTATCTTAAA
ATATAAAAAAATATTTTTGCACAACA
Found at i:65637784 original size:13 final size:13
Alignment explanation
Indices: 65637768--65637818 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
65637758 TTTAAACCAG
65637768 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
65637781 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
* * *
65637794 ATTTTTTAAAAAC
1 ACTTTTCAAAAGC
65637807 ACTTTTCAAAAG
1 ACTTTTCAAAAG
65637819 TATTACTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.10
13 22 0.76
14 4 0.14
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:65642158 original size:46 final size:46
Alignment explanation
Indices: 65642105--65642281 Score: 264
Period size: 46 Copynumber: 3.8 Consensus size: 46
65642095 ACATTGCTAT
* * *
65642105 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTATTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
65642151 AACTCAGTATGCTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * * *
65642197 AACTCAGTATGGTTTTCTTTACTGAAACATCATATCTACTTTTGAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
65642243 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAC
65642282 GTCAATTCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:65643524 original size:16 final size:17
Alignment explanation
Indices: 65643478--65643524 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
65643468 AAATTCTTTT
65643478 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
65643495 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
65643512 TAATTCA-AAAATT
1 TAAATCACAAAATT
65643525 ATTCTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:65644591 original size:33 final size:33
Alignment explanation
Indices: 65644541--65644615 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 33
65644531 AAACTAATCC
* *
65644541 TCTCTCAAATTTCCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCAAAATT
*
65644574 TCCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCAAAATT
65644608 TCTCTCAA
1 TCTCTCAA
65644616 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCAAAATT
Found at i:65644598 original size:22 final size:22
Alignment explanation
Indices: 65644541--65644617 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
65644531 AAACTAATCC
65644541 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
65644563 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
65644585 TGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
65644608 TCTCTCAAAT
1 TCTCTCAAAT
65644618 CCATATTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.08
22 33 0.67
23 10 0.20
24 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:65644617 original size:11 final size:11
Alignment explanation
Indices: 65644541--65644617 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
65644531 AAACTAATCC
65644541 TCTCTCAAATT
1 TCTCTCAAATT
65644552 TCCTCTC-AATT
1 T-CTCTCAAATT
65644563 TCT-TCTAAATT
1 TCTCTC-AAATT
65644574 TCCTCTC-AATT
1 T-CTCTCAAATT
65644585 TGCTCTCAAATT
1 T-CTCTCAAATT
*
65644597 CCT-TCAAAATT
1 TCTCTC-AAATT
65644608 TCTCTCAAAT
1 TCTCTCAAAT
65644618 CCATATTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 34 0.62
12 13 0.24
13 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:65652542 original size:26 final size:28
Alignment explanation
Indices: 65652510--65652579 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
65652500 AAAAGTACAT
**
65652510 AAAAATAAAAAAAAAT-GTTTTTTAA-A
1 AAAAATAAAAAAAAATACATTTTTAAGA
* **
65652536 AAAAATAAGAAATTATACATTTTTAAGA
1 AAAAATAAAAAAAAATACATTTTTAAGA
65652564 AAAAATAAAAATAAAA
1 AAAAATAAAAA-AAAA
65652580 GCTCTCTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
26 13 0.39
27 7 0.21
28 11 0.33
29 2 0.06
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAAATAAAAAAAAATACATTTTTAAGA
Found at i:65652992 original size:19 final size:19
Alignment explanation
Indices: 65652912--65652993 Score: 53
Period size: 19 Copynumber: 4.3 Consensus size: 19
65652902 GGCAAATTTG
* *
65652912 TTTTTTTTTAAATTGTATG-
1 TTTTTTTTTTAATTTTA-GA
65652931 TTTTTTTTTTAATTTTTTAGA
1 TTTTTTTTTTAA--TTTTAGA
* ** * *
65652952 ATTTTTTTGGAAATAT-GA
1 TTTTTTTTTTAATTTTAGA
65652970 -TTTTTTTTTAATTTTAGA
1 TTTTTTTTTTAATTTTAGA
65652988 TTTTTT
1 TTTTTT
65652994 ATGCACTTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
17 11 0.23
18 4 0.09
19 18 0.38
20 1 0.02
21 13 0.28
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (19 bp):
TTTTTTTTTTAATTTTAGA
Found at i:65656008 original size:40 final size:40
Alignment explanation
Indices: 65655945--65656174 Score: 169
Period size: 40 Copynumber: 5.7 Consensus size: 40
65655935 AGCTTTAGTG
* * * *
65655945 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATTGA
1 GCATTAGCGGCGCTATTTGAAAAACGCCACAATAGATTGA
* * **
65655985 GCATTAGTGGCGCTATTTGAAAAACACCACTTTAGATTGA
1 GCATTAGCGGCGCTATTTGAAAAACGCCACAATAGATTGA
* * ** * *
65656025 GCATTAGCGACGCT-TTTCAGAAAACGCTGCAAAAAATTTGAGCA
1 GCATTAGCGGCGCTATTTGA-AAAACGCCACAATAGA-TT--G-A
* * * *
65656069 GCATTAGTGGCGCT-TTTTAAAAATGCCACAATAGATCGA
1 GCATTAGCGGCGCTATTTGAAAAACGCCACAATAGATTGA
* * * * * *
65656108 GTATTAGTGGTGCTATGTGAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTATTTGAAAAACGCCACAATAGATTGA
65656148 GCATTAGCGGCGC-ATTTCGAAAAACGC
1 GCATTAGCGGCGCTATTT-GAAAAACGC
65656175 TGCAAAAAAT
Statistics
Matches: 146, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
39 20 0.14
40 94 0.64
41 2 0.01
42 1 0.01
43 12 0.08
44 17 0.12
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTATTTGAAAAACGCCACAATAGATTGA
Found at i:65656172 original size:123 final size:124
Alignment explanation
Indices: 65655945--65656285 Score: 371
Period size: 123 Copynumber: 2.7 Consensus size: 124
65655935 AGCTTTAGTG
* *
65655945 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATTGAGCATTAGTGGCGCTATTTGAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
* * *
65656010 ACCACTTTAGATTGAGCATTAGCGACGCTTTTCAGAAAACGCTGCAAAAAATTTGAGCA
66 ACCACTATAGATCGAGCATTAGCGACGCATTTCAGAAAACGCTGCAAAAAATTTGAGCA
* * * *
65656069 GCATTAGTGGCGCTTTTT-AAAAATGCCACAATAGATCGAGTATTAGTGGTGCTATGTGAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
* *
65656133 GCCACTATAGATCGAGCATTAGCGGCGCATTTC-GAAAAACGCTGCAAAAAATTTGAAGGACTTT
66 ACCACTATAGATCGAGCATTAGCGACGCATTTCAG-AAAACGCTGCAAAAAATTTG-A-G-C---
65656197 TAATA
124 ----A
* * * * * ** * *
65656202 ACATTAGCGGCGCTTTTTTAAGAAACGCCACAATAGATCAAGCATTAGCAGCACTATTTGAAAAA
1 GCATTAGCGACGC-TTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAA
*
65656267 CACCGCTATAGATCGAGCA
65 CACCACTATAGATCGAGCA
65656286 AAACAAGGAA
Statistics
Matches: 180, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
122 1 0.01
123 90 0.50
124 17 0.09
125 1 0.01
126 1 0.01
133 12 0.07
134 5 0.03
135 53 0.29
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (124 bp):
GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
ACCACTATAGATCGAGCATTAGCGACGCATTTCAGAAAACGCTGCAAAAAATTTGAGCA
Found at i:65657109 original size:18 final size:18
Alignment explanation
Indices: 65657086--65657128 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
65657076 ACCCAATCTA
**
65657086 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
65657104 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
65657122 AACCCAA
1 AACCCAA
65657129 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:65657250 original size:9 final size:9
Alignment explanation
Indices: 65657236--65657276 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
65657226 GTAGTGATTC
65657236 AATTTGGTT
1 AATTTGGTT
65657245 AATTTGGTT
1 AATTTGGTT
* *
65657254 AATTCGGGT
1 AATTTGGTT
*
65657263 AATTCGGTT
1 AATTTGGTT
65657272 AATTT
1 AATTT
65657277 TTAACCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (9 bp):
AATTTGGTT
Found at i:65667837 original size:30 final size:30
Alignment explanation
Indices: 65667780--65667852 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
65667770 TAAATTTTAT
**
65667780 AAATTACAATTTGACCCCCACAATTTCTCA
1 AAATTACAATTTGACCCAAACAATTTCTCA
* * * *
65667810 AAATTACATTTTGACCCAAATATTTTCTCT
1 AAATTACAATTTGACCCAAACAATTTCTCA
*
65667840 AAATTACACTTTG
1 AAATTACAATTTG
65667853 GCCCCAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATTACAATTTGACCCAAACAATTTCTCA
Found at i:65668052 original size:19 final size:18
Alignment explanation
Indices: 65668021--65668063 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
65668011 CCAAAATTTT
65668021 AAAAAAAAAAAGAGA-AA
1 AAAAAAAAAAAGAGAGAA
65668038 AAAAAAACAACAAGAGAGAA
1 AAAAAAA-AA-AAGAGAGAA
65668058 AAAAAA
1 AAAAAA
65668064 TCAGCAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 6 0.26
20 8 0.35
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAGAGAGAA
Found at i:65668399 original size:29 final size:28
Alignment explanation
Indices: 65668354--65668411 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 28
65668344 AAGGGAGGGG
65668354 AACGAAAAGAGAAAGAAGAAAAAGAAAAAA
1 AACGAAAAGAGAAAG-A-AAAAAGAAAAAA
65668384 AACGAAAA-AGAAAGAAAAAAGAAAAAA
1 AACGAAAAGAGAAAGAAAAAAGAAAAAA
65668411 A
1 A
65668412 TCTAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 13 0.46
28 1 0.04
29 6 0.21
30 8 0.29
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.00
Consensus pattern (28 bp):
AACGAAAAGAGAAAGAAAAAAGAAAAAA
Found at i:65668708 original size:10 final size:10
Alignment explanation
Indices: 65668693--65668769 Score: 63
Period size: 10 Copynumber: 7.8 Consensus size: 10
65668683 CCCAGCAGAG
65668693 AGGAAAAAAA
1 AGGAAAAAAA
*
65668703 AGGAAAAGAA
1 AGGAAAAAAA
65668713 A-GAAAAAAA
1 AGGAAAAAAA
*
65668722 GGCGAAGAAAAA
1 AG-GAA-AAAAA
*
65668734 A--AGAAAAA
1 AGGAAAAAAA
65668742 AGGAAAAAAGA
1 AGGAAAAAA-A
65668753 A-GAAAAAAA
1 AGGAAAAAAA
*
65668762 AAGAAAAA
1 AGGAAAAA
65668770 GGTTCAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
8 6 0.11
9 10 0.19
10 28 0.52
11 5 0.09
12 5 0.09
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (10 bp):
AGGAAAAAAA
Found at i:65668742 original size:7 final size:7
Alignment explanation
Indices: 65668730--65668769 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
65668720 AAGGCGAAGA
65668730 AAAAAAG
1 AAAAAAG
65668737 AAAAAAGG
1 AAAAAA-G
65668745 AAAAAAG
1 AAAAAAG
*
65668752 AAGAAA-
1 AAAAAAG
65668758 AAAAAAG
1 AAAAAAG
65668765 AAAAA
1 AAAAA
65668770 GGTTCAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:65668768 original size:18 final size:18
Alignment explanation
Indices: 65668695--65668768 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
65668685 CAGCAGAGAG
*
65668695 GAAAAAAAAGGAAAAGAAA
1 GAAAAAAAAAGAAAAG-AA
*
65668714 GAAAAAAAGGCGAAGAAAAAAA
1 GAAAAAAA----AAGAAAAGAA
*
65668736 GAAAAAAGGAA-AAAAGAA
1 GAAAAAA-AAAGAAAAGAA
65668754 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
65668769 AGGTTCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 2 0.05
18 17 0.39
19 10 0.23
22 9 0.20
23 6 0.14
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAAGAAAAGAA
Found at i:65668940 original size:19 final size:19
Alignment explanation
Indices: 65668918--65668959 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
65668908 TATATTTGTA
*
65668918 TTTATAT-TTTTAATTTAAT
1 TTTATATATTTTAA-ATAAT
*
65668937 TTTATTTATTTTAAATAAT
1 TTTATATATTTTAAATAAT
65668956 TTTA
1 TTTA
65668960 ATAAATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATATTTTAAATAAT
Found at i:65669100 original size:21 final size:21
Alignment explanation
Indices: 65669075--65669143 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
65669065 GAAAATATTC
65669075 AAAAATTTTCGTGTCTTCGAA
1 AAAAATTTTCGTGTCTTCGAA
*
65669096 AAAAAATTTCGTGT-TTCG--
1 AAAAATTTTCGTGTCTTCGAA
*
65669114 --AAATTTTCATGTCTTC-AA
1 AAAAATTTTCGTGTCTTCGAA
65669132 AAAAA-TTTCGTG
1 AAAAATTTTCGTG
65669144 CTTTCAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
16 10 0.26
17 3 0.08
19 6 0.15
20 7 0.18
21 13 0.33
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (21 bp):
AAAAATTTTCGTGTCTTCGAA
Found at i:65669118 original size:37 final size:37
Alignment explanation
Indices: 65669072--65669162 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
65669062 ATCGAAAATA
65669072 TTCAAAAATTTTCGTGTCTTCGAAAAAAAATTTCGTG-T
1 TTCAAAAATTTTCGTGTCTTC--AAAAAAATTTCGTGCT
* *
65669110 TTC-GAAATTTTCATGTCTTCAAAAAAATTTCGTGCT
1 TTCAAAAATTTTCGTGTCTTCAAAAAAATTTCGTGCT
*
65669146 TTCAAAAATATTCGTGT
1 TTCAAAAATTTTCGTGT
65669163 TTTTTAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.30
36 4 0.09
37 25 0.54
38 3 0.07
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (37 bp):
TTCAAAAATTTTCGTGTCTTCAAAAAAATTTCGTGCT
Found at i:65669172 original size:19 final size:17
Alignment explanation
Indices: 65669097--65669161 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 17
65669087 GTCTTCGAAA
65669097 AAAAATTTCGTG-TTTC
1 AAAAATTTCGTGCTTTC
* * *
65669113 GAAATTTTCATG-TCTTC
1 AAAAATTTCGTGCT-TTC
65669130 AAAAAAATTTCGTGCTTTC
1 --AAAAATTTCGTGCTTTC
65669149 AAAAATATTCGTG
1 AAAAAT-TTCGTG
65669162 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.26
17 9 0.24
18 6 0.16
19 12 0.32
20 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (17 bp):
AAAAATTTCGTGCTTTC
Found at i:65669336 original size:20 final size:20
Alignment explanation
Indices: 65669276--65669378 Score: 69
Period size: 20 Copynumber: 5.4 Consensus size: 20
65669266 ATATAAAAAT
65669276 AAAAAAAATTT-GTG-TTTC
1 AAAAAAAATTTCGTGTTTTC
*
65669294 ---AAAAATTCCAGTG-TTTC
1 AAAAAAAATTTC-GTGTTTTC
*
65669311 -AAAAAATTTTCGTGTTTTC
1 AAAAAAAATTTCGTGTTTTC
* *
65669330 AAAAAAAATTCCCT-TGTTTC
1 AAAAAAAATTTCGTGT-TTTC
* *
65669350 AAAAAAAATCTCGCGTTTTC
1 AAAAAAAATTTCGTGTTTTC
65669370 AAAACAAAA
1 AAAA-AAAA
65669379 ATTCTCATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
15 7 0.11
17 7 0.11
18 3 0.05
19 12 0.18
20 32 0.48
21 5 0.08
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTTCGTGTTTTC
Found at i:65669337 original size:21 final size:21
Alignment explanation
Indices: 65669311--65669390 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 21
65669301 CCAGTGTTTC
*
65669311 AAAAAATTTTCGTGTTTTCAA
1 AAAAAATTCTCGTGTTTTCAA
* *
65669332 AAAAAATTCCCTTG-TTTCAA
1 AAAAAATTCTCGTGTTTTCAA
*
65669352 AAAAAA-TCTCGCGTTTTCAAA
1 AAAAAATTCTCGTGTTTTC-AA
*
65669373 ACAAAAATTCTCATGTTT
1 A-AAAAATTCTCGTGTTT
65669391 CAATCGGATC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.09
20 16 0.34
21 14 0.30
22 5 0.11
23 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAAAATTCTCGTGTTTTCAA
Found at i:65671091 original size:6 final size:6
Alignment explanation
Indices: 65671082--65671110 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
65671072 AAATAAAATT
65671082 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
65671111 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:65671187 original size:26 final size:26
Alignment explanation
Indices: 65671157--65671206 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
65671147 TTCAATTCGG
*
65671157 TTAATTCTGGTAA-TCTGGTTAATTCA
1 TTAATTCGGGTAATTC-GGTTAATTCA
65671183 TTAATTCGGGTAATTCGGTTAATT
1 TTAATTCGGGTAATTCGGTTAATT
65671207 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (26 bp):
TTAATTCGGGTAATTCGGTTAATTCA
Found at i:65701945 original size:18 final size:18
Alignment explanation
Indices: 65701922--65701958 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
65701912 ATGTTAAATT
*
65701922 ACAAAAATTACAACAACA
1 ACAAAAATCACAACAACA
65701940 ACAAAAATCACAACAACA
1 ACAAAAATCACAACAACA
65701958 A
1 A
65701959 AAATGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (18 bp):
ACAAAAATCACAACAACA
Found at i:65701952 original size:15 final size:15
Alignment explanation
Indices: 65701934--65701962 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65701924 AAAAATTACA
65701934 ACAACAACAAAAATC
1 ACAACAACAAAAATC
65701949 ACAACAACAAAAAT
1 ACAACAACAAAAAT
65701963 GAAGAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.24, G:0.00, T:0.07
Consensus pattern (15 bp):
ACAACAACAAAAATC
Found at i:65705524 original size:31 final size:31
Alignment explanation
Indices: 65705459--65705531 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
65705449 CCCTCAAAAA
* * *
65705459 TTTAAAAGTTCTAATTAAGCCTTCCAAAAGT
1 TTTAAAAATTTTAATTAAACCTTCCAAAAGT
* *
65705490 TTTAAAAATTTTAATTAAACCTTCC-GAATT
1 TTTAAAAATTTTAATTAAACCTTCCAAAAGT
*
65705520 TTTTAAAATTTT
1 TTTAAAAATTTT
65705532 CTCATCAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.44
Consensus pattern (31 bp):
TTTAAAAATTTTAATTAAACCTTCCAAAAGT
Found at i:65706027 original size:31 final size:31
Alignment explanation
Indices: 65705991--65706049 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
65705981 TTAATTTAAT
* *
65705991 CAATTTTAGTCCCTATACTTTTTGAATTAGC
1 CAATTTTAGTCCCCAGACTTTTTGAATTAGC
65706022 CAATTTTAGTCCCCAGACTTTTTGAATT
1 CAATTTTAGTCCCCAGACTTTTTGAATT
65706050 TTGAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.44
Consensus pattern (31 bp):
CAATTTTAGTCCCCAGACTTTTTGAATTAGC
Found at i:65713476 original size:32 final size:32
Alignment explanation
Indices: 65713439--65713562 Score: 108
Period size: 33 Copynumber: 3.6 Consensus size: 32
65713429 ATTAAAATTT
65713439 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
* *
65713471 TATTTTAAAATAAAAAAATTAAAAAAA-AATATTTTAAAA
1 TA-TTT----T--AAAAATTAAAAAAAGTAT-TTTAAAAA
*
65713510 -ATATTTTAAAATTAAAAAAAAGTATTTTAAAAA
1 TAT-TTTAAAAATT-AAAAAAAGTATTTTAAAAA
*
65713543 TATTTTTAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
65713563 TTAAAAATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
32 15 0.20
33 27 0.36
34 5 0.07
37 2 0.03
38 5 0.07
39 21 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (32 bp):
TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:65713482 original size:10 final size:11
Alignment explanation
Indices: 65713454--65713554 Score: 56
Period size: 11 Copynumber: 9.5 Consensus size: 11
65713444 TAAAAATTAA
65713454 AAAAAGTATTTT
1 AAAAA-TATTTT
65713466 AAAAATATTTT
1 AAAAATATTTT
65713477 -AAAATA----
1 AAAAATATTTT
**
65713483 AAAAA-ATTAAA
1 AAAAATATT-TT
65713494 AAAAAATATTTT
1 AAA-AATATTTT
65713506 AAAAATATTTT
1 AAAAATATTTT
***
65713517 -AAAAT-TAAA
1 AAAAATATTTT
65713526 AAAAAGTATTTT
1 AAAAA-TATTTT
65713538 AAAAATATTTT
1 AAAAATATTTT
*
65713549 TAAAAT
1 AAAAAT
65713555 TAAAAAAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
9 1 0.01
10 15 0.22
11 29 0.42
12 16 0.23
13 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:65713507 original size:40 final size:40
Alignment explanation
Indices: 65713445--65713529 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
65713435 ATTTTATTTT
*
65713445 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TAA
1 AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTAA
65713484 AAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAATTAA
1 AAAAATT-AAAAAAAATATTTTAAAAATATTTTAAAATTAA
65713525 AAAAA
1 AAAAA
65713530 AGTATTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 7 0.16
40 28 0.65
41 8 0.19
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (40 bp):
AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:65713510 original size:15 final size:15
Alignment explanation
Indices: 65713466--65713510 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
65713456 AAAGTATTTT
65713466 AAAAATATTTTAAAA
1 AAAAATATTTTAAAA
*
65713481 TAAAAA-A-ATTAAAA
1 -AAAAATATTTTAAAA
65713495 AAAAATATTTTAAAA
1 AAAAATATTTTAAAA
65713510 A
1 A
65713511 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 8 0.32
16 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATATTTTAAAA
Found at i:65713550 original size:33 final size:32
Alignment explanation
Indices: 65713485--65713562 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
65713475 TTAAAATAAA
65713485 AAAATTAAAAAAAAATATTTTAAAAATATTTT
1 AAAATTAAAAAAAAATATTTTAAAAATATTTT
*
65713517 AAAATTAAAAAAAAGTATTTTAAAAATATTTTT
1 AAAATTAAAAAAAAATATTTTAAAAATA-TTTT
65713550 AAAATTAAAAAAA
1 AAAATTAAAAAAA
65713563 TTAAAAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.61
33 17 0.39
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (32 bp):
AAAATTAAAAAAAAATATTTTAAAAATATTTT
Found at i:65714566 original size:38 final size:38
Alignment explanation
Indices: 65714508--65714582 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
65714498 TCATATTATC
* *
65714508 AAAATCAAACGCGATCAATACGAATCAAAATTTTAATT
1 AAAATCAAACGCAATAAATACGAATCAAAATTTTAATT
* *
65714546 AAAATTAAACGCAATAAATACGAATTAAAATTTTAAT
1 AAAATCAAACGCAATAAATACGAATCAAAATTTTAAT
65714583 CGATGCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (38 bp):
AAAATCAAACGCAATAAATACGAATCAAAATTTTAATT
Found at i:65724911 original size:30 final size:32
Alignment explanation
Indices: 65724851--65724960 Score: 86
Period size: 31 Copynumber: 3.6 Consensus size: 32
65724841 TTAATATAAT
*
65724851 ATTTGGTATCTGAATTTTGGTTTTAATGTTCA
1 ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
65724883 ATTTGGTACCT-AA-TTT-GTTTTCAATGTTCA
1 ATTTGGTACCTGAATTTTGGTTTT-AATGTTCA
* * ** * * * *
65724913 CTTTAGTATTTG-AGTTTAGCTTTAATGTTTA
1 ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
*
65724944 ATTTGGTACAT-AATTTT
1 ATTTGGTACCTGAATTTT
65724961 TTCTTTATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
29 5 0.08
30 19 0.31
31 23 0.38
32 14 0.23
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (32 bp):
ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
Found at i:65734334 original size:40 final size:42
Alignment explanation
Indices: 65734279--65734380 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
65734269 ATACACCAGT
** *
65734279 TTGGCACTTAGTGCCTCATCAG-AT-AATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCAGAATCAATCCGAAGTAATAAA
*
65734319 TTGGCACCCAGTGCCTCATC-GAATCAATCCGAAGTAGTAAA
1 TTGGCACCCAGTGCCTCATCAGAATCAATCCGAAGTAATAAA
* *
65734360 TTGGCACCCAATGTCTCATCA
1 TTGGCACCCAGTGCCTCATCA
65734381 ACTCAAAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 20 0.38
41 32 0.60
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TTGGCACCCAGTGCCTCATCAGAATCAATCCGAAGTAATAAA
Found at i:65736488 original size:9 final size:10
Alignment explanation
Indices: 65736459--65736485 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65736449 TATATATTTA
65736459 TTTTAATTAT
1 TTTTAATTAT
65736469 TTTTAATTAT
1 TTTTAATTAT
65736479 TTTTAAT
1 TTTTAAT
65736486 ATTACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:65736897 original size:30 final size:30
Alignment explanation
Indices: 65736863--65736921 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65736853 AATCGGGCCA
65736863 AATCAAAAATTCATGTATA-AAATTACACAG
1 AATC-AAAATTCATGTATACAAATTACACAG
* *
65736893 AATCAAAGTTCTTGTATACAAATTACACA
1 AATCAAAATTCATGTATACAAATTACACA
65736922 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AATCAAAATTCATGTATACAAATTACACAG
Found at i:65740981 original size:23 final size:22
Alignment explanation
Indices: 65740941--65740992 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
65740931 GGCGAAGTGT
*
65740941 AATTTTATAATTATTAATTTAA
1 AATTTTATAATTAGTAATTTAA
65740963 AATTTTATAAATTAGTAATTTAA
1 AATTTTAT-AATTAGTAATTTAA
65740986 AATTTTA
1 AATTTTA
65740993 GAGGGGACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATAATTAGTAATTTAA
Found at i:65745435 original size:45 final size:45
Alignment explanation
Indices: 65745386--65745471 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
65745376 ATAGACTTAA
65745386 AAAATGAACT-TAGAAAAAAAAAATTGATCAAATTAATTGGGTCCG
1 AAAATGAACTATA-AAAAAAAAAATTGATCAAATTAATTGGGTCCG
*** * * *
65745431 AAAATTTCCTATATATAAAAAGATTGATCAAATTAATTGGG
1 AAAATGAACTATAAAAAAAAAAATTGATCAAATTAATTGGG
65745472 CTTAGGCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 32 0.94
46 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (45 bp):
AAAATGAACTATAAAAAAAAAAATTGATCAAATTAATTGGGTCCG
Found at i:65761770 original size:31 final size:31
Alignment explanation
Indices: 65761724--65761787 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
65761714 TTACTATAAT
*
65761724 TTGGTCAATTCTAGTCTCTTTACTTTTCGAA
1 TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
* * * *
65761755 TTGGTCGATTTTAGTCTCTGTATTTTTTGAA
1 TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
65761786 TT
1 TT
65761788 TCAAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (31 bp):
TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
Found at i:65764864 original size:2 final size:2
Alignment explanation
Indices: 65764857--65764882 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65764847 TGTAATTGAG
65764857 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65764883 GTAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65765422 original size:3 final size:3
Alignment explanation
Indices: 65765414--65765444 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
65765404 TTTTACGTTG
65765414 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65765445 ACATGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65770777 original size:26 final size:25
Alignment explanation
Indices: 65770729--65770777 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
65770719 GAGTAAACTG
*
65770729 ATTTTTTCTGTTAAAAATTACATCC
1 ATTTTTTCTGTTAAAAATAACATCC
65770754 ATTTTTAT-TGTTAAAAACTAACAT
1 ATTTTT-TCTGTTAAAAA-TAACAT
65770778 AATTGACAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTTTTTCTGTTAAAAATAACATCC
Found at i:65783413 original size:177 final size:174
Alignment explanation
Indices: 65783117--65783465 Score: 617
Period size: 177 Copynumber: 2.0 Consensus size: 174
65783107 AAATTATCCA
*
65783117 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGGCATTAAGGATACATAGCAA
1 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
65783182 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
66 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
65783247 TAGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACCCTTTTAACAG
131 T-GGCCCTCCCAAGAATTAAAATTTCAATTTAAGA--CTTTTAACAG
* * *
65783294 AAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACTTTTACATTAAGGATACGTAGCAA
1 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
* *
65783359 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTTGGTAAATGGAAATTTTGCATTT
66 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
65783424 TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAAC
131 TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAAC
65783466 GCAAAATTCA
Statistics
Matches: 166, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
174 8 0.05
176 33 0.20
177 125 0.75
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (174 bp):
AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAACAG
Found at i:65786170 original size:31 final size:32
Alignment explanation
Indices: 65786117--65786205 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 32
65786107 TATTATATCA
*
65786117 TTCAAAA-TTTTT-GAAAATTTTAATTAGATTC
1 TTCAAAAGTTTTTAGAAAA-TTTAATTAGAGTC
* *
65786148 TT-TAACGTTTTTAGAAAATTTAATTA-AGTC
1 TTCAAAAGTTTTTAGAAAATTTAATTAGAGTC
*
65786178 TTCAAAAG-TTTTAAAAAATTTAATTAGA
1 TTCAAAAGTTTTTAGAAAATTTAATTAGA
65786206 CCTCTACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 24 0.50
31 19 0.40
32 5 0.10
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (32 bp):
TTCAAAAGTTTTTAGAAAATTTAATTAGAGTC
Found at i:65786196 original size:30 final size:30
Alignment explanation
Indices: 65786087--65786205 Score: 91
Period size: 31 Copynumber: 3.9 Consensus size: 30
65786077 GACCTTAGCC
* * *
65786087 TCAAAA-TTTTGAAAAACTTTTATTATATCAT
1 TCAAAAGTTTT-AAAAAATTTAATTAGATC-T
* * *
65786118 TCAAAATTTTTGAAAATTTTAATTAGATTCT
1 TCAAAAGTTTTAAAAAATTTAATTAGA-TCT
* * *
65786149 T-TAACGTTTTTAGAAAATTTAATTA-AGTCT
1 TCAAAAG-TTTTAAAAAATTTAATTAGA-TCT
65786179 TCAAAAGTTTTAAAAAATTTAATTAGA
1 TCAAAAGTTTTAAAAAATTTAATTAGA
65786206 CCTCTACTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
30 24 0.35
31 39 0.57
32 6 0.09
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (30 bp):
TCAAAAGTTTTAAAAAATTTAATTAGATCT
Found at i:65795439 original size:195 final size:192
Alignment explanation
Indices: 65795100--65795489 Score: 636
Period size: 195 Copynumber: 2.0 Consensus size: 192
65795090 CATCCAATCA
* *
65795100 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATTCAAACAAAATATCTACT
1 AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
65795165 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGGAAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGGAAGGCCTT
65795230 CGGGAAATGGAAAATTTGCATTTTAGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACCCTTTT
131 CGGGAAATGGAAAATTTGCATTTT-GGCCCTCCCAAGAATTAAAATTTCAATTTAAGA--CTTTT
* * * *
65795295 AACAGCAGCAAAAAATTTATTCGAAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACT
1 AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
* * *
65795360 TTGACATTAAGGATACGTAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGGAAGGCCTT
* * * *
65795425 TGGTAAATGGAAAATTTGCATTTTGGTCCTCCCAATAATTAAAATTTCAATTTAAGACTTTT
131 CGGGAAATGGAAAATTTGCATTTTGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTT
65795487 AAC
1 AAC
65795490 GCAAAATTCA
Statistics
Matches: 182, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
192 8 0.04
194 31 0.17
195 143 0.79
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (192 bp):
AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGGAAGGCCTT
CGGGAAATGGAAAATTTGCATTTTGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTT
Found at i:65796544 original size:31 final size:31
Alignment explanation
Indices: 65796484--65796544 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
65796474 TATCATCCTA
* **
65796484 GTAACTTATATAAAAACTTTTGAACAGTTCG
1 GTAACTTAAATAAAAACTTTCAAACAGTTCG
* *
65796515 GTAACTTAAATAGAAACTTTCAAATAGTTC
1 GTAACTTAAATAAAAACTTTCAAACAGTTC
65796545 ATTTTGTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (31 bp):
GTAACTTAAATAAAAACTTTCAAACAGTTCG
Found at i:65804482 original size:20 final size:20
Alignment explanation
Indices: 65804457--65804494 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65804447 CTATAAATAT
65804457 TTTTGAAATTTTGAAGATAG
1 TTTTGAAATTTTGAAGATAG
*
65804477 TTTTGAAATTTTGTAGAT
1 TTTTGAAATTTTGAAGAT
65804495 TTTATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTTGAAATTTTGAAGATAG
Found at i:65805582 original size:5 final size:5
Alignment explanation
Indices: 65805540--65805598 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
65805530 GACCCTTTCT
* * *
65805540 TTTTC TTTTC TTTTA TTATTA -TTTA TTTCCTT TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTT--TA TTTTA TTTTA TTTTA
65805587 TTTTA TTTTA TT
1 TTTTA TTTTA TT
65805599 ATTACTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.06
5 37 0.79
6 3 0.06
7 4 0.09
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:65808800 original size:23 final size:20
Alignment explanation
Indices: 65808763--65808805 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
65808753 TAACAAAAGA
65808763 ATATATTTTATATTAATATTT
1 ATATATTTTATATTAA-ATTT
65808784 ATATATTTTAATAATTAAATTT
1 ATATATTTT-AT-ATTAAATTT
65808806 TCGTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTTTATATTAAATTT
Found at i:65811573 original size:25 final size:25
Alignment explanation
Indices: 65811544--65811595 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
65811534 ATGTAAAGGC
*
65811544 AAACAAAACCATAACTAATAGTAAA
1 AAACAAAACCATAACTAAAAGTAAA
*
65811569 AAACAAAACCATATCTAAAAGTAAA
1 AAACAAAACCATAACTAAAAGTAAA
65811594 AA
1 AA
65811596 GTAAATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.65, C:0.15, G:0.04, T:0.15
Consensus pattern (25 bp):
AAACAAAACCATAACTAAAAGTAAA
Found at i:65815703 original size:11 final size:12
Alignment explanation
Indices: 65815687--65815722 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
65815677 AAAAAAAAAA
65815687 GAAGAGAG-AGG
1 GAAGAGAGAAGG
65815698 GAAGAGAGAAGG
1 GAAGAGAGAAGG
65815710 G-AGAGAGAAGG
1 GAAGAGAGAAGG
65815721 GA
1 GA
65815723 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:65816726 original size:40 final size:41
Alignment explanation
Indices: 65816677--65816997 Score: 361
Period size: 40 Copynumber: 7.9 Consensus size: 41
65816667 GTGTTTTTAG
65816677 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGATGTGA
* * *
65816717 TCTACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAG-ATAAGATC--TGGATGTGA
* * *
65816759 TCTGCTCCACTATTGCTTAGGGAGATAAGA-CTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGATGTGA
* *
65816799 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC--TGGATGTGA
* * * *
65816841 TCTGCTCCACTATTGCTTAGGGAGGTAAGA-CTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGATGTGA
* *
65816881 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC--TGGATGTGA
* * *
65816923 TCTGCTCCACTATTGCTTAGGGAGATAAGA-CTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGATGTGA
*
65816963 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG
65816998 TTTCTGTCTG
Statistics
Matches: 234, Mismatches: 32, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
39 13 0.06
40 114 0.49
41 9 0.04
42 83 0.35
43 15 0.06
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGATGTGA
Found at i:65816764 original size:82 final size:82
Alignment explanation
Indices: 65816676--65817009 Score: 582
Period size: 82 Copynumber: 4.1 Consensus size: 82
65816666 TGTGTTTTTA
* * * *
65816676 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCACTACTGCTTAGGG-G
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
65816740 AATAAGATCTGTGGTTCT
66 -ATAAGATCTGTGGTTCT
65816758 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
65816823 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
65816840 GTCTGCTCCACTATTGCTTAGGGAGGTAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
65816905 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
65816922 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
65816987 ATAAGATCTG-GTTTCT
66 ATAAGATCTGTGGTTCT
65817003 GTCTGCT
1 GTCTGCT
65817010 AGAGAAGTGA
Statistics
Matches: 243, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
81 12 0.05
82 230 0.95
83 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (82 bp):
GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTCT
Found at i:65817171 original size:50 final size:49
Alignment explanation
Indices: 65817019--65817294 Score: 182
Period size: 50 Copynumber: 5.6 Consensus size: 49
65817009 TAGAGAAGTG
* **
65817019 AGATTCACCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAA-CA
1 AGATTCGCCGTTGTGGCTTCAATCT-ATTAATTGCAATGTCAAGGAAGCA
* ** * * * *
65817068 AGATTCGCCGTTGTAGCTTCAATCTGATCCACTGC-ATCGCCAAGAAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-ATTAATTGCAAT-GTCAAGGAAGCA
* * *
65817118 AGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCAAGGAAGCA
1 AGATTCGCCGTTGTGGCTTCAATCTATT-AATTGCAATGTCAAGGAAGCA
* * * * * ** * * * * **
65817168 AGATTCGCCATCGTAGCTTTAATCTGCTGCACTGTACTG-CCAGAGAAGTG
1 AGATTCGCCGTTGTGGCTTCAATCT-ATTAATTGCAATGTCAAG-GAAGCA
* **
65817218 AGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CA
1 AGATTCGCCGTTGTGGCTTCAATCT-ATTAATTGCAATGTCAAGGAAGCA
* *
65817267 AGATTTGCCGTTGTAGCTTCAATCTATT
1 AGATTCGCCGTTGTGGCTTCAATCTATT
65817295 CCACTGCTGT
Statistics
Matches: 167, Mismatches: 53, Indels: 15
0.71 0.23 0.06
Matches are distributed among these distances:
48 4 0.02
49 62 0.37
50 96 0.57
51 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (49 bp):
AGATTCGCCGTTGTGGCTTCAATCTATTAATTGCAATGTCAAGGAAGCA
Found at i:65817222 original size:100 final size:99
Alignment explanation
Indices: 65817001--65817300 Score: 376
Period size: 100 Copynumber: 3.0 Consensus size: 99
65816991 GATCTGGTTT
* * **
65817001 CTGT-CTGCTAGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGA
1 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
65817065 ACAAGATTCGCCGTTGTAGCTTCAATCTGATCCA
66 ACAAGATTCGCCGTTGTAGCTTCAATCTGATCCA
* * * * **
65817099 CTGCA-TCGCCA-AGAAAGTAAGATTCGCCGTTGCGGCTTCAATCT-TTTAAATTGCAATATCAA
1 CTGTACT-GCCAGAG-AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGTCGG
* * * * *
65817161 GGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTGCA
63 GGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCA
65817199 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
1 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
*
65817264 ACAAGATTTGCCGTTGTAGCTTCAATCT-ATTCCA
66 ACAAGATTCGCCGTTGTAGCTTCAATCTGA-TCCA
65817298 CTG
1 CTG
65817301 CTGTCCAGGG
Statistics
Matches: 167, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
98 8 0.05
99 74 0.44
100 79 0.47
101 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (99 bp):
CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
ACAAGATTCGCCGTTGTAGCTTCAATCTGATCCA
Found at i:65817632 original size:132 final size:132
Alignment explanation
Indices: 65817444--65818201 Score: 1311
Period size: 132 Copynumber: 5.7 Consensus size: 132
65817434 CAAATACAGG
* * * * *
65817444 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAATATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
65817509 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
65817574 AA
131 AA
* * *
65817576 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTTGG
1 GACAAGATCTGCTTTCT-TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
* *
65817640 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
65817705 GAA
130 GAA
* *
65817708 GACAAGATCTGCTTTCTGCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
65817773 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
65817838 AA
131 AA
*
65817840 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
65817905 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
65817970 AA
131 AA
65817972 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
65818037 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
65818102 AA
131 AA
*
65818104 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
65818169 TCCACTTCCTACTAATATAGGAAGATAGCACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
65818202 ATTTACGCCT
Statistics
Matches: 608, Mismatches: 16, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
132 607 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:65818916 original size:44 final size:45
Alignment explanation
Indices: 65818853--65818939 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 45
65818843 AGGTGCCCAG
65818853 ATATCGTAGCATGAGCTTCTCTGCCCCAAACTTCTT-AAGGACAC
1 ATATCGTAGCATGAGCTTCTCTGCCCCAAACTTCTTAAAGGACAC
65818897 ATATCGTAGCATGAGCTTCTCTGCCCCAAACTTCTTAAAGGAC
1 ATATCGTAGCATGAGCTTCTCTGCCCCAAACTTCTTAAAGGAC
65818940 CCTTTTGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 36 0.86
45 6 0.14
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (45 bp):
ATATCGTAGCATGAGCTTCTCTGCCCCAAACTTCTTAAAGGACAC
Found at i:65831152 original size:11 final size:12
Alignment explanation
Indices: 65831138--65831173 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
65831128 AAAAAAAAAA
65831138 GAAGAGAG-AGG
1 GAAGAGAGAAGG
65831149 GAAGAGAGAAGG
1 GAAGAGAGAAGG
65831161 G-AGAGAGAAGG
1 GAAGAGAGAAGG
65831172 GA
1 GA
65831174 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:65833356 original size:23 final size:23
Alignment explanation
Indices: 65833330--65833402 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
65833320 AGTGCCACAT
65833330 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
65833353 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
65833376 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
65833399 TGAT
1 TGAT
65833403 CAATAACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:65833502 original size:8 final size:8
Alignment explanation
Indices: 65833489--65833517 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
65833479 ACCCGGGACT
65833489 CACTGTAA
1 CACTGTAA
65833497 CACTGTAA
1 CACTGTAA
65833505 CACTGTAA
1 CACTGTAA
65833513 CACTG
1 CACTG
65833518 GTCTCTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:65833662 original size:18 final size:17
Alignment explanation
Indices: 65833636--65833674 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
65833626 ATTTTCCTTC
65833636 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
65833653 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
65833671 CACA
1 CACA
65833675 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:65835509 original size:21 final size:21
Alignment explanation
Indices: 65835480--65835520 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65835470 TGTATAATTT
65835480 TTTTACATTAATTTATTTTTA
1 TTTTACATTAATTTATTTTTA
* * *
65835501 TTTTGCATTATTTTCTTTTT
1 TTTTACATTAATTTATTTTT
65835521 TTATGTTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTACATTAATTTATTTTTA
Found at i:65848771 original size:17 final size:18
Alignment explanation
Indices: 65848734--65848772 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65848724 GGTAGTTAAA
65848734 AAATTAATTTTCAAAATT
1 AAATTAATTTTCAAAATT
* *
65848752 AAATTTATTTT-AATATT
1 AAATTAATTTTCAAAATT
65848769 AAAT
1 AAAT
65848773 AAATCTCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTAATTTTCAAAATT
Found at i:65860834 original size:16 final size:16
Alignment explanation
Indices: 65860815--65860845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65860805 TATTTTTTTT
*
65860815 TATTGATATTGATATA
1 TATTGATATCGATATA
65860831 TATTGATATCGATAT
1 TATTGATATCGATAT
65860846 GTTCTGATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (16 bp):
TATTGATATCGATATA
Found at i:65862136 original size:19 final size:20
Alignment explanation
Indices: 65862098--65862137 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
65862088 TGGTGGACTT
* *
65862098 TTTTGAATTATTTTATTTTA
1 TTTTAAATTATTTTAATTTA
65862118 TTTTAAATT-TTTTAATTTA
1 TTTTAAATTATTTTAATTTA
65862137 T
1 T
65862138 AATTAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTAAATTATTTTAATTTA
Found at i:65863286 original size:19 final size:19
Alignment explanation
Indices: 65863264--65863310 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
65863254 TTTTACAACA
* *
65863264 TTCATTTTTCTTTAAATTT
1 TTCATTTTCCTTTAAAGTT
65863283 TTCATTTTCCTTTAAAGTT
1 TTCATTTTCCTTTAAAGTT
65863302 TTCATTTTC
1 TTCATTTTC
65863311 AATTATGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.02, T:0.64
Consensus pattern (19 bp):
TTCATTTTCCTTTAAAGTT
Found at i:65869695 original size:31 final size:30
Alignment explanation
Indices: 65869659--65869729 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
65869649 ATAATCATTA
65869659 AACTATTTAAAA-TTTTGCATTTAAGTTATTG
1 AACTA-TTAAAAGTTTT-CATTTAAGTTATTG
*
65869690 AACTATTAAAAGGTTTTTATTTAAGTTATTG
1 AACTATTAAAA-GTTTTCATTTAAGTTATTG
* *
65869721 GACTGTTAA
1 AACTATTAA
65869730 GTTTTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.17
31 25 0.71
32 4 0.11
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (30 bp):
AACTATTAAAAGTTTTCATTTAAGTTATTG
Found at i:65871870 original size:12 final size:12
Alignment explanation
Indices: 65871849--65871880 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
65871839 TGAATAAATG
65871849 AATAATAATGAT
1 AATAATAATGAT
*
65871861 AATGATAATGAT
1 AATAATAATGAT
65871873 AATAATAA
1 AATAATAA
65871881 CTTTAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:65872204 original size:22 final size:20
Alignment explanation
Indices: 65872173--65872213 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
65872163 TAGTTTTTAA
65872173 TAATACAAATGGATGAAATTTT
1 TAATACAAAT-GAT-AAATTTT
*
65872195 TAATAGAAATGATAAATTT
1 TAATACAAATGATAAATTT
65872214 GCTTTTTGAT
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:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (20 bp):
TAATACAAATGATAAATTTT
Found at i:65875542 original size:31 final size:30
Alignment explanation
Indices: 65875504--65875580 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
65875494 AATCTTAAAA
*
65875504 TTATACATAAATTTTGGCTTAGTGTGTAATT
1 TTATACATAAATTTTGGATT-GTGTGTAATT
* *
65875535 TTATACATAAACTTT-GATTTTGTGTAATT
1 TTATACATAAATTTTGGATTGTGTGTAATT
*
65875564 TTATATATGAAATTTTG
1 TTATACAT-AAATTTTG
65875581 ATTTGATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 16 0.41
30 9 0.23
31 14 0.36
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (30 bp):
TTATACATAAATTTTGGATTGTGTGTAATT
Found at i:65880684 original size:22 final size:21
Alignment explanation
Indices: 65880639--65880681 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
65880629 GAAAAATATT
65880639 AAATATATATTTTTTATTTTTA
1 AAATATATATTTTTTA-TTTTA
65880661 AAATATAATAGTTTTTTATTT
1 AAATAT-ATA-TTTTTTATTT
65880682 AAAGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
AAATATATATTTTTTATTTTA
Found at i:65880793 original size:9 final size:9
Alignment explanation
Indices: 65880779--65880806 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
65880769 TTTTGTTACA
65880779 ACAATTAAT
1 ACAATTAAT
65880788 ACAATTAAT
1 ACAATTAAT
65880797 ACAATTAAT
1 ACAATTAAT
65880806 A
1 A
65880807 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:65880828 original size:68 final size:68
Alignment explanation
Indices: 65880749--65880967 Score: 325
Period size: 77 Copynumber: 3.1 Consensus size: 68
65880739 TCAAGTTTGT
*
65880749 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
65880814 AAA
66 AAA
65880817 TTTACTAATCAAATGTTAGATTTTATTATAACAATTAATACAATTAATACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTA-T-T-AC-----A-ACAATTAATACAATTAATACAATTAA
65880882 TAATTTGATAAA
57 TAATTTGATAAA
65880894 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
65880957 AAT
66 AAA
65880960 TTTACTAA
1 TTTACTAA
65880968 CAATTAATTT
Statistics
Matches: 140, Mismatches: 2, Indels: 20
0.86 0.01 0.12
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 39 0.28
69 2 0.01
70 1 0.01
71 2 0.01
74 2 0.01
75 1 0.01
76 2 0.01
77 63 0.45
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:65880859 original size:9 final size:9
Alignment explanation
Indices: 65880847--65880883 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
65880837 TTTTATTATA
65880847 ACAATTAAT
1 ACAATTAAT
65880856 ACAATTAAT
1 ACAATTAAT
65880865 ACAATTAAT
1 ACAATTAAT
65880874 ACAATTAAT
1 ACAATTAAT
65880883 A
1 A
65880884 ATTTGATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:65880977 original size:16 final size:16
Alignment explanation
Indices: 65880956--65880997 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
65880946 AATAATTTGA
*
65880956 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
65880972 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
65880988 TAGTTTTAAT
1 TAATTTTAAT
65880998 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:65880981 original size:22 final size:22
Alignment explanation
Indices: 65880971--65881031 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
65880961 TTACTAACAA
* *
65880971 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATATAA-AAATAATT
*
65880993 TTAATTTTATTTAAAAATAATT
1 TTAATTTTATATAAAAATAATT
65881015 TTAATTTTA-ATTAAAAA
1 TTAATTTTATA-TAAAAA
65881032 CGGGTCGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATTTTATATAAAAATAATT
Found at i:65880986 original size:59 final size:65
Alignment explanation
Indices: 65880851--65880989 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 65
65880841 ATTATAACAA
65880851 TTAAT-ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAT
1 TTAATAACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGAT
65880915 T
65 T
* *
65880916 TTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-A
1 TTA--ATAACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGA
65880975 TT
64 TT
65880977 TTAATAACAATTA
1 TTAATAACAATTA
65880990 GTTTTAATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
59 9 0.13
61 6 0.09
62 3 0.04
64 2 0.03
65 4 0.06
66 27 0.40
67 2 0.03
68 15 0.22
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (65 bp):
TTAATAACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATT
Found at i:65883711 original size:43 final size:42
Alignment explanation
Indices: 65883581--65883715 Score: 191
Period size: 42 Copynumber: 3.2 Consensus size: 42
65883571 AGTCTCACAG
* *
65883581 TTAATCCCGCCTCAATTAGGATTTACCTTTTTAACTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAACTTTTCAT
* *
65883623 TTAATCCCACCTCAATTAAGAATTATCTTTTTAACTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAACTTTTCAT
**
65883665 TTAATCCCATCC-CAATTAGGATTTATCTTTTTTATTTTTTCAT
1 TTAATCCCA-CCTCAATTAGGATTTATC-TTTTTAACTTTTCAT
65883708 TTAATCCC
1 TTAATCCC
65883716 TCTTTGCTAC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 60 0.72
43 23 0.28
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.47
Consensus pattern (42 bp):
TTAATCCCACCTCAATTAGGATTTATCTTTTTAACTTTTCAT
Found at i:65886718 original size:11 final size:11
Alignment explanation
Indices: 65886702--65886727 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65886692 ACAAAACATC
65886702 AAATATTCGAT
1 AAATATTCGAT
65886713 AAATATTCGAT
1 AAATATTCGAT
65886724 AAAT
1 AAAT
65886728 GGATTATGAA
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:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (11 bp):
AAATATTCGAT
Found at i:65888167 original size:29 final size:30
Alignment explanation
Indices: 65888133--65888205 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
65888123 ATGGGGACTA
* *
65888133 GATCAAATTAGTCCCTCTATTATT-AAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
* *
65888162 GATCAATTTAGTCCTTATAATATTAAAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
*
65888192 GATCAAATAAGTCC
1 GATCAAATTAGTCC
65888206 AAATTGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
GATCAAATTAGTCCCTATAATATTAAAAAG
Found at i:65897900 original size:36 final size:34
Alignment explanation
Indices: 65897853--65897924 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
65897843 CATTTTATTG
65897853 TTTTATAATT-AATTATAAATATAAAAATAATTTTA
1 TTTTATAATTAAATT-TAAATA-AAAAATAATTTTA
* *
65897888 TTTTAATAATTAAATTTAAATAAAAATTATTTTTA
1 TTTT-ATAATTAAATTTAAATAAAAAATAATTTTA
65897923 TT
1 TT
65897925 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.52
36 12 0.36
37 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
TTTTATAATTAAATTTAAATAAAAAATAATTTTA
Found at i:65900490 original size:18 final size:19
Alignment explanation
Indices: 65900459--65900495 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
65900449 AATTAGATTT
*
65900459 TTTATATTTTTATTCTTGA
1 TTTATATTTATATTCTTGA
65900478 TTTA-ATTTATATTCTTGA
1 TTTATATTTATATTCTTGA
65900496 GTCAGTAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTATATTTATATTCTTGA
Found at i:65900751 original size:18 final size:18
Alignment explanation
Indices: 65900728--65900763 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65900718 AATGATTTTC
*
65900728 TGTCTTAACCTATAATGA
1 TGTCTTAACCTAGAATGA
*
65900746 TGTCTTAATCTAGAATGA
1 TGTCTTAACCTAGAATGA
65900764 GATACTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TGTCTTAACCTAGAATGA
Found at i:65904056 original size:3 final size:3
Alignment explanation
Indices: 65904050--65904078 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65904040 AACCATATAC
65904050 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
65904079 ACCTACAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:65911785 original size:2 final size:2
Alignment explanation
Indices: 65911778--65911804 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65911768 GTAATTTAAA
65911778 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
65911805 AAGCTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65923193 original size:32 final size:32
Alignment explanation
Indices: 65923152--65923212 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
65923142 GGGGTTAAGA
65923152 AATTTATAGCATTAAGGTCCCACTAATCTTGT
1 AATTTATAGCATTAAGGTCCCACTAATCTTGT
65923184 AATTTATAGCATTAAGGTCCCACTAATCT
1 AATTTATAGCATTAAGGTCCCACTAATCT
65923213 CATTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (32 bp):
AATTTATAGCATTAAGGTCCCACTAATCTTGT
Found at i:65938809 original size:2 final size:2
Alignment explanation
Indices: 65938797--65938826 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
65938787 TAAAGTATCA
65938797 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
65938827 GGGGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:65939050 original size:81 final size:81
Alignment explanation
Indices: 65938956--65939205 Score: 374
Period size: 81 Copynumber: 3.1 Consensus size: 81
65938946 TGGAGCATGT
* * *
65938956 AGCATGTGCCTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
65939021 ATCAACACAACATTAG
66 ATCAACACAACATTGG
* *
65939037 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACACATGGAACTTCAAAAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
65939102 ATCAACACAACAATGG
66 ATCAACACAACATTGG
* * * * *
65939118 CGCATGGGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAATTGCAATAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
65939183 ATCAACATAACATTGG
66 ATCAACACAACATTGG
*
65939199 AGTATGT
1 AGCATGT
65939206 AGCATCTGCC
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 150 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (81 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
ATCAACACAACATTGG
Found at i:65939188 original size:162 final size:164
Alignment explanation
Indices: 65938900--65939205 Score: 438
Period size: 162 Copynumber: 1.9 Consensus size: 164
65938890 GCATGAAGTT
* *
65938900 TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACATTGGAGCATGTAGCATGTGC
1 TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGC----AGCATGGGC
65938965 CTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACA
62 CTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACA
65939030 ACATTAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
127 ACATTAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
*
65939068 TTGGACCAACACATGGAACTTCAAAAGAGTTGGAATCAACACAACAAT-G-GC-GCATGGGCCTT
1 TTGGACCAAC-CATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCAGCATGGGCCTT
* * * * * * *
65939130 CTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAATTGCAATAGAGTTGGAATCAACATAACA
65 CTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACAACA
* *
65939195 TTGGAGTATGT
130 TTAGAGCATGT
65939206 AGCATCTGCC
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
162 77 0.62
167 2 0.02
168 11 0.09
169 35 0.28
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (164 bp):
TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCAGCATGGGCCTTC
TTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACAACAT
TAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
Found at i:65948302 original size:19 final size:18
Alignment explanation
Indices: 65948278--65948318 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
65948268 AAAATAGTAC
*
65948278 AAAAATAAATTATATTTA
1 AAAAATAAATTAAATTTA
*
65948296 TAAAAATAATTTAAATTTA
1 -AAAAATAAATTAAATTTA
65948315 AAAA
1 AAAA
65948319 TAATCACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATAAATTAAATTTA
Found at i:65948346 original size:29 final size:29
Alignment explanation
Indices: 65948298--65948355 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
65948288 TATATTTATA
* *
65948298 AAAATAATTTAAATTTAAAAATAATCACT
1 AAAATAATTTAAAATGAAAAATAATCACT
* *
65948327 AAAATAATTTAAAATGAAAAGTACTCACT
1 AAAATAATTTAAAATGAAAAATAATCACT
65948356 CTTTTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAATAATTTAAAATGAAAAATAATCACT
Found at i:65948741 original size:109 final size:109
Alignment explanation
Indices: 65948613--65948927 Score: 521
Period size: 109 Copynumber: 2.9 Consensus size: 109
65948603 CGAAAAAAAA
*
65948613 TTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTCTTTTTATTTTTTT
1 TTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTT
*
65948678 CGTATATTTATATCTGATTCTAACACGAAAAAAAAAG-AATTTT
66 CGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAATTTT
* *
65948721 TTTTAAAATTTGTACTGGGTGCCGGCCATTGACAAGCCAGCGCCCAAAAATTTTTTTTAATTTTT
1 TTTT-AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTT-ATTTTT
65948786 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAATTTT
64 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAATTTT
* * *
65948832 TTTT-AATTTGTACTGGGTGCCGGTCATTGATAGGCCAGCACTC--AAATTTTTTTTATTTTTTT
1 TTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTT
65948894 CGTATATTTATATCTGATTCTGACACGAAAAAAA
66 CGTATATTTATATCTGATTCTGACACGAAAAAAA
65948928 TTATTTTTTT
Statistics
Matches: 195, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
106 42 0.22
107 11 0.06
108 4 0.02
109 84 0.43
110 44 0.23
111 10 0.05
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (109 bp):
TTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTATTTTTTT
CGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAATTTT
Found at i:65950294 original size:14 final size:14
Alignment explanation
Indices: 65950254--65950295 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
65950244 AATGGGTCCT
65950254 AAATATGTGGTCTG
1 AAATATGTGGTCTG
*
65950268 AAA-ATGATTGTCTG
1 AAATATG-TGGTCTG
65950282 AAATATGTGGTCTG
1 AAATATGTGGTCTG
65950296 TCAGCCACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (14 bp):
AAATATGTGGTCTG
Found at i:65953317 original size:7 final size:7
Alignment explanation
Indices: 65953305--65953329 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
65953295 GAAAATCAAA
65953305 GTGGTAG
1 GTGGTAG
65953312 GTGGTAG
1 GTGGTAG
65953319 GTGGTAG
1 GTGGTAG
65953326 GTGG
1 GTGG
65953330 GAAAGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.60, T:0.28
Consensus pattern (7 bp):
GTGGTAG
Found at i:65955727 original size:25 final size:25
Alignment explanation
Indices: 65955699--65955773 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
65955689 CGGACACACC
*
65955699 ACAGTTCACATGAGCTTCCCGTTAT
1 ACAGTTCGCATGAGCTTCCCGTTAT
* *
65955724 ACAGCTCGCATGAGCTTCCCATTAT
1 ACAGTTCGCATGAGCTTCCCGTTAT
* *
65955749 TCAGCTT-GCATGAGCTTTCCGTTAT
1 ACAG-TTCGCATGAGCTTCCCGTTAT
65955774 TCAGCTCGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
ACAGTTCGCATGAGCTTCCCGTTAT
Found at i:65955774 original size:25 final size:25
Alignment explanation
Indices: 65955707--65955790 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
65955697 CCACAGTTCA
*
65955707 CATGAGCTTCCCGTTATACAGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
* *
65955732 CATGAGCTTCCCATTATTCAGCTTG
1 CATGAGCTTCCCGTTATTCAGCTCG
*
65955757 CATGAGCTTTCCGTTATTCAGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
* *
65955782 AAAGAGCTT
1 CATGAGCTT
65955791 ACTGTTTACA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.32
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATTCAGCTCG
Found at i:65956744 original size:17 final size:17
Alignment explanation
Indices: 65956722--65956764 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
65956712 GTGTGCCTCA
65956722 GCTGTGTGTGACACACG
1 GCTGTGTGTGACACACG
65956739 GCTGTGTGTGACACACG
1 GCTGTGTGTGACACACG
65956756 GCTGTGTGT
1 GCTGTGTGT
65956765 CCCCTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.21, G:0.37, T:0.28
Consensus pattern (17 bp):
GCTGTGTGTGACACACG
Found at i:65958316 original size:22 final size:21
Alignment explanation
Indices: 65958291--65958333 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
65958281 AAAATTTGAA
65958291 TTAAGAAAAAAAAACAGAAAAT
1 TTAA-AAAAAAAAACAGAAAAT
* *
65958313 TTAAAGAAAAAAAGAGAAAAT
1 TTAAAAAAAAAAACAGAAAAT
65958334 GATAACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (21 bp):
TTAAAAAAAAAAACAGAAAAT
Found at i:65961777 original size:54 final size:54
Alignment explanation
Indices: 65961713--65961818 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
65961703 ACGATGATCG
*
65961713 GCAATATTTTTTAAACCGAATTGATAATTAAATCGATCAAATCACTAATTTACC
1 GCAATATTTTTTAAACCGAATCGATAATTAAATCGATCAAATCACTAATTTACC
*
65961767 GCAATATTTTTTAAACCGGATCGATAATTAAATCGATCAAATCACTAATTTA
1 GCAATATTTTTTAAACCGAATCGATAATTAAATCGATCAAATCACTAATTTA
65961819 TCGATCTGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (54 bp):
GCAATATTTTTTAAACCGAATCGATAATTAAATCGATCAAATCACTAATTTACC
Found at i:65961846 original size:29 final size:29
Alignment explanation
Indices: 65961812--65961868 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
65961802 ATCAAATCAC
*
65961812 TAATTTATCGATCTGATCAATCTGATAAT
1 TAATTTACCGATCTGATCAATCTGATAAT
65961841 TAATTTACCGATCTGATCAATCTGATAA
1 TAATTTACCGATCTGATCAATCTGATAA
65961869 AAAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (29 bp):
TAATTTACCGATCTGATCAATCTGATAAT
Found at i:65970557 original size:17 final size:17
Alignment explanation
Indices: 65970535--65970571 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
65970525 GTCATAAGAA
65970535 AAGAATCAAATCAAAGT
1 AAGAATCAAATCAAAGT
65970552 AAGAATCAAATCAAAGT
1 AAGAATCAAATCAAAGT
65970569 AAG
1 AAG
65970572 CACAAAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (17 bp):
AAGAATCAAATCAAAGT
Found at i:65971602 original size:21 final size:22
Alignment explanation
Indices: 65971552--65971610 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 22
65971542 GCGGGATATG
65971552 TAATAAAAAATTATAAAAAAAT
1 TAATAAAAAATTATAAAAAAAT
* * **
65971574 CAAT-AAAAATTAT-TAAATTT
1 TAATAAAAAATTATAAAAAAAT
65971594 TAAT-AAAAA-TATAAAAA
1 TAATAAAAAATTATAAAAA
65971611 TATCTAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 9 0.30
22 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATAAAAAATTATAAAAAAAT
Found at i:65971724 original size:21 final size:20
Alignment explanation
Indices: 65971698--65971761 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 20
65971688 TAAATACGAA
*
65971698 TCTTTTACGAATTTTATATTT
1 TCTTTTAC-ATTTTTATATTT
65971719 TCTTTTACATTATTTATATTT
1 TCTTTTACATT-TTTATATTT
65971740 T-TTTTACTATTTTTATGATTT
1 TCTTTTAC-ATTTTTAT-ATTT
65971761 T
1 T
65971762 TATAAAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 13 0.33
21 26 0.67
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
TCTTTTACATTTTTATATTT
Found at i:65972022 original size:50 final size:49
Alignment explanation
Indices: 65971920--65972023 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 49
65971910 ATTAATGGTC
65971920 AAAAAATTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGTAA
1 AAAAAATTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTG-AA
* ** * *
65971970 AAAAACTTTTTTGATGCATTTTAATAATTTAAGTACGTACTTGAGTGAA
1 AAAAAATTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGAA
65972019 AAAAA
1 AAAAA
65972024 TTAATGGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 7 0.14
50 42 0.86
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (49 bp):
AAAAAATTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGAA
Found at i:65972702 original size:22 final size:23
Alignment explanation
Indices: 65972651--65972702 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
65972641 ATAGAAATGG
65972651 ATAAATAATATAAAAATGATATT
1 ATAAATAATATAAAAATGATATT
* ***
65972674 A-ATATAATATCCTAAT-ATATT
1 ATAAATAATATAAAAATGATATT
65972695 ATAAATAA
1 ATAAATAA
65972703 AATATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAAATAATATAAAAATGATATT
Found at i:65972733 original size:35 final size:38
Alignment explanation
Indices: 65972663--65972733 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 38
65972653 AAATAATATA
* *
65972663 AAAATGATATTAATATAATATCCTAATATATTATAAAT
1 AAAATGATATAAATATAATATCCTAATATAATATAAAT
65972701 AAAAT-ATATAAATA-AAT-TCC-AATACTAATATAA
1 AAAATGATATAAATATAATATCCTAATA-TAATATAA
65972734 TATATATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
34 4 0.13
35 10 0.33
36 3 0.10
37 8 0.27
38 5 0.17
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (38 bp):
AAAATGATATAAATATAATATCCTAATATAATATAAAT
Found at i:65976020 original size:9 final size:9
Alignment explanation
Indices: 65975991--65976027 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
65975981 TGAGTTTTCG
65975991 AATTCGAAT
1 AATTCGAAT
*
65976000 AAGTCGAAT
1 AATTCGAAT
65976009 AATTCGAAT
1 AATTCGAAT
*
65976018 AATTAGAAT
1 AATTCGAAT
65976027 A
1 A
65976028 TTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:65976088 original size:20 final size:21
Alignment explanation
Indices: 65976063--65976105 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
65976053 ACCCCAAACT
* *
65976063 CCTAAACATTTTTACT-TTTC
1 CCTAAAAACTTTTACTCTTTC
65976083 CCTAAAAACTTTTACTCTTTC
1 CCTAAAAACTTTTACTCTTTC
65976104 CC
1 CC
65976106 ACTTTCCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (21 bp):
CCTAAAAACTTTTACTCTTTC
Done.