Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 57 of 133
Found at i:11782429 original size:19 final size:19
Alignment explanation
Indices: 11782405--11782441 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11782395 TTTTCACTCA
11782405 AAGATTCA-CTAAGAACTTT
1 AAGATTCATC-AAGAACTTT
11782424 AAGATTCATCAAGAACTT
1 AAGATTCATCAAGAACTT
11782442 ATGAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (19 bp):
AAGATTCATCAAGAACTTT
Found at i:11785983 original size:161 final size:161
Alignment explanation
Indices: 11785254--11787467 Score: 1679
Period size: 161 Copynumber: 13.9 Consensus size: 161
11785244 CATCAATTGC
* * * * * * *
11785254 AACTTATTGACACATATCAATCATGGAAACCAAGTTAAATCATTTGAATAAGTTTAATATTA-GA
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATG-
* * *
11785318 TATTTAAGATATCTAAACTTTTAAAATAGAAATTTAACTGCAAAATTATATTTTTACCTTTTAAC
65 TATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAAC
* *
11785383 GGCAC--AAAGTCCT-TACAGACATAAACCAT
130 GGCACAAAAAGTCCTAAACAGACATAAACTAT
* * *
11785412 AACTTTTTTACACATATCAATCATGAAAACCAAGTTTAATCATTTGGACAAGTTTAATATCATAT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* * * * *
11785477 ATTTAAGATGTCTAAACAGTTAAAATTGAAATATAACTGTAAAATTTTATTTTTGTCC-TTTAAC
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTG-CCTTTTAAC
* * * * * * *
11785541 GACATAAAAAGTCATACACAAACATAAACAAC
130 GGCACAAAAAGTCCTAAACAGACATAAACTAT
** * *** * * *
11785573 AACTTTTT--CACATATCAATTGTGAAAACCAAGTTCAATAATTCAAACAAGTTTAATATAAGGG
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* * * * * *
11785636 ATTTAAGATATCTAAACTTTTAAAACAAAAATATAATTGGAAAATTACATTTTTGCCTTTTAACG
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
* * ** *
11785701 GCACAAAAAGTCTTAAATAGATGTAAACCA-
131 GCACAAAAAGTCCTAAACAGACATAAACTAT
* * ** * * * * * * *
11785731 CATTTTTTCATGCATATCGAGCATGGAAACCCAGTTCAATCTTTTGAACAAGTTCAATATCATGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* ** *
11785796 ATTTAAGATATCTAAACTATTAAAATAGAAATATAACTATAAAATTATATTTTTGCCCTTTAACG
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
* * * *
11785861 ACATAAAAAGTCCTAAACAAACATAATCTAT
131 GCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * *
11785892 AACTTTTTCACATATATCAACCATTAAAACCAAGTTCAATCATTTGGACAAATTTAATATGATGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* * ** * * * * *
11785957 ATTGAAGCTATCTAAAGAGTTAAAATAGAACA-ATAA-TAGTAAATTTGTAATTTTGCATTTTAA
66 ATTTAAGATATCTAAACTGTTAAAATAGAA-ATATAACT-GCAAAATTATATTTTTGCCTTTTAA
** * * * * *
11786020 CGGCACAAAAAGTTATTAACAAACACAAACAAC
129 CGGCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * *
11786053 AACTTTTTCACACATATAAATCGTGGAAACCAAGTTCAATCATTCGGACAAGTTTAATATCATAT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
** ** * * * * * *
11786118 ATTTAACCTATCTAAACTACTAAAATATAAACATAATTGCAAAATTATATTTTTACCCTTTAACA
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
**
11786183 GCAC-AAAAGTCCTAAACAGACATAAACTGC
131 GCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * * *
11786213 AACCTTTTCACACATATCAATCATGAAAACCAAGTTTAATCATTCGAAGAAGTTTGATATCATGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* *
11786278 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATGTTTTTGCTTTTTAACG
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
* * *
11786343 GTACAAAAAGTTCTCAACAGACATAAATCGTAT
131 GCACAAAAAGTCCTAAACAGACATAAA-C-TAT
* ** * * * * * *
11786376 GA--TTTTCACACATATCAATTGTGGAAACCAAGTTCAATTATTTGAACAAGTTTAGTATTAGGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
** * *
11786439 ATTTATA-ATATCTAATTTTTTAAAAATAAAAATATAACTGCAAAATTATATTTTTG-CTATTTA
66 ATTTA-AGATATCTAAACTGTT-AAAATAGAAATATAACTGCAAAATTATATTTTTGCCT-TTTA
* * * *
11786502 ACCGCATAAAAAGTCCTAAACAAACATAAACCAT
128 ACGGCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * * * * *
11786536 AACTTTGTCACATATATCAACCATGGAAACCAAATGCAATTATTCT-GACAAGTTTAATATTATG
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATT-TGGACAAGTTTAATATCATG
* *** * * *
11786600 TATTTAAGATATCTAAACTGTTAAAATAGAAATACAACCAAAAAATTACATTTTTACCCTTTAAC
65 TATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAAC
** * * *
11786665 AACACAAAAGGTCCTAAA-AAACATAAACTAA
130 GGCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * * * *
11786696 AACTTTTTCATAGATATCAATCGTGAAAACTAAATTCAATCATTCGGACAAGTTTAATATCATAT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* ** * * * * *
11786761 ATTTAAGATATCTAAACTTTTAAAGCATAAATATAACTACAAAATTATATTTTTACCCTTTAATG
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
* * * **
11786826 GCACAAAAAGTCCTAGATAGACATAAAGTGC
131 GCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * *
11786857 AA-TGTTTTCACATATATATCAA-CTGTGAAAATCAAGTTCAATCATTTAGACAAGTTTAGTATC
1 AACT-TTTTCAC--ACATATCAATC-ATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATC
* * * * ** * *
11786920 ATGTATTGAAGCTCTCTAAATTGTTAAAATAGAAGA-ATAACAACAAATTTACT-TTTTTGCTTT
62 ATGTATTTAAGATATCTAAACTGTTAAAATAGAA-ATATAACTGCAAAATTA-TATTTTTGCCTT
* * * * * *
11786983 TTAATGGCACAAAAGACTCATTAATAGACATAAA-TGCT
125 TTAACGGCACAAAA-AGTCCTAAACAGACATAAACT-AT
* *
11787021 AACTTTTTCACACATATAAATCATG-------A----AA--A--T-GACAAGTTTAATATTATGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
** * * * * * *
11787070 ATTTAACCTATCTAAATTGTTAAAACATAAATATAATTGTAAAATTATATTTTGGCCTTTTAACG
66 ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
* * * * *
11787135 GAACAAAAATTGCTAAATAGAC-T-AACAAT
131 GCACAAAAAGTCCTAAACAGACATAAACTAT
* * * * * *
11787164 AATTTTTTTTTACACATATCAAGCATG-----GAA-TTCAATTATTTAGACAAGTTTAATATCAT
1 AA--CTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCAT
* * * * ** *
11787223 GTATTAAAGCTATCCAAATTGTTAAAACT-GAACA-ATAACTATAAATTTATATTTTTGCCTTTT
64 GTATTTAAGATATCTAAACTGTTAAAA-TAGAA-ATATAACTGCAAAATTATATTTTTGCCTTTT
* * * *
11787286 AAAGGCATAAATAGTCCTAAACAAACATAAA-TGGA-
127 AACGGCACAAAAAGTCCTAAACAGACATAAACT--AT
* * * * *
11787321 AAGTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCACTCGGACAAGTTTAATATTATGT
1 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
* * * ** * * * *
11787386 ATTGAAGCTATCCAAACTACTAAAATAGAACA-ATAACTGTAAATTTGCT-TTTTTACCTTTTAA
66 ATTTAAGATATCTAAACTGTTAAAATAGAA-ATATAACTGCAAAATT-ATATTTTTGCCTTTTAA
* *
11787449 TGGCACAAAAAGTTCTAAA
129 CGGCACAAAAAGTCCTAAA
11787468 TAGATATAGA
Statistics
Matches: 1632, Mismatches: 359, Indels: 127
0.77 0.17 0.06
Matches are distributed among these distances:
143 5 0.00
144 1 0.00
145 31 0.02
146 72 0.04
147 2 0.00
149 1 0.00
150 2 0.00
151 2 0.00
152 1 0.00
154 1 0.00
155 106 0.06
156 2 0.00
157 4 0.00
158 121 0.07
159 119 0.07
160 396 0.24
161 493 0.30
162 141 0.09
163 105 0.06
164 26 0.02
165 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (161 bp):
AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGT
ATTTAAGATATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATATTTTTGCCTTTTAACG
GCACAAAAAGTCCTAAACAGACATAAACTAT
Found at i:11786245 original size:321 final size:321
Alignment explanation
Indices: 11785263--11787412 Score: 1590
Period size: 321 Copynumber: 6.8 Consensus size: 321
11785253 CAACTTATTG
* * * *
11785263 ACACATATCAATCATGGAAACCAAGTTAAATCATTTGAATAAGTTTAATATTA-GATATTTAAGA
1 ACACATATCAATCATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATG-TATTTAAGA
* * * *
11785327 TATCTAAACTTTTAAAATAGAAATTTAACTGCAAAATTATATTTTTACCTTTTAACGGCAC--AA
65 TATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTATATTTTTGCCTTTTAACGGCACAAAA
* * * * * * * *
11785390 AGTCCTT-ACAGACATAAACCATAACTTTTTTACACATATCAATCATGAAAACCAAGTTTAATCA
130 AGTTCTTAACAAACATAAACAACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATCA
* *
11785454 TTTGGACAAGTTTAATATCATATATTTAAGATGTCTAAAC-AGTTAAAAT-TGAAATATAACTGT
195 TTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTA-TTAAAATAT-AAATATAACTGC
* * * * *
11785517 AAAATTTTATTTTTGTCCTTTAACGACATAAAAAGTCATACACAAACATAAACAACAA-CTTTT-
258 AAAATTATATTTTTGCCCTTTAACG-CATAAAAAGTCCTAAACAAACATAAACTACAACCTTTTC
* ** * ** * * *
11785580 TCACATATCAATTGTGAAAACCAAGTTCAATAATTCAAACAAGTTTAATATAAGGGATTTAAGAT
1 ACACATATCAATCATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAAGAT
* * * * * *
11785645 ATCTAAACTTTTAAAACAAAAATATAATTGGAAAATTACATTTTTGCCTTTTAACGGCACAAAAA
66 ATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTATATTTTTGCCTTTTAACGGCACAAAAA
** * * ** * * * *
11785710 G-TCTTAA-ATAGATGTAAACCAC-ATTTTTTCATGCATATCGAGCATGGAAACCCAGTTCAATC
131 GTTCTTAACA-A-ACATAAACAACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATC
* * * * * **
11785772 TTTTGAACAAGTTCAATATCATGTATTTAAGATATCTAAACTATTAAAATAGAAATATAACTATA
194 ATTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATATAAATATAACTGCA
* * *
11785837 AAATTATATTTTTGCCCTTTAACGACATAAAAAGTCCTAAACAAACATAATCTATAACTTTTTC
259 AAATTATATTTTTGCCCTTTAACG-CATAAAAAGTCCTAAACAAACATAAACTACAACCTTTTC
* * * * * * * *
11785901 ACATATATCAACCATTAAAACCAAGTTCAATCATTTGGACAAATTTAATATGATGTATTGAAGCT
1 ACACATATCAATCATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAAGAT
** * * * * *
11785966 ATCTAAAGAGTTAAAATAGAACA-ATAA-TAGTAAATTTGTAATTTTGCATTTTAACGGCACAAA
66 ATCTAAACTGTTAAAATAGAA-ATATAACT-GAAAAATTATATTTTTGCCTTTTAACGGCACAAA
* * *
11786029 AAGTTATTAACAAACACAAACAACAACTTTTTCACACATATAAATCGTGGAAACCAAGTTCAATC
129 AAGTTCTTAACAAACATAAACAACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATC
* ** * * *
11786094 ATTCGGACAAGTTTAATATCATATATTTAACCTATCTAAACTACTAAAATATAAACATAATTGCA
194 ATTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATATAAATATAACTGCA
* * * *
11786159 AAATTATATTTTTACCCTTTAACAGCA-CAAAAGTCCTAAACAGACATAAACTGCAACCTTTTC
259 AAATTATATTTTTGCCCTTTAAC-GCATAAAAAGTCCTAAACAAACATAAACTACAACCTTTTC
* * * *
11786222 ACACATATCAATCATGAAAACCAAGTTTAATCATTCGAAGAAGTTTGATATCATGTATTTAAGAT
1 ACACATATCAATCATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAAGAT
* * * *
11786287 ATCTAAACTGTTAAAATAGAAATATAACTGCAAAATTATGTTTTTGCTTTTTAACGGTACAAAAA
66 ATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTATATTTTTGCCTTTTAACGGCACAAAAA
* * * ** * *
11786352 GTTCTCAACAGACATAAATCGTATGA--TTTTCACACATATCAATTGTGGAAACCAAGTTCAATT
131 GTTCTTAACAAACATAAA-C-AACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATC
* * * ** ** * *
11786415 ATTTGAACAAGTTTAGTATTAGGTATTTATA-ATATCTAATTTTTTAAAAATAAAAATATAACTG
194 ATTTGGACAAGTTTAATATCATATATTTA-AGATATCTAAACTATT-AAAATATAAATATAACTG
** * *
11786479 CAAAATTATATTTTTGCTATTTAACCGCATAAAAAGTCCTAAACAAACATAAACCATAA-CTTTG
257 CAAAATTATATTTTTGCCCTTTAA-CGCATAAAAAGTCCTAAACAAACATAAACTACAACCTTT-
11786543 TC
320 TC
* * * * * * *
11786545 ACATATATCAACCATGGAAACCAAATGCAATTATTCTG-ACAAGTTTAATATTATGTATTTAAGA
1 ACACATATCAATCATGAAAACCAAGTTCAATCATT-TGAACAAGTTTAATATCATGTATTTAAGA
* ** * * * **
11786609 TATCTAAACTGTTAAAATAGAAATACAACCAAAAAATTACATTTTTACCCTTTAACAACAC-AAA
65 TATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTATATTTTTGCCTTTTAACGGCACAAAA
* * * * * * * *
11786673 AGGTCCTAAAAAACATAAACTAA-AACTTTTTCATAGATATCAATCGTGAAAACTAAATTCAATC
130 AGTTCTTAACAAACATAAAC-AACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATC
* * ** *
11786737 ATTCGGACAAGTTTAATATCATATATTTAAGATATCTAAACTTTTAAAGCATAAATATAACTACA
194 ATTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATATAAATATAACTGCA
* * * * * * * * **
11786802 AAATTATATTTTTACCCTTTAATGGCACAAAAAGTCCTAGATAGACATAAAGTGCAATGTTTTC
259 AAATTATATTTTTGCCCTTTAA-CGCATAAAAAGTCCTAAACAAACATAAACTACAACCTTTTC
* * * * *
11786866 ACATATATATCAA-CTGTGAAAATCAAGTTCAATCATTT-AGACAAGTTTAGTATCATGTATTGA
1 AC--ACATATCAATC-ATGAAAACCAAGTTCAATCATTTGA-ACAAGTTTAATATCATGTATTTA
* * * * *
11786929 AGCTCTCTAAATTGTTAAAATAGAAGA-ATAAC--AACAAATT-TACTTTTTTGCTTTTTAATGG
62 AGATATCTAAACTGTTAAAATAGAA-ATATAACTGAA-AAATTATA--TTTTTGCCTTTTAACGG
* * * ** * *
11786990 CAC-AAAAGACTCATTAATAGACATAAA-TGCTAACTTTTTCACACATATAAATCAT-G------
123 CACAAAAAG-TTC-TTAACAAACATAAACAAC-AACTTTTTCACACATATCAATCGTGGAAACCA
* * ** * * *
11787046 A----AA--A--T-GACAAGTTTAATATTATGTATTTAACCTATCTAAATTGTTAAAACATAAAT
185 AGTTCAATCATTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATATAAAT
* * * * * * * * * * *
11787102 ATAATTGTAAAATTATATTTTGGCCTTTTAACGGAACAAAAATTGCTAAATAGAC-TAACAATA-
250 ATAACTGCAAAATTATATTTTTGCCCTTTAAC-GCATAAAAAGTCCTAAACAAACATAA-ACTAC
*** *
11787165 ATTTTTTTTT
313 A-ACCTTTTC
* * * * *
11787175 ACACATATCAAGCATG-----GAA-TTCAATTATTT-AGACAAGTTTAATATCATGTATTAAAGC
1 ACACATATCAATCATGAAAACCAAGTTCAATCATTTGA-ACAAGTTTAATATCATGTATTTAAGA
* * * * *
11787233 TATCCAAATTGTTAAAACT-GAACA-ATAACT-ATAAATTTATATTTTTGCCTTTTAAAGGCATA
65 TATCTAAACTGTTAAAA-TAGAA-ATATAACTGA-AAAATTATATTTTTGCCTTTTAACGGCACA
* * * ** * * * *
11787295 AATAGTCCTAAACAAACATAAATGGA-AAGTTTTTCACACATATCAACCATGAAAACCAAGTTCA
127 AAAAGTTCTTAACAAACATAAA-CAACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCA
* * * * * * * *
11787359 ATCACTCGGACAAGTTTAATATTATGTATTGAAGCTATCCAAACTACTAAAATA
191 ATCATTTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATA
11787413 GAACAATAAC
Statistics
Matches: 1451, Mismatches: 312, Indels: 141
0.76 0.16 0.07
Matches are distributed among these distances:
300 32 0.02
301 78 0.05
302 12 0.01
303 3 0.00
307 11 0.01
308 5 0.00
309 96 0.07
311 2 0.00
312 1 0.00
313 1 0.00
314 2 0.00
316 39 0.03
317 105 0.07
318 6 0.00
319 141 0.10
320 16 0.01
321 392 0.27
322 253 0.17
323 221 0.15
324 4 0.00
325 31 0.02
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (321 bp):
ACACATATCAATCATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAAGAT
ATCTAAACTGTTAAAATAGAAATATAACTGAAAAATTATATTTTTGCCTTTTAACGGCACAAAAA
GTTCTTAACAAACATAAACAACAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATCAT
TTGGACAAGTTTAATATCATATATTTAAGATATCTAAACTATTAAAATATAAATATAACTGCAAA
ATTATATTTTTGCCCTTTAACGCATAAAAAGTCCTAAACAAACATAAACTACAACCTTTTC
Found at i:11791740 original size:16 final size:14
Alignment explanation
Indices: 11791700--11791739 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
11791690 TGTTTGTTTT
*
11791700 TTTACTTTTCTACAC
1 TTTA-TTTTTTACAC
11791715 TTTATTTTTTACAC
1 TTTATTTTTTACAC
11791729 TTTATATTTTT
1 TTTAT-TTTTT
11791740 TTAGTTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTTTTTACAC
Found at i:11796781 original size:24 final size:24
Alignment explanation
Indices: 11796716--11796788 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 24
11796706 ATAAAACACA
*
11796716 ATATATTATTGAACAAATATATATAT
1 ATATATTATTGAAC--ATAAATATAT
11796742 ATATATATATTGAACATAAATATAT
1 ATATAT-TATTGAACATAAATATAT
*
11796767 ATATCTTATTGAACATAAATAT
1 ATATATTATTGAACATAAATAT
11796789 CGCTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.36
25 14 0.32
26 6 0.14
27 8 0.18
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (24 bp):
ATATATTATTGAACATAAATATAT
Found at i:11805092 original size:75 final size:76
Alignment explanation
Indices: 11805008--11805150 Score: 234
Period size: 75 Copynumber: 1.9 Consensus size: 76
11804998 CAACATAATG
* * *
11805008 AAGCAAAAAGTGAAGACAAGAAATAATAATGAAGATTGCATTCAAAATCTCAAAAGTACACCCTA
1 AAGCAAAAAGTAAAGACAAGAAATAATAATGAAGATTGCAATCAAAACCTCAAAAGTACACCCTA
11805073 AAACATATGAA
66 AAACATATGAA
* *
11805084 AAGC-AAAAGTAAAGACTAGAAATAATAATGAAGATTGCAATCAAAACCTCAAAAGTACACCTTA
1 AAGCAAAAAGTAAAGACAAGAAATAATAATGAAGATTGCAATCAAAACCTCAAAAGTACACCCTA
11805148 AAA
66 AAA
11805151 TATTTACTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 58 0.94
76 4 0.06
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.18
Consensus pattern (76 bp):
AAGCAAAAAGTAAAGACAAGAAATAATAATGAAGATTGCAATCAAAACCTCAAAAGTACACCCTA
AAACATATGAA
Found at i:11815776 original size:16 final size:15
Alignment explanation
Indices: 11815755--11815792 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11815745 GAAAAACAGG
11815755 AAAAAAGA-AGAAAAA
1 AAAAAAGATA-AAAAA
11815770 TAAAAAAGATAAAAAA
1 -AAAAAAGATAAAAAA
11815786 AAAAAAG
1 AAAAAAG
11815793 CAAAATCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (15 bp):
AAAAAAGATAAAAAA
Found at i:11815783 original size:15 final size:16
Alignment explanation
Indices: 11815755--11815792 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11815745 GAAAAACAGG
*
11815755 AAAAAAGAAGAAAAAT
1 AAAAAAGAAGAAAAAA
*
11815771 AAAAAAG-ATAAAAAA
1 AAAAAAGAAGAAAAAA
11815786 AAAAAAG
1 AAAAAAG
11815793 CAAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAGAAAAAA
Found at i:11835603 original size:2 final size:2
Alignment explanation
Indices: 11835596--11835641 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
11835586 CAACTGAAGG
* * *
11835596 CT CT CT CT CT GT CT CT GT CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11835638 CT CT
1 CT CT
11835642 ATATATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.43, G:0.04, T:0.52
Consensus pattern (2 bp):
CT
Found at i:11836149 original size:2 final size:2
Alignment explanation
Indices: 11836132--11836165 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11836122 TTCCCTCCTC
* *
11836132 AT AT AC AT AC 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 AT AT AT AT
11836166 GTACATATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11837156 original size:37 final size:34
Alignment explanation
Indices: 11837098--11837174 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 34
11837088 TTTATTTAAT
*
11837098 AAAAAATAAAAGTAAATAAATAAATAAAGGAAACAA
1 AAAAAATAAAAGTAAATAAAT-AAGAAAGGAAA-AA
* *
11837134 AAAAAATTAAAAGCTTAA-AAATAAGAAATGAAAAA
1 AAAAAA-TAAAAG-TAAATAAATAAGAAAGGAAAAA
11837169 AAAAAA
1 AAAAAA
11837175 GAAGAGAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 8 0.22
36 15 0.42
37 10 0.28
38 3 0.08
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (34 bp):
AAAAAATAAAAGTAAATAAATAAGAAAGGAAAAA
Found at i:11842622 original size:21 final size:20
Alignment explanation
Indices: 11842576--11842623 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
11842566 AGGTATGAAA
11842576 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
11842597 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
11842618 TTTTGA
1 TTTTGA
11842624 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:11848017 original size:20 final size:20
Alignment explanation
Indices: 11847979--11848021 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11847969 TTTTCATTCA
11847979 TCAAATCATCAAATTTCTTTT
1 TCAAATCA-CAAATTTCTTTT
11848000 TCAAATCA-AAATTTTCTTTT
1 TCAAATCACAAA-TTTCTTTT
11848020 TC
1 TC
11848022 TAAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAAATCACAAATTTCTTTT
Found at i:11860610 original size:22 final size:22
Alignment explanation
Indices: 11860585--11860626 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11860575 TACAATTTTG
* *
11860585 ATTGATTTGTTTTGTGATAATA
1 ATTGATATGCTTTGTGATAATA
*
11860607 ATTGGTATGCTTTGTGATAA
1 ATTGATATGCTTTGTGATAA
11860627 CATATCCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.50
Consensus pattern (22 bp):
ATTGATATGCTTTGTGATAATA
Found at i:11864681 original size:18 final size:18
Alignment explanation
Indices: 11864658--11864712 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
11864648 TGAGATGAGG
*
11864658 TGATGTATAAGAGAAATT
1 TGATGTATAAGAGAAACT
11864676 TGATGTATAAGAGAAACT
1 TGATGTATAAGAGAAACT
11864694 TGATGTAT-AGAAGAAACT
1 TGATGTATAAG-AGAAACT
11864712 T
1 T
11864713 TCTTGAAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 2 0.06
18 33 0.94
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (18 bp):
TGATGTATAAGAGAAACT
Found at i:11865048 original size:232 final size:231
Alignment explanation
Indices: 11864694--11865160 Score: 701
Period size: 232 Copynumber: 2.0 Consensus size: 231
11864684 AAGAGAAACT
*
11864694 TGATGTATAGAAGAAACTTTCTTGAAGTTGTTTTGGTATTTATATATTTATTTCATATTTCCTTT
1 TGATGTATAGAAGAAACTTTCTTGAAGTTGTTTTGGTATTTATATATTTATTTCACATTTCCTTT
* * *
11864759 GTGAAATATATTTAAAAGCCGAAGATAATATAAGGATTATTTATAAAAAATATTAAAGGTATGAA
66 GTGAAATATATTTAAAAGCCGAAGATAATACAAAGATTATTTATAAAAAATATTAAAGATATGAA
* * * * * *
11864824 ATAATATTTTTAAGAGTTGTGGTAAATTTAAATACTCATGTTAA-T-TAAAGTTAAATT-GAAAA
131 ATAATATTTTAAAAAATTATGATAAATTTAAATACTCATGTTAACTCCAAA--TAAATTAG-AAA
11864886 AGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGA
193 AGATAAATTACTTTAAAATTGG-TTTAAATTGAGATGAGA
* *
11864926 TGATGTATAGGAA-AAGCTTTCTTGAAGTTGTTTTGGTATTTATATATATT-TTTCACATTTCTT
1 TGATGTATA-GAAGAAACTTTCTTGAAGTTGTTTTGGTATTTATATAT-TTATTTCACATTTCCT
* * *
11864989 TTGTGAAATATATTTAAAAGCTGAAGATAATGCAAAGATTATTTATAAAAAATATTAAAGATATT
64 TTGTGAAATATATTTAAAAGCCGAAGATAATACAAAGATTATTTATAAAAAATATTAAAGATATG
11865054 AAATAATATTTTAAAAAATTATGATAAATTTAAATACTCATGTTAACTCCAAATAAATTAGAAAA
129 AAATAATATTTTAAAAAATTATGATAAATTTAAATACTCATGTTAACTCCAAATAAATTAGAAAA
*
11865119 GATAAATTACTTTAAAATTGGTTTAAATTGAGATGAGG
194 GATAAATTACTTTAAAATTGGTTTAAATTGAGATGAGA
11865157 TGAT
1 TGAT
11865161 ATATTGGAGA
Statistics
Matches: 214, Mismatches: 16, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
231 20 0.09
232 184 0.86
233 7 0.03
234 3 0.01
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (231 bp):
TGATGTATAGAAGAAACTTTCTTGAAGTTGTTTTGGTATTTATATATTTATTTCACATTTCCTTT
GTGAAATATATTTAAAAGCCGAAGATAATACAAAGATTATTTATAAAAAATATTAAAGATATGAA
ATAATATTTTAAAAAATTATGATAAATTTAAATACTCATGTTAACTCCAAATAAATTAGAAAAGA
TAAATTACTTTAAAATTGGTTTAAATTGAGATGAGA
Found at i:11872495 original size:19 final size:20
Alignment explanation
Indices: 11872465--11872505 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11872455 AGCGTTTGTG
11872465 TCCACAAAATGCCACTAAAT
1 TCCACAAAATGCCACTAAAT
*
11872485 TCCAC-AAATGCCGCTAAAT
1 TCCACAAAATGCCACTAAAT
11872504 TC
1 TC
11872506 ATCTTTTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (20 bp):
TCCACAAAATGCCACTAAAT
Found at i:11872767 original size:38 final size:38
Alignment explanation
Indices: 11872720--11872800 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
11872710 CACAAAATTT
*
11872720 AATAATCTTTGTTGTACCTTATAATAGCCCAGAAAGAG
1 AATAGTCTTTGTTGTACCTTATAATAGCCCAGAAAGAG
* *
11872758 AATAGTCTTTGTTTTACCTTATAATAGCCTAGAAAGAG
1 AATAGTCTTTGTTGTACCTTATAATAGCCCAGAAAGAG
11872796 AATAG
1 AATAG
11872801 AGACCACTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (38 bp):
AATAGTCTTTGTTGTACCTTATAATAGCCCAGAAAGAG
Found at i:11875570 original size:1 final size:1
Alignment explanation
Indices: 11875564--11875589 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11875554 CTTACTCTAT
11875564 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11875590 CTCTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11875721 original size:2 final size:2
Alignment explanation
Indices: 11875709--11875751 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
11875699 AAGTTAACCC
* *
11875709 AT AT AT TT AT AT AT AT TT 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 AT AT AT AT AT AT AT AT
11875751 A
1 A
11875752 AAAGCAATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11882216 original size:48 final size:49
Alignment explanation
Indices: 11882161--11882261 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
11882151 CATATCTCTC
11882161 ATTTGGAAATGTTA-TTTTAGCTTATTAGTGCATTGTTACCTTTGTAGT
1 ATTTGGAAATGTTATTTTTAGCTTATTAGTGCATTGTTACCTTTGTAGT
11882209 ATTTGGAAATGTTATTTTTAGCTTATTAGTGCATTGTTACCTTTGTAGT
1 ATTTGGAAATGTTATTTTTAGCTTATTAGTGCATTGTTACCTTTGTAGT
11882258 ATTT
1 ATTT
11882262 TTATAAGTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 14 0.27
49 38 0.73
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (49 bp):
ATTTGGAAATGTTATTTTTAGCTTATTAGTGCATTGTTACCTTTGTAGT
Found at i:11882260 original size:25 final size:25
Alignment explanation
Indices: 11882183--11882260 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
11882173 TATTTTAGCT
11882183 TATTAGTGCATTGTTACCTTTGTAG
1 TATTAGTGCATTGTTACCTTTGTAG
* * * *
11882208 TATTTG-GAAATGTTA--TTTTTAG
1 TATTAGTGCATTGTTACCTTTGTAG
11882230 CTTATTAGTGCATTGTTACCTTTGTAG
1 --TATTAGTGCATTGTTACCTTTGTAG
11882257 TATT
1 TATT
11882261 TTTATAAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 6 0.15
24 12 0.30
25 16 0.40
27 6 0.15
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (25 bp):
TATTAGTGCATTGTTACCTTTGTAG
Found at i:11894356 original size:19 final size:19
Alignment explanation
Indices: 11894319--11894373 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
11894309 ACCCCTAAAC
*
11894319 TTTTTT-TTTTGCATATTTT
1 TTTTTTGTTTTGC-TTTTTT
*
11894338 TGTTTTGTTTT-CTTTTTT
1 TTTTTTGTTTTGCTTTTTT
*
11894356 TTTTTTTTTTTGCTTTTT
1 TTTTTTGTTTTGCTTTTT
11894374 ACCACTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 14 0.47
19 12 0.40
20 4 0.13
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (19 bp):
TTTTTTGTTTTGCTTTTTT
Found at i:11894649 original size:13 final size:13
Alignment explanation
Indices: 11894631--11894656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11894621 AATAAAGGCT
11894631 TGGTTTTATAATA
1 TGGTTTTATAATA
11894644 TGGTTTTATAATA
1 TGGTTTTATAATA
11894657 ATGAAAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TGGTTTTATAATA
Found at i:11897333 original size:22 final size:22
Alignment explanation
Indices: 11897289--11897334 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
11897279 CTAGCATTGA
*
11897289 ATACTAAAAAAAGTAGCTCGCT
1 ATACTAAAAAAAGTAGCTAGCT
*
11897311 ATACTAAAAATAGTAGCTAGCT
1 ATACTAAAAAAAGTAGCTAGCT
11897333 AT
1 AT
11897335 CTTATCTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (22 bp):
ATACTAAAAAAAGTAGCTAGCT
Found at i:11901144 original size:26 final size:26
Alignment explanation
Indices: 11901087--11901136 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11901077 CTAGCTTTTT
* *
11901087 GGGTTTAGGGTTTAGTTTAAGGTTTG
1 GGGTTTAGGGTTTAGGTTAAGGTTTA
11901113 GGGTTTAGGGTTT-GGTT-AGGTTTA
1 GGGTTTAGGGTTTAGGTTAAGGTTTA
11901137 AAGGGTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (26 bp):
GGGTTTAGGGTTTAGGTTAAGGTTTA
Found at i:11901336 original size:20 final size:20
Alignment explanation
Indices: 11901310--11901447 Score: 134
Period size: 20 Copynumber: 6.9 Consensus size: 20
11901300 TGTTCAGTTT
11901310 GGTTTTGGTTTAGGGTTTAG
1 GGTTTTGGTTTAGGGTTTAG
* * * *
11901330 TGTTTTGTTTTATGATTT-G
1 GGTTTTGGTTTAGGGTTTAG
**
11901349 GGATTTTACTTTAGGGTTTAG
1 GG-TTTTGGTTTAGGGTTTAG
* *
11901370 GATTTTGGTTTAAGGTTTAG
1 GGTTTTGGTTTAGGGTTTAG
* *
11901390 GGTTTTGATTTAAGGTTTAG
1 GGTTTTGGTTTAGGGTTTAG
* * *
11901410 GGTTTTGGTCTAGGGATTGG
1 GGTTTTGGTTTAGGGTTTAG
*
11901430 GGTTTTTGTTTAGGGTTT
1 GGTTTTGGTTTAGGGTTT
11901448 GCCTGAATAA
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
19 2 0.02
20 89 0.96
21 2 0.02
ACGTcount: A:0.14, C:0.01, G:0.33, T:0.52
Consensus pattern (20 bp):
GGTTTTGGTTTAGGGTTTAG
Found at i:11901406 original size:27 final size:27
Alignment explanation
Indices: 11901358--11901414 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11901348 GGGATTTTAC
*
11901358 TTTAGGGTTTAGGATTTTGGTTTAAGG
1 TTTAGGGTTTAGGATTTAGGTTTAAGG
* *
11901385 TTTAGGGTTT-TGATTTAAGGTTTAGGG
1 TTTAGGGTTTAGGATTT-AGGTTTAAGG
11901412 TTT
1 TTT
11901415 TGGTCTAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.51
Consensus pattern (27 bp):
TTTAGGGTTTAGGATTTAGGTTTAAGG
Found at i:11903816 original size:51 final size:52
Alignment explanation
Indices: 11903761--11904158 Score: 305
Period size: 51 Copynumber: 7.9 Consensus size: 52
11903751 TTCTTTTTAA
*
11903761 CTTT-GAAAAGTTCCTCTAAACAGTGGCTTTGAAACTTTAAAAATATATCAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * * * * *
11903812 CTTTGGAAAAGCTCTTCAAAACAAAAGTTTTGAAACTTTAAAAATATCTCAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * * ** *
11903864 TTTTGG-AACGCTCCTCTAAACTGAGTATTTGAAACTTTAAAAAT-T-TCTT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * *
11903913 CTTTGGAAAACTTCCTTTAAATAGAGGCTTTGAAACTTTAAAAATATGTCAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * * * * * *
11903965 -TTTTGTAAAGTTCTTCTGAATAGAGGTTTTGAAAATTT-AAAA-ATCTCAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
** * * *
11904014 CTTTACAAAAGCTCTTTTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * ** * * *
11904066 CTTTGGAAAACTT-CTCTAAATAAAGTTTTTTAAACTTTATAAATCT-T-AT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
* * * * * *
11904115 CTTTAGAAAAGCTCCTCTAAAGAAAGGCATTGAAA-TTTCAAAAT
1 CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAAT
11904159 TCCTATCTTA
Statistics
Matches: 269, Mismatches: 70, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
49 33 0.12
50 81 0.30
51 93 0.35
52 62 0.23
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (52 bp):
CTTTGGAAAAGTTCCTCTAAACAGAGGCTTTGAAACTTTAAAAATATATCAT
Found at i:11903956 original size:101 final size:101
Alignment explanation
Indices: 11903762--11904158 Score: 365
Period size: 101 Copynumber: 3.9 Consensus size: 101
11903752 TCTTTTTAAC
* * * * *
11903762 TTTGAAAAGTTCCTCTAAACAGTGGCTTTGAAACTTTAAAAATATATCATCTTTGGAAAAGCT-C
1 TTTGGAAAGCTCCTCTAAATAGAGGTTTTGAAACTTTAAAAAT-T-TCATCTTTGGAAAAGCTCC
* * * * *
11903826 TTCAAAACAAAAGTTTTGAAACTTTAAAAATATCTCATT
64 TT-TAAACAGAGGCTTTGAAACTTTAAAAATATATCATT
* *
11903865 TTTGGAACGCTCCTCTAAACT-GA-GTATTTGAAACTTTAAAAATTTCTTCTTTGGAAAA-CTTC
1 TTTGGAAAGCTCCTCTAAA-TAGAGGT-TTTGAAACTTTAAAAATTTCATCTTTGGAAAAGC-TC
* *
11903927 CTTTAAATAGAGGCTTTGAAACTTTAAAAATATGTCATT
63 CTTTAAACAGAGGCTTTGAAACTTTAAAAATATATCATT
* * * * * * ** *
11903966 TTTGTAAAGTTCTTCTGAATAGAGGTTTTGAAAATTTAAAAATCTCATCTTTACAAAAGCTCTTT
1 TTTGGAAAGCTCCTCTAAATAGAGGTTTTGAAACTTTAAAAATTTCATCTTTGGAAAAGCTCCTT
*
11904031 TAAACAGAGGCTTTGAAACTTTAAAAATATATCATC
66 TAAACAGAGGCTTTGAAACTTTAAAAATATATCATT
* * * * * * *
11904067 TTTGGAAAACTTCTCTAAATAAAGTTTTTTAAACTTTATAAATCTT-ATCTTTAGAAAAGCTCCT
1 TTTGGAAAGCTCCTCTAAATAGAGGTTTTGAAACTTTAAAAAT-TTCATCTTTGGAAAAGCTCCT
* * * * *
11904131 CTAAAGAAAGGCATTGAAA-TTTCAAAAT
65 TTAAACAGAGGCTTTGAAACTTTAAAAAT
11904159 TCCTATCTTA
Statistics
Matches: 240, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
100 10 0.04
101 187 0.78
102 9 0.04
103 34 0.14
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (101 bp):
TTTGGAAAGCTCCTCTAAATAGAGGTTTTGAAACTTTAAAAATTTCATCTTTGGAAAAGCTCCTT
TAAACAGAGGCTTTGAAACTTTAAAAATATATCATT
Found at i:11904167 original size:151 final size:152
Alignment explanation
Indices: 11903761--11904209 Score: 324
Period size: 151 Copynumber: 3.0 Consensus size: 152
11903751 TTCTTTTTAA
* * ** * *
11903761 CTTT-GAAAAGTTCCTCTAAACAGTGGCTTTGAAACTTTAAAAATATATCATCTTTGGAAAAGCT
1 CTTTGGAAAACTTCCTCTAAATAAAGGCTTTGAAACTTTAAAAATATGTCAT-TTTAGAAAAGCT
* * * * ** * **** ** * * *
11903825 CTTCAAAACAAAAGTTTTGAAACTTTAAAAATATCTCAT-TTTTGGAACGCTCCTCTAAACTGAG
65 CCTCTAAAGAAAGGCATTGAAAATTT-AAAA-ATCTCATCTTAAAAAAAACTCGTTTAAACAGAG
** *
11903889 TATTTGAAACTTTAAAAAT-TTCTT
128 GCTTTGAAACTTTAAAAATATTCAT
* * * * *
11903913 CTTTGGAAAACTTCCTTTAAATAGAGGCTTTGAAACTTTAAAAATATGTCATTTTTGTAAAGTTC
1 CTTTGGAAAACTTCCTCTAAATAAAGGCTTTGAAACTTTAAAAATATGTCATTTTAGAAAAGCTC
* * * * ** * * * *
11903978 TTCTGAATAGAGGTTTTGAAAATTTAAAAATCTCATCTTTACAAAAGCTCTTTTAAACAGAGGCT
66 CTCTAAAGAAAGGCATTGAAAATTTAAAAATCTCATCTTAAAAAAAACTCGTTTAAACAGAGGCT
11904043 TTGAAACTTTAAAAATATATCAT
131 TTGAAACTTTAAAAATAT-TCAT
** * * *
11904066 CTTTGGAAAACTT-CTCTAAATAAAGTTTTTTAAACTTTATAAATCT-T-ATCTTTAGAAAAGCT
1 CTTTGGAAAACTTCCTCTAAATAAAGGCTTTGAAACTTTAAAAATATGTCAT-TTTAGAAAAGCT
* * **
11904128 CCTCTAAAGAAAGGCATTG-AAATTTCAAAAT-TCCTATCTTAAAAAAAACTCGTTTAGATGGAG
65 CCTCTAAAGAAAGGCATTGAAAATTTAAAAATCT-C-ATCTTAAAAAAAACTCGTTTAAACAGAG
11904191 GCTTTGAAAC--TAAAAATAT
128 GCTTTGAAACTTTAAAAATAT
11904210 CTTATCATTT
Statistics
Matches: 242, Mismatches: 48, Indels: 17
0.79 0.16 0.06
Matches are distributed among these distances:
149 10 0.04
150 21 0.09
151 93 0.38
152 60 0.25
153 58 0.24
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (152 bp):
CTTTGGAAAACTTCCTCTAAATAAAGGCTTTGAAACTTTAAAAATATGTCATTTTAGAAAAGCTC
CTCTAAAGAAAGGCATTGAAAATTTAAAAATCTCATCTTAAAAAAAACTCGTTTAAACAGAGGCT
TTGAAACTTTAAAAATATTCAT
Found at i:11913242 original size:15 final size:14
Alignment explanation
Indices: 11913224--11913279 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
11913214 ATGAAAAAAG
11913224 AAAAATATAAAATA
1 AAAAATATAAAATA
*
11913238 TAAAATGATAAAATA
1 AAAAAT-ATAAAATA
*
11913253 AAATAA-AAATAAATA
1 AAA-AATATA-AAATA
*
11913268 AAAAATTTAAAA
1 AAAAATATAAAA
11913280 ATTATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 12 0.36
15 19 0.58
16 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:11913242 original size:20 final size:19
Alignment explanation
Indices: 11913212--11913262 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
11913202 TTTGGCCATT
*
11913212 AAATGAAAAAAGAAAAATATA
1 AAAT-AAAAATGAAAAA-ATA
*
11913233 AAATATAAAATGATAAAATA
1 AAATA-AAAATGAAAAAATA
11913253 AAATAAAAAT
1 AAATAAAAAT
11913263 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 9 0.33
21 13 0.48
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAATAAAAATGAAAAAATA
Found at i:11913273 original size:11 final size:11
Alignment explanation
Indices: 11913230--11913271 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 11
11913220 AAAGAAAAAT
11913230 ATAAAATATAAA
1 ATAAAA-ATAAA
11913242 ATGATAAAATAAA
1 AT-A-AAAATAAA
11913255 ATAAAAAT-AA
1 ATAAAAATAAA
11913265 ATAAAAA
1 ATAAAAA
11913272 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 5 0.18
12 3 0.11
13 8 0.29
14 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:11913273 original size:30 final size:28
Alignment explanation
Indices: 11913232--11913331 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 28
11913222 AGAAAAATAT
*
11913232 AAAATATAAAATGATAAAATAAAATAAAA
1 AAAATAAAAAATG-TAAAATAAAATAAAA
* * **
11913261 ATAAATAAAAAATTTAAAAATTATTTAAAA
1 A-AAATAAAAAATGT-AAAATAAAATAAAA
*
11913291 GAAAATAATAAATGTAAATATAAATATAAAA
1 -AAAATAAAAAATGTAAA-ATAAA-ATAAAA
11913322 AGAAATAAAA
1 A-AAATAAAA
11913332 TAGCTCCCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
29 5 0.09
30 36 0.67
31 13 0.24
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAATAAAAAATGTAAAATAAAATAAAA
Found at i:11913459 original size:24 final size:26
Alignment explanation
Indices: 11913432--11913483 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
11913422 AAATTAGCAG
11913432 AAAAGAAG-CAAATAAA-AAAAG-CTC
1 AAAAGAAGCCAAA-AAATAAAAGACTC
*
11913456 AAAATAAGCCAAAAAATAAAAGACTC
1 AAAAGAAGCCAAAAAATAAAAGACTC
11913482 AA
1 AA
11913484 GATGTGGCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
25 9 0.38
26 5 0.21
ACGTcount: A:0.67, C:0.13, G:0.10, T:0.10
Consensus pattern (26 bp):
AAAAGAAGCCAAAAAATAAAAGACTC
Found at i:11913934 original size:21 final size:22
Alignment explanation
Indices: 11913910--11913950 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11913900 CAAAGCTGGC
11913910 AGAAACA-AAAACAAAAAAACT
1 AGAAACAGAAAACAAAAAAACT
*
11913931 AGAAACAGAAAATAAAAAAA
1 AGAAACAGAAAACAAAAAAA
11913951 AGGCTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (22 bp):
AGAAACAGAAAACAAAAAAACT
Found at i:11915268 original size:50 final size:51
Alignment explanation
Indices: 11915185--11915296 Score: 181
Period size: 50 Copynumber: 2.2 Consensus size: 51
11915175 CGCTACCTAG
* *
11915185 ATGTTGGAGAAAATTAAAAATTATATTTTAAATAATAATAATTCCGTCAAA
1 ATGTTGGAGAAAATTAAAAATCATATTTTAAATAATAATAATTCCGCCAAA
* *
11915236 GTGTTGGAGGAAATT-AAAATCATATTTTAAATAATAATAATTCCGCCAAA
1 ATGTTGGAGAAAATTAAAAATCATATTTTAAATAATAATAATTCCGCCAAA
11915286 ATGTTGGAGAA
1 ATGTTGGAGAA
11915297 TTATTAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
50 42 0.76
51 13 0.24
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (51 bp):
ATGTTGGAGAAAATTAAAAATCATATTTTAAATAATAATAATTCCGCCAAA
Found at i:11915315 original size:47 final size:49
Alignment explanation
Indices: 11915185--11915322 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 49
11915175 CGCTACCTAG
* * ** *
11915185 ATGTTGGAGAAAATTAAAAATTATATTTTAAATAATAATAATTCCGTCAAA
1 ATGTTGGAGGAAATT-AAAA-CATATTAAAAATAATAATAATTCCGCCAAA
* **
11915236 GTGTTGGAGGAAATTAAAATCATATTTTAAATAATAATAATTCCGCCAAA
1 ATGTTGGAGGAAATTAAAA-CATATTAAAAATAATAATAATTCCGCCAAA
*
11915286 ATGTTGGA-G-AATTATTAA-ATATTAAAAATAA-AATAAT
1 ATGTTGGAGGAAATTA-AAACATATTAAAAATAATAATAAT
11915323 AAAAGATTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
46 6 0.08
47 11 0.14
48 5 0.06
49 3 0.04
50 40 0.51
51 13 0.17
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (49 bp):
ATGTTGGAGGAAATTAAAACATATTAAAAATAATAATAATTCCGCCAAA
Found at i:11915337 original size:32 final size:32
Alignment explanation
Indices: 11915296--11915379 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 32
11915286 ATGTTGGAGA
* *
11915296 ATTATTAAATATTAAAAATAA-AATAATAAAAG
1 ATTAATAAATAATAAAAATAATAAT-ATAAAAG
* *
11915328 ATTAATAAATAATAATAATAATAATATAAATG
1 ATTAATAAATAATAAAAATAATAATATAAAAG
* * *
11915360 TTTAATGAA-AAGAAAAATAA
1 ATTAATAAATAATAAAAATAA
11915380 ATAAAAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
31 9 0.21
32 31 0.72
33 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (32 bp):
ATTAATAAATAATAAAAATAATAATATAAAAG
Found at i:11916916 original size:110 final size:111
Alignment explanation
Indices: 11916802--11917028 Score: 316
Period size: 114 Copynumber: 2.0 Consensus size: 111
11916792 AAATAAATAA
* * *
11916802 ATAAAAATTAATAAATTGTATATTAG-TTA-TTATTTTATTTTGTTTTGAT-TTTCATTATTTGT
1 ATAAAAACTAATAAATTATATATTAGTTTATTTATTTTATTTTATTTTGATATTT-ATTATTTGT
11916864 AATTTATTTATCTTATTTTAATTGATATAATGTATCACACAACTTTGC
65 AATTT-TTTATCTTATTTTAATTGATATAATGTATCACACAACTTTGC
*
11916912 ATAAAAACTAATAAATTATATGTTAGTTATTATTTTATTTTATTTTATTTTGATATTTATTATTT
1 ATAAAAACTAATAAATTATATATTAG-T-TTA-TTTATTTTATTTTATTTTGATATTTATTATTT
* * * *
11916977 GTAATTTTTTATCTTGTTTTAATTTATATAATGTATCGCACACCTTTGC
63 GTAATTTTTTATCTTATTTTAATTGATATAATGTATCACACAACTTTGC
11917026 ATA
1 ATA
11917029 TGCACTTACA
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
110 23 0.22
113 3 0.03
114 41 0.40
115 33 0.32
116 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (111 bp):
ATAAAAACTAATAAATTATATATTAGTTTATTTATTTTATTTTATTTTGATATTTATTATTTGTA
ATTTTTTATCTTATTTTAATTGATATAATGTATCACACAACTTTGC
Found at i:11917399 original size:29 final size:28
Alignment explanation
Indices: 11917367--11917426 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
11917357 TTTCGTTGTA
*
11917367 TTATATGGTTG-TTTTGTTATTTTTATTAT
1 TTATATGCTTGATTTT-TTATTTTT-TTAT
*
11917396 TTATTTGCTTGAATTTTTTATTTTTTTAT
1 TTATATGCTTG-ATTTTTTATTTTTTTAT
11917425 TT
1 TT
11917427 GTATAGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.56
30 8 0.30
31 4 0.15
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.72
Consensus pattern (28 bp):
TTATATGCTTGATTTTTTATTTTTTTAT
Found at i:11919729 original size:3 final size:3
Alignment explanation
Indices: 11919721--11919754 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11919711 TGCACAAAAG
*
11919721 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11919755 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:11919759 original size:3 final size:3
Alignment explanation
Indices: 11919753--11919796 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
11919743 AATAATAATA
*
11919753 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11919797 AATAACAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11928184 original size:35 final size:35
Alignment explanation
Indices: 11928082--11928184 Score: 91
Period size: 35 Copynumber: 2.9 Consensus size: 35
11928072 TCAGTTATCC
* * * * * *
11928082 TTATTTTGTGACTTATGGCTTAATCTTGGTTATCT
1 TTATTTTCTTACTTATAGATTAATCTTGGTCATCA
* * * *
11928117 TTTTTTTTTTACTTATAGATTAGTCTTAGTCATCA
1 TTATTTTCTTACTTATAGATTAATCTTGGTCATCA
*
11928152 TTATTTTCTTACTTGTA-ATTCAATCTTGGTCAT
1 TTATTTTCTTACTTATAGATT-AATCTTGGTCAT
11928185 TCTTTACTCT
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
34 3 0.06
35 50 0.94
ACGTcount: A:0.20, C:0.13, G:0.12, T:0.55
Consensus pattern (35 bp):
TTATTTTCTTACTTATAGATTAATCTTGGTCATCA
Found at i:11928905 original size:21 final size:20
Alignment explanation
Indices: 11928834--11928910 Score: 52
Period size: 21 Copynumber: 3.8 Consensus size: 20
11928824 AAAAATATAT
11928834 ATAAATCATAAAATATAA-AAA
1 ATAAAT-ATAAAA-ATAATAAA
*
11928855 ACTAAATA-AAAAAT-GTAAA
1 A-TAAATATAAAAATAATAAA
** *
11928874 ATTTATTTAAAAATAATATAA
1 ATAAATATAAAAATAATA-AA
*
11928895 ATAAATATAAATATAA
1 ATAAATATAAAAATAA
11928911 AAAGAAGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 6 0.14
21 16 0.38
22 5 0.12
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (20 bp):
ATAAATATAAAAATAATAAA
Found at i:11929346 original size:168 final size:168
Alignment explanation
Indices: 11929068--11929407 Score: 680
Period size: 168 Copynumber: 2.0 Consensus size: 168
11929058 GACTCAAGAT
11929068 ATGGCCCAGAACACAAAAGCGTATCGGCCTTATTCTTTGCTTATAAGTAAAGGCCCAGGCAATGC
1 ATGGCCCAGAACACAAAAGCGTATCGGCCTTATTCTTTGCTTATAAGTAAAGGCCCAGGCAATGC
11929133 ATGGGCATAAGGAGAAAGGTGAAAGCTTGATAAAACGGCATGAATACATAAAGGCCAAAATAAAA
66 ATGGGCATAAGGAGAAAGGTGAAAGCTTGATAAAACGGCATGAATACATAAAGGCCAAAATAAAA
11929198 ACTGTAAAAAATAAACTGCAAGTTGCATGAAAGACCAC
131 ACTGTAAAAAATAAACTGCAAGTTGCATGAAAGACCAC
11929236 ATGGCCCAGAACACAAAAGCGTATCGGCCTTATTCTTTGCTTATAAGTAAAGGCCCAGGCAATGC
1 ATGGCCCAGAACACAAAAGCGTATCGGCCTTATTCTTTGCTTATAAGTAAAGGCCCAGGCAATGC
11929301 ATGGGCATAAGGAGAAAGGTGAAAGCTTGATAAAACGGCATGAATACATAAAGGCCAAAATAAAA
66 ATGGGCATAAGGAGAAAGGTGAAAGCTTGATAAAACGGCATGAATACATAAAGGCCAAAATAAAA
11929366 ACTGTAAAAAATAAACTGCAAGTTGCATGAAAGACCAC
131 ACTGTAAAAAATAAACTGCAAGTTGCATGAAAGACCAC
11929404 ATGG
1 ATGG
11929408 TTTCGTGGCT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 172 1.00
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (168 bp):
ATGGCCCAGAACACAAAAGCGTATCGGCCTTATTCTTTGCTTATAAGTAAAGGCCCAGGCAATGC
ATGGGCATAAGGAGAAAGGTGAAAGCTTGATAAAACGGCATGAATACATAAAGGCCAAAATAAAA
ACTGTAAAAAATAAACTGCAAGTTGCATGAAAGACCAC
Found at i:11931320 original size:12 final size:12
Alignment explanation
Indices: 11931282--11931333 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11931272 ATATTAAAAT
11931282 CCTAAAATTGAAA
1 CCTAAAA-TGAAA
* *
11931295 CCTTAAACTAAAA
1 CC-TAAAATGAAA
11931308 CCTAAAATGAAA
1 CCTAAAATGAAA
**
11931320 CCTTCAATGAAA
1 CCTAAAATGAAA
11931332 CC
1 CC
11931334 CTAACTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 20 0.62
13 8 0.25
14 4 0.12
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.21
Consensus pattern (12 bp):
CCTAAAATGAAA
Found at i:11932841 original size:141 final size:140
Alignment explanation
Indices: 11932583--11932853 Score: 380
Period size: 141 Copynumber: 1.9 Consensus size: 140
11932573 ACAGACCTCC
* *
11932583 CTTATTTGTGTGTTAAGGCATACACGTTGACACGCCCAATGCACCATACTATATTAAGGCACCTT
1 CTTATTTGTGTGTTAAGGCATACACGTTGACACACCCAATGCACCATACTACATTAAGGCACCTT
* ** *
11932648 GCCAACTCATCGATGTGCTTGACGACCTATGCAAGCCATGCCACACTAAGGTATAATTTCCACCT
66 GCCAACTCATCGATGCGCTTGACGACCTATGCAAGCCACACCACACTAAGGTAT-ATTACCACCT
11932713 TGTATACCATA
130 TGTATACCATA
* * * **
11932724 CTTATTTTTGTGTTAAGGCTTACACGTTGACACACCTAATGTGCCATACTACATTAAGGCACCTT
1 CTTATTTGTGTGTTAAGGCATACACGTTGACACACCCAATGCACCATACTACATTAAGGCACCTT
* * * * * *
11932789 GCGAACTCATTGATGCGCTTGACGACCTATGCGAGCTACACCGCACTTAGGTATATTACCACCTT
66 GCCAACTCATCGATGCGCTTGACGACCTATGCAAGCCACACCACACTAAGGTATATTACCACCTT
11932854 TTATTTTATT
Statistics
Matches: 113, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
140 10 0.09
141 103 0.91
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (140 bp):
CTTATTTGTGTGTTAAGGCATACACGTTGACACACCCAATGCACCATACTACATTAAGGCACCTT
GCCAACTCATCGATGCGCTTGACGACCTATGCAAGCCACACCACACTAAGGTATATTACCACCTT
GTATACCATA
Found at i:11941558 original size:15 final size:15
Alignment explanation
Indices: 11941531--11941586 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
11941521 ATTAAAAAAT
11941531 TTAAAAATAAAATTTA
1 TTAAAAAT-AAATTTA
*
11941547 TTATAAATAAA-TTA
1 TTAAAAATAAATTTA
* *
11941561 TGAAAAAATATATTTA
1 T-TAAAAATAAATTTA
*
11941577 TTACAAATAA
1 TTAAAAATAA
11941587 TTTTTCAACA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
14 4 0.13
15 16 0.52
16 11 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAAATAAATTTA
Found at i:11941858 original size:22 final size:22
Alignment explanation
Indices: 11941817--11941858 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11941807 TATGACTCGA
**
11941817 ATTTTATTATTTATTTATTTTT
1 ATTTTATTATTTATGAATTTTT
*
11941839 ATTTTATTCTTTATGAATTT
1 ATTTTATTATTTATGAATTT
11941859 AGTTAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTATTATTTATGAATTTTT
Found at i:11942722 original size:17 final size:16
Alignment explanation
Indices: 11942673--11942723 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
11942663 ATCCATTTTT
11942673 TTCATTTA-TTTTTATC
1 TTCATTTATTTTTTA-C
* *
11942689 TTTATTTTTTATTTTAC
1 TTCATTTATT-TTTTAC
11942706 TTCATTTATTTTATTAC
1 TTCATTTATTTT-TTAC
11942723 T
1 T
11942724 ATTGTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 8 0.29
17 15 0.54
18 5 0.18
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCATTTATTTTTTAC
Found at i:11946715 original size:12 final size:12
Alignment explanation
Indices: 11946698--11946723 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11946688 GAAATAATTC
11946698 AAAAAAAAAAAG
1 AAAAAAAAAAAG
11946710 AAAAAAAAAAAG
1 AAAAAAAAAAAG
11946722 AA
1 AA
11946724 TGGAGCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:11947999 original size:37 final size:37
Alignment explanation
Indices: 11947915--11948117 Score: 126
Period size: 37 Copynumber: 5.8 Consensus size: 37
11947905 ATTTAGTCCG
* * * * * * *
11947915 ATCATTTTCATTTCAACTTAAAGGCTTAGACTAAGTC
1 ATCATCTTCATTTTAACTTATAGGCTCAAACCAAATC
* * *
11947952 ACCATTTTCATTTTAACTTATAGGCTCAAATCAAATC
1 ATCATCTTCATTTTAACTTATAGGCTCAAACCAAATC
* * *
11947989 ATCATCTTCA--TT---TGATAGTCTCAAACCCAATC
1 ATCATCTTCATTTTAACTTATAGGCTCAAACCAAATC
* * * *
11948021 ACCATCTTCATTTCAACTTACAGGCTCAAACCAAGTC
1 ATCATCTTCATTTTAACTTATAGGCTCAAACCAAATC
* *
11948058 ATCA---TC--TTTGACTTATAGGC-CTAAACCAAGTC
1 ATCATCTTCATTTTAACTTATAGGCTC-AAACCAAATC
*
11948090 ATCATCTTCATTTCAACTTA-A-GCTCAAA
1 ATCATCTTCATTTTAACTTATAGGCTCAAA
11948118 TCTAGTTATT
Statistics
Matches: 127, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
31 1 0.01
32 50 0.39
34 3 0.02
35 9 0.07
36 2 0.02
37 62 0.49
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (37 bp):
ATCATCTTCATTTTAACTTATAGGCTCAAACCAAATC
Found at i:11948012 original size:32 final size:32
Alignment explanation
Indices: 11947971--11948033 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
11947961 ATTTTAACTT
* *
11947971 ATAGGCTCAAATCAAATCATCATCTTCATTTG
1 ATAGGCTCAAACCAAATCACCATCTTCATTTG
* *
11948003 ATAGTCTCAAACCCAATCACCATCTTCATTT
1 ATAGGCTCAAACCAAATCACCATCTTCATTT
11948034 CAACTTACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (32 bp):
ATAGGCTCAAACCAAATCACCATCTTCATTTG
Found at i:11948031 original size:69 final size:68
Alignment explanation
Indices: 11947947--11948119 Score: 201
Period size: 69 Copynumber: 2.5 Consensus size: 68
11947937 GGCTTAGACT
* * * *
11947947 AAGTCACCATTTTCATTTTAACTTATAGGCTCAAATCAAATCATCATC-TTCATTTGATA-GTCT
1 AAGTCACCATCTTCATTTCAACTTA-AGGCTCAAATCAAATCATCATCTTTCACTT-ATAGGCCT
11948010 CAAACCC
64 -AAA-CC
* * *
11948017 AA-TCACCATCTTCATTTCAACTTACAGGCTCAAACCAAGTCATCATCTTTGACTTATAGGCCTA
1 AAGTCACCATCTTCATTTCAACTTA-AGGCTCAAATCAAATCATCATCTTTCACTTATAGGCCTA
11948081 AACC
65 AACC
*
11948085 AAGTCATCATCTTCATTTCAACTTAA-GCTCAAATC
1 AAGTCACCATCTTCATTTCAACTTAAGGCTCAAATC
11948120 TAGTTATTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
67 8 0.09
68 5 0.06
69 67 0.74
70 10 0.11
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (68 bp):
AAGTCACCATCTTCATTTCAACTTAAGGCTCAAATCAAATCATCATCTTTCACTTATAGGCCTAA
ACC
Found at i:11948072 original size:32 final size:32
Alignment explanation
Indices: 11948036--11948097 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
11948026 CTTCATTTCA
11948036 ACTTACAGG-CTCAAACCAAGTCATCATCTTTG
1 ACTTACAGGCCT-AAACCAAGTCATCATCTTTG
*
11948068 ACTTATAGGCCTAAACCAAGTCATCATCTT
1 ACTTACAGGCCTAAACCAAGTCATCATCTT
11948098 CATTTCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.29
Consensus pattern (32 bp):
ACTTACAGGCCTAAACCAAGTCATCATCTTTG
Found at i:11948189 original size:32 final size:31
Alignment explanation
Indices: 11948153--11948225 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
11948143 GTTTGGTTAC
* *
11948153 TTTCATTTTCATCCTTGTCTTAATTTGATCAT
1 TTTCATTTTCAT-CTTGGCTCAATTTGATCAT
*
11948185 TTTCATTTTTGATCTTGGCTCAATTTGATCAT
1 TTTCA-TTTTCATCTTGGCTCAATTTGATCAT
*
11948217 TTTCTTTTT
1 TTTCATTTT
11948226 TAAACCTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 4 0.11
32 26 0.72
33 6 0.17
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (31 bp):
TTTCATTTTCATCTTGGCTCAATTTGATCAT
Found at i:11948371 original size:31 final size:31
Alignment explanation
Indices: 11948333--11948453 Score: 107
Period size: 31 Copynumber: 3.8 Consensus size: 31
11948323 TCTGACTTGT
*
11948333 AGTTCAATCTCGGCCACTTATTTTTTACCTC
1 AGTTCAATCTCGGTCACTTATTTTTTACCTC
* * * *
11948364 AGTTCAATCTAGGTCATTTAATTTTCTAACTTGC
1 AGTTCAATCTCGGTCACTT-ATTTT-TTACCT-C
* * * *
11948398 AGTTTAGTCCCAGTCACTTATTTTTTACCTC
1 AGTTCAATCTCGGTCACTTATTTTTTACCTC
* * *
11948429 AGTTCAATCTAGGTCATTTAATTTT
1 AGTTCAATCTCGGTCACTTATTTTT
11948454 CTAACTTGTG
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
31 35 0.52
32 9 0.13
33 9 0.13
34 14 0.21
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (31 bp):
AGTTCAATCTCGGTCACTTATTTTTTACCTC
Found at i:11948416 original size:65 final size:64
Alignment explanation
Indices: 11948315--11948624 Score: 291
Period size: 65 Copynumber: 4.7 Consensus size: 64
11948305 TCCAATCATT
* * * * *
11948315 TTTAATATTCTGACTTGTAGTTCAATCTCGGCCACTTATTTTTTACCTCAG-TTCAATCTAGGTC
1 TTTAATTTTCTAACTTG-AGTTCAATCCCAGTCACTTATTTTTTACCT-AGATTCAATCTAGGTC
11948379 A
64 A
* *
11948380 TTTAATTTTCTAACTTGCAGTTTAGTCCCAGTCACTTATTTTTTACCTCAG-TTCAATCTAGGTC
1 TTTAATTTTCTAACTTG-AGTTCAATCCCAGTCACTTATTTTTTACCT-AGATTCAATCTAGGTC
11948444 A
64 A
* ** * * *
11948445 TTTAATTTTCTAACTTGTGATTCAATCCCAGTCACTTATTTTCAACCTTGATTCAGTCCAGGTCA
1 TTTAATTTTCTAACTTGAG-TTCAATCCCAGTCACTTATTTTTTACCTAGATTCAATCTAGGTCA
* * * * * * * ** * * *
11948510 TTTAATTTTTTGACTTGCAGTTTAGTTCCAATCAATTATTTTCAACATTGATTCAGTCTAGGTCA
1 TTTAATTTTCTAACTTG-AGTTCAATCCCAGTCACTTATTTTTTACCTAGATTCAATCTAGGTCA
*
11948575 TTTAATTTTCTAACTTGAGGTTCAATCTCAGTCACTTTCATTTTTTACCT
1 TTTAATTTTCTAACTTGA-GTTCAATCCCAGTCAC-TT-ATTTTTTACCT
11948625 TAGCTCAGTT
Statistics
Matches: 202, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
64 3 0.01
65 188 0.93
66 3 0.01
67 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (64 bp):
TTTAATTTTCTAACTTGAGTTCAATCCCAGTCACTTATTTTTTACCTAGATTCAATCTAGGTCA
Found at i:11948469 original size:34 final size:34
Alignment explanation
Indices: 11948431--11948618 Score: 108
Period size: 34 Copynumber: 5.7 Consensus size: 34
11948421 TTTACCTCAG
*
11948431 TTCAATCTAGGTCATTTAATTTTCTAACTTGTGA
1 TTCAATCCAGGTCATTTAATTTTCTAACTTGTGA
* *
11948465 TTCAATCCCA-GTCACTT-ATTTTC-AACCT-TGA
1 TTCAAT-CCAGGTCATTTAATTTTCTAACTTGTGA
* * * *
11948496 TTCAGTCCAGGTCATTTAATTTTTTGACTTG-CA
1 TTCAATCCAGGTCATTTAATTTTCTAACTTGTGA
* * * * *
11948529 GTTTAGTTCCA-ATCAATT-ATTTTC-AACAT-TGA
1 -TTCA-ATCCAGGTCATTTAATTTTCTAACTTGTGA
* * * *
11948561 TTCAGTCTAGGTCATTTAATTTTCTAACTTGAGG
1 TTCAATCCAGGTCATTTAATTTTCTAACTTGTGA
*
11948595 TTCAATCTCA-GTCACTTTCATTTT
1 TTCAATC-CAGGTCA-TTTAATTTT
11948619 TTACCTTAGC
Statistics
Matches: 112, Mismatches: 28, Indels: 27
0.67 0.17 0.16
Matches are distributed among these distances:
30 6 0.05
31 22 0.20
32 19 0.17
33 19 0.17
34 31 0.28
35 15 0.13
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (34 bp):
TTCAATCCAGGTCATTTAATTTTCTAACTTGTGA
Found at i:11948483 original size:130 final size:130
Alignment explanation
Indices: 11948315--11948624 Score: 356
Period size: 130 Copynumber: 2.4 Consensus size: 130
11948305 TCCAATCATT
* * * * *
11948315 TTTAATATTCTGACTTGT-AGTTCAATCTCGGCCACTTATTTTTTACCTCAG-TTCAATCTAGGT
1 TTTAATTTTCTAACTTGTGA-TTCAATCTCAGTCACTTATTTTTTACCT-AGATTCAATCCAGGT
* * ** *
11948378 CATTTAATTTTCTAACTTGCAGTTTAGTCCCAGTCACTTATTTTTTACCTCAG-TTCAATCTAGG
64 CATTTAATTTTCTAACTTGCAGTTTAGTCCCAATCAATTATTTTCAACAT-AGATTCAATCTAGG
11948442 TCA
128 TCA
* ** * *
11948445 TTTAATTTTCTAACTTGTGATTCAATCCCAGTCACTTATTTTCAACCTTGATTCAGTCCAGGTCA
1 TTTAATTTTCTAACTTGTGATTCAATCTCAGTCACTTATTTTTTACCTAGATTCAATCCAGGTCA
* * * * *
11948510 TTTAATTTTTTGACTTGCAGTTTAGTTCCAATCAATTATTTTCAACATTGATTCAGTCTAGGTCA
66 TTTAATTTTCTAACTTGCAGTTTAGTCCCAATCAATTATTTTCAACATAGATTCAATCTAGGTCA
* *
11948575 TTTAATTTTCTAACTTGAGGTTCAATCTCAGTCACTTTCATTTTTTACCT
1 TTTAATTTTCTAACTTGTGATTCAATCTCAGTCAC-TT-ATTTTTTACCT
11948625 TAGCTCAGTT
Statistics
Matches: 150, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
129 2 0.01
130 136 0.91
131 3 0.02
132 9 0.06
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (130 bp):
TTTAATTTTCTAACTTGTGATTCAATCTCAGTCACTTATTTTTTACCTAGATTCAATCCAGGTCA
TTTAATTTTCTAACTTGCAGTTTAGTCCCAATCAATTATTTTCAACATAGATTCAATCTAGGTCA
Found at i:11948499 original size:31 final size:31
Alignment explanation
Indices: 11948405--11948499 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 31
11948395 TGCAGTTTAG
** *
11948405 TCCCAGTCACTTATTTTTTACC-TCAGTTCAA
1 TCCCAGTCACTTATTTTCAACCTTGA-TTCAA
* * *
11948436 T-CTAGGTCATTTAATTTTCTAACTTGTGATTCAA
1 TCCCA-GTCACTT-ATTTTC-AACCT-TGATTCAA
11948470 TCCCAGTCACTTATTTTCAACCTTGATTCA
1 TCCCAGTCACTTATTTTCAACCTTGATTCA
11948500 GTCCAGGTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
30 2 0.04
31 14 0.29
32 9 0.18
33 8 0.16
34 12 0.24
35 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.43
Consensus pattern (31 bp):
TCCCAGTCACTTATTTTCAACCTTGATTCAA
Found at i:11950655 original size:38 final size:36
Alignment explanation
Indices: 11950612--11950691 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 36
11950602 TAGTTTCCAT
*
11950612 AAAATCCAACCAACATATTGGAGGATAATTTTTGACAA
1 AAAATCCAACCAACATATTGGAAGAT-ATTTTTGA-AA
**
11950650 AAAATCTTACCAACATATTGGAAGATATTTTTGAAA
1 AAAATCCAACCAACATATTGGAAGATATTTTTGAAA
11950686 ATAAAT
1 A-AAAT
11950692 TATTTTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 3 0.08
37 12 0.32
38 23 0.61
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (36 bp):
AAAATCCAACCAACATATTGGAAGATATTTTTGAAA
Found at i:11956067 original size:7 final size:7
Alignment explanation
Indices: 11956046--11956298 Score: 89
Period size: 7 Copynumber: 38.3 Consensus size: 7
11956036 CATGCATCCA
11956046 TAAACCC
1 TAAACCC
*
11956053 -AAAACC
1 TAAACCC
11956059 TAAACCC
1 TAAACCC
*
11956066 TAAATCC
1 TAAACCC
11956073 -AAACCC
1 TAAACCC
*
11956079 TTAA-CC
1 TAAACCC
*
11956085 TTAACCC
1 TAAACCC
11956092 TAAA-CC
1 TAAACCC
11956098 -AAA-CC
1 TAAACCC
*
11956103 TCAAA-TC
1 T-AAACCC
* *
11956110 AAAATCC
1 TAAACCC
*
11956117 -AAACCT
1 TAAACCC
11956123 TAAA--C
1 TAAACCC
*
11956128 TGAAACCT
1 T-AAACCC
11956136 TAAATCCC
1 TAAA-CCC
*
11956144 -AAACCA
1 TAAACCC
*
11956150 TAAATCC
1 TAAACCC
11956157 -AAATCCC
1 TAAA-CCC
*
11956164 AAAACCC
1 TAAACCC
*
11956171 TAAA-TC
1 TAAACCC
*
11956177 AAAACCC
1 TAAACCC
**
11956184 TAAA-TG
1 TAAACCC
*
11956190 TAGACCC
1 TAAACCC
11956197 TAAACCC
1 TAAACCC
*
11956204 TAGACCC
1 TAAACCC
*
11956211 TAAACCT
1 TAAACCC
11956218 TAAA-CC
1 TAAACCC
11956224 TCAAA-CC
1 T-AAACCC
11956231 TAAA-CC
1 TAAACCC
*
11956237 AAAACCC
1 TAAACCC
*
11956244 -AAACCT
1 TAAACCC
11956250 TAAACCC
1 TAAACCC
*
11956257 TAAA-AC
1 TAAACCC
11956263 -AAGACCC
1 TAA-ACCC
11956270 -AAACCC
1 TAAACCC
*
11956276 CAAACCC
1 TAAACCC
*
11956283 TAAACCA
1 TAAACCC
11956290 TAAACCC
1 TAAACCC
11956297 TA
1 TA
11956299 GCCTAGACCT
Statistics
Matches: 183, Mismatches: 41, Indels: 44
0.68 0.15 0.16
Matches are distributed among these distances:
5 8 0.04
6 61 0.33
7 108 0.59
8 6 0.03
ACGTcount: A:0.47, C:0.36, G:0.02, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:11956084 original size:20 final size:20
Alignment explanation
Indices: 11956046--11956102 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
11956036 CATGCATCCA
11956046 TAAACCCAAAACCTAAACCC
1 TAAACCCAAAACCTAAACCC
* * *
11956066 TAAATCCAAACCCTTAA-CC
1 TAAACCCAAAACCTAAACCC
* *
11956085 TTAACCCTAAACC-AAACC
1 TAAACCCAAAACCTAAACC
11956103 TCAAATCAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
18 2 0.07
19 12 0.43
20 14 0.50
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.16
Consensus pattern (20 bp):
TAAACCCAAAACCTAAACCC
Found at i:11956158 original size:13 final size:13
Alignment explanation
Indices: 11956111--11956159 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
11956101 CCTCAAATCA
11956111 AAATCCAAACCTT
1 AAATCCAAACCTT
*
11956124 AAA-CTGAAACCTT
1 AAATC-CAAACCTT
*
11956137 AAATCCCAAACCAT
1 AAAT-CCAAACCTT
11956151 AAATCCAAA
1 AAATCCAAA
11956160 TCCCAAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 18 0.60
14 10 0.33
15 1 0.03
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (13 bp):
AAATCCAAACCTT
Found at i:11956181 original size:13 final size:13
Alignment explanation
Indices: 11956163--11956188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11956153 ATCCAAATCC
11956163 CAAAACCCTAAAT
1 CAAAACCCTAAAT
11956176 CAAAACCCTAAAT
1 CAAAACCCTAAAT
11956189 GTAGACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAAACCCTAAAT
Found at i:11956242 original size:26 final size:26
Alignment explanation
Indices: 11956219--11956296 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
11956209 CCTAAACCTT
11956219 AAACCTCAAA-CCTAAACCAAAACCC
1 AAACCTCAAACCCTAAACCAAAACCC
* * *
11956244 AAACCTTAAACCCTAAAACAAGACCC
1 AAACCTCAAACCCTAAACCAAAACCC
*
11956270 AAACCCCAAACCCTAAACCATAAACCC
1 AAACCTCAAACCCTAAACCA-AAACCC
11956297 TAGCCTAGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 9 0.20
26 30 0.68
27 5 0.11
ACGTcount: A:0.50, C:0.40, G:0.01, T:0.09
Consensus pattern (26 bp):
AAACCTCAAACCCTAAACCAAAACCC
Found at i:11957367 original size:19 final size:19
Alignment explanation
Indices: 11957339--11957381 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11957329 TTGTTTTCTT
11957339 AAAAAGTAAAAAAAATAAA
1 AAAAAGTAAAAAAAATAAA
* *
11957358 AAAAATTAAAGAAAATAAA
1 AAAAAGTAAAAAAAATAAA
11957377 AAAAA
1 AAAAA
11957382 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAAGTAAAAAAAATAAA
Found at i:11957383 original size:10 final size:9
Alignment explanation
Indices: 11957339--11957381 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
11957329 TTGTTTTCTT
*
11957339 AAAAAGTAA
1 AAAAAATAA
11957348 AAAAAATAA
1 AAAAAATAA
11957357 AAAAAATTAA
1 AAAAAA-TAA
*
11957367 AGAAAATAA
1 AAAAAATAA
11957376 AAAAAA
1 AAAAAA
11957382 ATTTGATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:11957446 original size:57 final size:57
Alignment explanation
Indices: 11957359--11957469 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 57
11957349 AAAAATAAAA
11957359 AAAATTAAAGAAAATAAAAAAAAATTTGATTTTAA-TTCCTTGTTTCTAAAGAGCAT
1 AAAATTAAAGAAAATAAAAAAAAATTTGATTTTAATTTCCTTGTTTCTAAAGAGCAT
* *
11957415 AAAATTCAA-AAAATAAAAAAAAGGTTTTGATTTTAATTTTCCTTGTTTCTAAAGA
1 AAAATTAAAGAAAATAAAAAAAA--ATTTGATTTTAA-TTTCCTTGTTTCTAAAGA
11957470 ATTAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
55 13 0.27
56 8 0.16
57 11 0.22
59 17 0.35
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (57 bp):
AAAATTAAAGAAAATAAAAAAAAATTTGATTTTAATTTCCTTGTTTCTAAAGAGCAT
Found at i:11957490 original size:57 final size:54
Alignment explanation
Indices: 11957383--11957491 Score: 123
Period size: 59 Copynumber: 1.9 Consensus size: 54
11957373 TAAAAAAAAA
*
11957383 TTTGATTTTAATTCCTTGTTTCTAAAGAGCATAAAATTCAAAAAATAAAAAAAAGGT
1 TTTGATTTTAATTCCTTGTTTCTAAAGA-CATAAAA-T-AAAAAAAAAAAAAAAGGT
* *
11957440 TTTGATTTTAATTTTCCTTGTTTCTAAAGA-ATTAAAA-AAAACAGAAAAAAAA
1 TTTGATTTTAA--TTCCTTGTTTCTAAAGACA-TAAAATAAAAAAAAAAAAAAA
11957492 TGTGTGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
55 13 0.28
57 12 0.26
58 5 0.11
59 17 0.36
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (54 bp):
TTTGATTTTAATTCCTTGTTTCTAAAGACATAAAATAAAAAAAAAAAAAAAGGT
Found at i:11968869 original size:145 final size:142
Alignment explanation
Indices: 11968446--11968857 Score: 457
Period size: 144 Copynumber: 2.9 Consensus size: 142
11968436 CTCATTTTTA
* *
11968446 TGATTTTAAA-ACACCAAATATCATGAAATATTATAAAATTGAGATCTAAAAAGTTTCATGAAAA
1 TGATTTCAAATACACCAAA-ATCATGAAATATTATAAAATTGAGATCTAAAAAATTTCATGAAAA
* *
11968510 TCCAAGCTCGGGAAGGCCAAATTACAAAAATATCCTTAATGGGATATTTTGGTAATTTCATACAT
65 TCTAAGCTCGGGAAGGCCAAATTACAAAAATACCCTTAATGGG-TATTTTGGTAATTTCATAC-T
* *
11968575 CTCAAGGTGCTGCTG
128 CTCAAGGTACTACTG
* * * * *
11968590 TGATTTCAAATTCACCAAAATTATGAAATATTATGAAATTAAGATCCAAAAAATTTCATGAAAAT
1 TGATTTCAAATACACCAAAATCATGAAATATTATAAAATTGAGATCTAAAAAATTTCATGAAAAT
* * ** ** * * * * *
11968655 CTGAGCTTGGGAATACCAAATTATGAAAATACTCATAATGTGATATTTTGATAATTTCACACCTC
66 CTAAGCTCGGGAAGGCCAAATTACAAAAATACCCTTAATG-GGTATTTTGGTAATTTCATA-CTC
*
11968720 TCAAGGTACTATTG
129 TCAAGGTACTACTG
* * * * * *
11968734 TGATTTTAACTACACTAAGAATCATGAAATATTATAAAATTGAGATTTGAAAATTTTCATGAAAA
1 TGATTTCAAATACACCAA-AATCATGAAATATTATAAAATTGAGATCTAAAAAATTTCATGAAAA
** *
11968799 TCTAAGCTCGAAAAGGTCAAATTACAAAAAATACCCTTAAATGGGTATTTTGGTAATTT
65 TCTAAGCTCGGGAAGGCCAAATTAC-AAAAATACCCTT-AATGGGTATTTTGGTAATTT
11968858 TATTTCCTCA
Statistics
Matches: 215, Mismatches: 47, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
144 123 0.57
145 65 0.30
146 23 0.11
147 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (142 bp):
TGATTTCAAATACACCAAAATCATGAAATATTATAAAATTGAGATCTAAAAAATTTCATGAAAAT
CTAAGCTCGGGAAGGCCAAATTACAAAAATACCCTTAATGGGTATTTTGGTAATTTCATACTCTC
AAGGTACTACTG
Found at i:11969365 original size:9 final size:8
Alignment explanation
Indices: 11969345--11969383 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
11969335 TTTATAGTTG
11969345 TTTTTTAA
1 TTTTTTAA
11969353 TTTTTTAA
1 TTTTTTAA
*
11969361 TTTTTTAGG
1 TTTTTTA-A
*
11969370 TTTTTTAG
1 TTTTTTAA
11969378 TTTTTT
1 TTTTTT
11969384 CTTGTTTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:11969506 original size:35 final size:33
Alignment explanation
Indices: 11969423--11969525 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 33
11969413 AAGAACTATC
*
11969423 GAGACAACACTATAAGTCGAAAAATAAGAAATGATT
1 GAGACAACACCATAAGTC-AAAAAT-A-AAATGATT
*
11969459 GAAACAACACCATAAGTCAAAGAATACAAATGATT
1 GAGACAACACCATAAGTCAAA-AATA-AAATGATT
* *
11969494 GGGACAATACCATAAGTCAAAAAATAAAATGA
1 GAGACAACACCATAAGTC-AAAAATAAAATGA
11969526 CCAGGATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
34 6 0.10
35 31 0.53
36 22 0.37
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (33 bp):
GAGACAACACCATAAGTCAAAAATAAAATGATT
Found at i:11969737 original size:36 final size:37
Alignment explanation
Indices: 11969645--11969781 Score: 108
Period size: 36 Copynumber: 3.8 Consensus size: 37
11969635 GGTGATCAAG
* *
11969645 ATAACACTAATGGTCAAGAAG-TAAAGATGATCGAGAC
1 ATAACACCAATGGTCAAGAAGATAAAGATGA-CCAGAC
*** * *
11969682 A-AA-ACCAATGGTTGGGAAGACAAATATGACCA-AC
1 ATAACACCAATGGTCAAGAAGATAAAGATGACCAGAC
* *
11969716 ATAACACCAATGGTCAAGAAGATAAAGATGA-CTGAG
1 ATAACACCAATGGTCAAGAAGATAAAGATGACCAGAC
* *
11969752 ATAATACCAACGGTCGAA-AAG-TAAAGATGA
1 ATAACACCAATGGTC-AAGAAGATAAAGATGA
11969782 TGGGGACAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 3 0.04
35 26 0.33
36 47 0.59
37 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (37 bp):
ATAACACCAATGGTCAAGAAGATAAAGATGACCAGAC
Found at i:11969894 original size:106 final size:106
Alignment explanation
Indices: 11969718--11969974 Score: 304
Period size: 106 Copynumber: 2.4 Consensus size: 106
11969708 TGACCAACAT
* * * *
11969718 AACACCAATGGTCAAGAAGATAAAGATGACTGAGATAATACCAACGGTCGAAAAGTAAAGATGAT
1 AACACCAATGGTCAAGAA-ATAAAGATGACTGAGACAACACCAACAGTCAAAAAGTAAAGATGAT
* *
11969783 GGGGACAACATCAACAATCAAAAAGATAAAAATGACCGAGAC
65 GGGGACAACACCAACAATCAAAAAGATAAAAATCACCGAGAC
* *
11969825 AACACCAATGGT-AGAGAAATAGAAG-TGACTGAGACAACACCAATAGTCAAAAAGTAGAGATGA
1 AACACCAATGGTCA-AGAAATA-AAGATGACTGAGACAACACCAACAGTCAAAAAGTAAAGATGA
*** ** *
11969888 CT-GGGACAACACCAATGGTCAAAAAGATAAAAATCATTGGGAC
64 -TGGGGACAACACCAACAATCAAAAAGATAAAAATCACCGAGAC
* * *
11969931 AACACCAATGGTCAAGAATTTAAGATTACTGAGACAACACCAAC
1 AACACCAATGGTCAAGAAATAAAGATGACTGAGACAACACCAAC
11969975 GATCGGGTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
105 3 0.02
106 103 0.81
107 21 0.17
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (106 bp):
AACACCAATGGTCAAGAAATAAAGATGACTGAGACAACACCAACAGTCAAAAAGTAAAGATGATG
GGGACAACACCAACAATCAAAAAGATAAAAATCACCGAGAC
Found at i:11969932 original size:71 final size:72
Alignment explanation
Indices: 11969718--11969973 Score: 234
Period size: 71 Copynumber: 3.6 Consensus size: 72
11969708 TGACCAACAT
* * * * * * *
11969718 AACACCAATGGTCAAGAAGATAAAGATGACTGAGATAATACCAACGGTCGAAAAG-TAAAGATGA
1 AACACCAATAGTCAAAAAGATAAAGATGACTGAGACAACACCAATGGTCAAAAAGATAAAAATGA
*
11969782 TGGGGAC
66 TTGGGAC
* * * * * * * *
11969789 AACATCAACAATCAAAAAGATAAAAATGACCGAGACAACACCAATGGT-AGAGAA-ATAGAAGTG
1 AACACCAATAGTCAAAAAGATAAAGATGACTGAGACAACACCAATGGTCA-AAAAGATAAAAATG
* *
11969852 ACTGAGAC
65 ATTGGGAC
* * *
11969860 AACACCAATAGTCAAAAAG-TAGAGATGACTGGGACAACACCAATGGTCAAAAAGATAAAAATCA
1 AACACCAATAGTCAAAAAGATAAAGATGACTGAGACAACACCAATGGTCAAAAAGATAAAAATGA
11969924 TTGGGAC
66 TTGGGAC
* * * * *
11969931 AACACCAATGGTCAAGAA-TTTAAGATTACTGAGACAACACCAA
1 AACACCAATAGTCAAAAAGATAAAGATGACTGAGACAACACCAA
11969974 CGATCGGGTT
Statistics
Matches: 143, Mismatches: 37, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
70 27 0.19
71 116 0.81
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (72 bp):
AACACCAATAGTCAAAAAGATAAAGATGACTGAGACAACACCAATGGTCAAAAAGATAAAAATGA
TTGGGAC
Found at i:11970059 original size:36 final size:36
Alignment explanation
Indices: 11969987--11970346 Score: 263
Period size: 35 Copynumber: 10.1 Consensus size: 36
11969977 TCGGGTTATC
* * * * *
11969987 CCAATGATCGAAAAGATAAAAATAACC-ATGATAACA
1 CCAACGATCAAAAAGATAAAGATGACCGA-GACAACA
* * *
11970023 CCAATGATCAAAAAGATAAAGATAACCGGGACAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
** * * * * *
11970059 CCGTCAATCGATAAGATAAAAATAACC-AGAACAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAG-ACAACA
* * * *
11970095 CCAACGATAAAAAAAAATAAAG-TGATCGAAACAACA
1 CCAACGAT-CAAAAAGATAAAGATGACCGAGACAACA
* * *
11970131 CCAACGGTCAGAAAA-AT-AAGATCA-CTAGAACAACA
1 CCAACGATCA-AAAAGATAAAGATGACCGAG-ACAACA
* * *
11970166 CTAACGATCAAAAAG-TAAAGATGACCGAAATAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
* * * *
11970201 CCAACGTTCAGAAAGATAAA-ATGATCGGGACAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
* *
11970236 CCAATGATCAAAAAG-TAAATATGACCGAGACAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
* * *
11970271 CCAACGATCAAAAAG-TAAATATGATCGAGACAACC
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
* * * *
11970306 CCAATGATTAAGAAGATAAAGATGACCAAGACAACA
1 CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
11970342 CCAAC
1 CCAAC
11970347 AGTAAAGAGA
Statistics
Matches: 254, Mismatches: 57, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
34 14 0.06
35 123 0.48
36 108 0.43
37 9 0.04
ACGTcount: A:0.53, C:0.20, G:0.14, T:0.13
Consensus pattern (36 bp):
CCAACGATCAAAAAGATAAAGATGACCGAGACAACA
Found at i:11970129 original size:72 final size:72
Alignment explanation
Indices: 11969993--11970132 Score: 167
Period size: 72 Copynumber: 1.9 Consensus size: 72
11969983 TATCCCAATG
* * * * **
11969993 ATCGAAAAGATAAAAATAACCATGATAACACCAATGATCAAAAAGATAAAGATAACCGGGACAAC
1 ATCGAAAAGATAAAAATAACCATGACAACACCAACGATAAAAAAAATAAAGATAACCGAAACAAC
11970058 ACCGTCA
66 ACCGTCA
* * *
11970065 ATCGATAAGATAAAAATAACCA-GAACAACACCAACGATAAAAAAAAATAAAG-TGATCGAAACA
1 ATCGAAAAGATAAAAATAACCATG-ACAACACCAACGAT-AAAAAAAATAAAGATAACCGAAACA
11970128 ACACC
64 ACACC
11970133 AACGGTCAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 1 0.02
72 45 0.79
73 11 0.19
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.13
Consensus pattern (72 bp):
ATCGAAAAGATAAAAATAACCATGACAACACCAACGATAAAAAAAATAAAGATAACCGAAACAAC
ACCGTCA
Found at i:11971618 original size:13 final size:13
Alignment explanation
Indices: 11971591--11971635 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
11971581 AACAACAAAT
11971591 AAAGAAAATAAAGA
1 AAAGAAAA-AAAGA
11971605 AAA-AAAGAAAAGA
1 AAAGAAA-AAAAGA
11971618 AAAGAAAAAAAGA
1 AAAGAAAAAAAGA
11971631 GAAAG
1 -AAAG
11971636 CAAGAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAGA
Found at i:11971643 original size:20 final size:18
Alignment explanation
Indices: 11971591--11971650 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
11971581 AACAACAAAT
*
11971591 AAAGAAAA-TAAAGAAAA
1 AAAGAAAAGAAAAGAAAA
11971608 AAAGAAAAGAAAAGAAAA
1 AAAGAAAAGAAAAGAAAA
*
11971626 AAAGAGAAAGCAAGAGAAAA
1 AAAGA-AAAG-AAAAGAAAA
11971646 TAAAG
1 -AAAG
11971651 GTTCATATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.22
18 13 0.35
19 4 0.11
20 8 0.22
21 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAGAAAAGAAAAGAAAA
Found at i:11972321 original size:12 final size:12
Alignment explanation
Indices: 11972298--11972358 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
11972288 AATGAAAGAA
11972298 AATGAGAATGATG
1 AATGA-AATGATG
*
11972311 TATGAAATGATG
1 AATGAAATGATG
*
11972323 AATGAAAGGAT-
1 AATGAAATGATG
* *
11972334 AAAG-GATGAT-
1 AATGAAATGATG
11972344 AATGAAATGATG
1 AATGAAATGATG
11972356 AAT
1 AAT
11972359 AATGGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
10 7 0.18
11 8 0.21
12 19 0.50
13 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (12 bp):
AATGAAATGATG
Found at i:11972352 original size:51 final size:52
Alignment explanation
Indices: 11972247--11972379 Score: 125
Period size: 51 Copynumber: 2.6 Consensus size: 52
11972237 TAAAAAAATG
* *
11972247 AATGAATGAA-AATGAAGAAATGATGAATG-AAGGAATAGGAAAATGAAAGAA
1 AATG-ATGAATAATGGAGAAATGATGAATGAAAGGAAAAGGAAAATGAAAGAA
* * ** *
11972298 AATGA-GAATGATGTATGAAATGATGAATGAAAGGATAAAGGATGAT-AATG-A
1 AATGATGAATAATGGA-GAAATGATGAATGAAAGGA-AAAGGAAAATGAAAGAA
*
11972349 AATGATGAATAATGGAAAAATGATGAA-GAAA
1 AATGATGAATAATGGAGAAATGATGAATGAAA
11972380 TAAAAAATGA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
49 3 0.04
50 9 0.13
51 33 0.49
52 16 0.24
53 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.20
Consensus pattern (52 bp):
AATGATGAATAATGGAGAAATGATGAATGAAAGGAAAAGGAAAATGAAAGAA
Found at i:11972410 original size:17 final size:16
Alignment explanation
Indices: 11972364--11972410 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
11972354 TGAATAATGG
11972364 AAAAATGATGAA-GAA
1 AAAAATGATGAATGAA
*
11972379 ATAAAA-AATGAATGAA
1 A-AAAATGATGAATGAA
11972395 AAAAATGATGGAATGA
1 AAAAATGAT-GAATGA
11972411 CAATGATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 10 0.38
16 10 0.38
17 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (16 bp):
AAAAATGATGAATGAA
Found at i:11972759 original size:12 final size:12
Alignment explanation
Indices: 11972736--11972778 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 12
11972726 GAACATTTAT
11972736 AAAA-AAAA-AA
1 AAAACAAAAGAA
11972746 AAAACAAAAGAA
1 AAAACAAAAGAA
11972758 AAAACCAAAGAGAA
1 AAAA-CAAA-AGAA
11972772 AAAACAA
1 AAAACAA
11972779 TGCTTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.14
11 4 0.14
12 6 0.21
13 7 0.24
14 8 0.28
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAACAAAAGAA
Found at i:11972776 original size:14 final size:13
Alignment explanation
Indices: 11972738--11972776 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11972728 ACATTTATAA
* *
11972738 AAAAAAAAAAAAC
1 AAAAGAAAAAACC
11972751 AAAAGAAAAAACC
1 AAAAGAAAAAACC
11972764 AAAGAGAAAAAAC
1 AAA-AGAAAAAAC
11972777 AATGCTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAACC
Found at i:11972862 original size:50 final size:50
Alignment explanation
Indices: 11972808--11973011 Score: 236
Period size: 50 Copynumber: 4.1 Consensus size: 50
11972798 TGCAATTAAA
* *
11972808 CTTTTCAAAGAAGAGATTTTTAAAGTTTCAAAACCTTTATTCAGAAAGAG
1 CTTTTCAAAGATGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAG
* * * *
11972858 CTTTTCAAATG-TGAGGA-TTTTAAAGTTTTAAAGCCT-TCATTCAGGAGGAG
1 CTTTTCAAA-GATGA-GATTTTTAAAGTTTCAAAACCTCT-ATTCAGAAAGAG
* *
11972908 CTTTTCAAAGATGAGATTTTTAAAGTTTTAAAACCTCTATTCAGAAAGAT
1 CTTTTCAAAGATGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAG
* * * *
11972958 CTTTTCAAAGATGATATTTTTAAAATTTCAAAGCCTCTACTT-AAAAAGAG
1 CTTTTCAAAGATGAGATTTTTAAAGTTTCAAAACCTCTA-TTCAGAAAGAG
11973008 CTTT
1 CTTT
11973012 CCATAATTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
49 4 0.03
50 122 0.92
51 6 0.05
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (50 bp):
CTTTTCAAAGATGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAG
Found at i:11972981 original size:100 final size:100
Alignment explanation
Indices: 11972808--11972993 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 100
11972798 TGCAATTAAA
*
11972808 CTTTTCAAAGAAGAGATTTTTAAAGTTTCAAAACCTTTATTCAGAAAGAGCTTTTCAAATGTGAG
1 CTTTTCAAAGAAGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAGCTTTTCAAATGTGAG
* *
11972873 GATTTTAAAGTTTTAAAGCCTTCATTCAGGAGGAG
66 GATTTTAAAATTTCAAAGCCTTCATTCAGGAGGAG
* * *
11972908 CTTTTCAAAGATGAGATTTTTAAAGTTTTAAAACCTCTATTCAGAAAGATCTTTTCAAA-GATGA
1 CTTTTCAAAGAAGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAGCTTTTCAAATG-TGA
*
11972972 -TATTTTTAAAATTTCAAAGCCT
65 GGA-TTTTAAAATTTCAAAGCCT
11972994 CTACTTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
99 2 0.03
100 75 0.97
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (100 bp):
CTTTTCAAAGAAGAGATTTTTAAAGTTTCAAAACCTCTATTCAGAAAGAGCTTTTCAAATGTGAG
GATTTTAAAATTTCAAAGCCTTCATTCAGGAGGAG
Found at i:11976432 original size:115 final size:115
Alignment explanation
Indices: 11976219--11976472 Score: 384
Period size: 115 Copynumber: 2.2 Consensus size: 115
11976209 AGTTAGACAA
* **
11976219 GATCGATCCCCTCCAGAAGGGATTGATCACTTTTTCATACAGAATCATCACTTCCCTCAATTTTC
1 GATCGATCCCCTCTAGAAGGGATCAATCACTTTTTCATACAGAATCATCACTTCCCTCAATTTTC
11976284 TAGAAAAAGGATCAATCCCCCACATAAAGGATTGATCACCTATGGCAAAG
66 TAGAAAAAGGATCAATCCCCCACATAAAGGATTGATCACCTATGGCAAAG
* *
11976334 GATCGATCTCCTCTAGAAGGGATCAATCACTTTTTCATATAGAATCATCACTTCCCTCAATTTTC
1 GATCGATCCCCTCTAGAAGGGATCAATCACTTTTTCATACAGAATCATCACTTCCCTCAATTTTC
* * * ** * *
11976399 TAGAAAAGGGATCGATCCCTCATGTAAATGATTGATCACCTATGGCAAGG
66 TAGAAAAAGGATCAATCCCCCACATAAAGGATTGATCACCTATGGCAAAG
11976449 GATCGATCCCCTCTTA-AAGGGATC
1 GATCGATCCCCTC-TAGAAGGGATC
11976473 GATCGGTTGC
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
115 123 0.98
116 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (115 bp):
GATCGATCCCCTCTAGAAGGGATCAATCACTTTTTCATACAGAATCATCACTTCCCTCAATTTTC
TAGAAAAAGGATCAATCCCCCACATAAAGGATTGATCACCTATGGCAAAG
Found at i:11976562 original size:74 final size:72
Alignment explanation
Indices: 11976445--11976623 Score: 198
Period size: 74 Copynumber: 2.4 Consensus size: 72
11976435 CACCTATGGC
* * * * * *
11976445 AAGGGATCGATCCCCTCTTAAAGGGATCGATCGGTTGCTCAAACAGAA-TACCCTAAAGTCTGAA
1 AAGGGATCAATCCCTTCTTAAAGGGATCTATCAGTTACTCAAACAGAAGTACCC--AAGTCTAAA
11976509 AACCTAGAA
64 AACCTAGAA
* * * *
11976518 AAGGGATCAATCCCTTCTTAAAAGGGATTTATCAGTTACTCAAACAGAATGTTCCCCAGTTTAAA
1 AAGGGATCAATCCCTTCTT-AAAGGGATCTATCAGTTACTCAAACAGAA-GTACCCAAGTCTAAA
11976583 AACCTAGAA
64 AACCTAGAA
* * *
11976592 AAGAGATCTATCCCTTATTAAAGGGATCTATC
1 AAGGGATCAATCCCTTCTTAAAGGGATCTATC
11976624 GGGTAAGGCA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
73 29 0.33
74 56 0.63
76 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
AAGGGATCAATCCCTTCTTAAAGGGATCTATCAGTTACTCAAACAGAAGTACCCAAGTCTAAAAA
CCTAGAA
Found at i:11979634 original size:967 final size:967
Alignment explanation
Indices: 11977760--11979690 Score: 3506
Period size: 967 Copynumber: 2.0 Consensus size: 967
11977750 TGTGAATTTT
*
11977760 TTTTCAAGCTTAAATCTACTAATTTCTCATTGATACTCAAATATGTTTTTGAATATACCAGTTCT
1 TTTTCAAGCTTAAATCTACTAATTTCTCATTGATACTCAAATATGTTTTTGAATATACCAATTCT
*
11977825 AACCTAGCTACAGTTTTTAGATCATATCTCATTCAAATCTTACTTGTTTTTTTTTTAATTTTTTT
66 AACCTAGCTACAGTTTTTAGATCATATCTCATTCAAATCTTACTTGTTTTTTGTTTAATTTTTTT
*
11977890 CATTATTTCCTAATTCATTTAGCTACAACATATTAAAAATTGAACCTTAAACTCGCATCACAGCA
131 CATTATTTCCTAATTCATTTAGCTACAACATATTAAAAATTCAACCTTAAACTCGCATCACAGCA
* *
11977955 TTTCAGATCAAGCTTGGAAGATTTGTTTAGATGCAGGAGATAGTGCAAGTAGATGTGATCAATCA
196 TTTCAAATCAAGCTTGGAAGATTTGTTTAGATGCAGGAGATAGTACAAGTAGATGTGATCAATCA
*
11978020 ATTATTTTGTCATGGAACTGCTCTCTCCTTGGTGAGTTGTTTACCTTCTTTTCACTCTAAATCTT
261 ATTATTTTGTCATAGAACTGCTCTCTCCTTGGTGAGTTGTTTACCTTCTTTTCACTCTAAATCTT
* ** *
11978085 TAGTTTTACTTGTATACTTATTGGATTTTGCTTGATACAGTTTATTTCCTTACATTTAATTGTTG
326 TAGTTTTACTTGTATACTTATTGAATTTTGCTTGATACAGTTTATTTCCGCACATTTAATTGCTG
*
11978150 TTTGGATTACATTTGTAGTGCATACTCAATTTTTTACATTTTTTAATGCTATTTAGTTTGCTAGC
391 TTTGGATTACATTTGTAGTGCATACTCAATTTTCTACATTTTTTAATGCTATTTAGTTTGCTAGC
11978215 TAATTGAGCTTGTTTTTCTTTTCTTTTTTTTTTAGTTATGAATTTCTTGCTTGATTTTGTAGCAA
456 TAATTGAGCTTGTTTTTCTTTTCTTTTTTTTTTAGTTATGAATTTCTTGCTTGATTTTGTAGCAA
*
11978280 ATTTGTTGTTTAATTGTTCCTTAGCTCAGTTTTACTTCATTTTCATTCTAAATTTCTTTATCTAA
521 ATTTGTTGTTTAATTGTTCCTTAGCTCAGTTTTACTTCATTTTCATTCCAAATTTCTTTATCTAA
*
11978345 TTTTTTCTTACGTGAACTCAGTGAGTTACACCTGAAAATTTTGAAATCTATTTTAGTTTCCTTAG
586 TTTTTTCTTACGTGAACTCAGTGAGTTACACCTGAAAATTTTGAAATCTATTTTAGTTTCCTTAA
* *
11978410 AGAGTTCTTACATTTCCTTTTACTTTTTGTTCTGCAATTCATTTTTTCTTTTACTTCTTTAGTTG
651 AGAGTTCTTACATTTCCTTTTACTTTTTGTTCTACAATTCATTCTTTCTTTTACTTCTTTAGTTG
* * *
11978475 ATCTTTTTAATTTCAACACATGGTCATTTGCTTTAGCTTTAATTAGATATAGATTAATCAAATTT
716 ATCTTTTTAATTTCAACACATAGTCATTTGCTTTAGCTTCAATTAGATATAGATTAATCAAATTC
*
11978540 AAATTCAGTTGCAAGTTAATTAAATGTTAGTTGCGGTTTTGTATCCCTCCATTCCTTTATGGAAT
781 AAATTCAGTTGCAAGTTAATTAAATGTTAGTTGCGGTTTTGTATCCCTCCATTCCTTTATGCAAT
11978605 TTTCTCTACTTTTGTTTTTTAATTTGATTCTTCATAATGTTCCATGATAGATTCTTAAAATTTCA
846 TTTCTCTACTTTTGTTTTTTAATTTGATTCTTCATAATGTTCCATGATAGATTCTTAAAATTTCA
11978670 ATAGGTTTTCATTTGATCAAGTACAACTTAGATGCAAAATAGTAGTTAAAAAATATG
911 ATAGGTTTTCATTTGATCAAGTACAACTTAGATGCAAAATAGTAGTTAAAAAATATG
*
11978727 TTTTCAAGCTTAAATCTACTAATTTCTCATTGATACTCAAATATGTTTTTGAATCTACCAATTCT
1 TTTTCAAGCTTAAATCTACTAATTTCTCATTGATACTCAAATATGTTTTTGAATATACCAATTCT
*
11978792 AACCTAGCTATAGTTTTTAGATCATATCTCATTCAAATCTTACTTG-TTTTTGTTTAATTTTTTT
66 AACCTAGCTACAGTTTTTAGATCATATCTCATTCAAATCTTACTTGTTTTTTGTTTAATTTTTTT
* *
11978856 CATTATTTCCTAATTCATTTAGCTACAACATATTAAAACTTCAACCTTAAACTCGCATCATAGCA
131 CATTATTTCCTAATTCATTTAGCTACAACATATTAAAAATTCAACCTTAAACTCGCATCACAGCA
* *
11978921 TTTCAAATCAAGC-TGGAAGATTTGTTTAGATGCAGGAGATAGTATAGGTTAGATGTGATCAATC
196 TTTCAAATCAAGCTTGGAAGATTTGTTTAGATGCAGGAGATAGTACAAG-TAGATGTGATCAATC
11978985 AATTATTTTGTCATAGAACTGCTCTCTCCTTGGTGAGTTGTTTACCTTCTTTTCACTCTAAATCT
260 AATTATTTTGTCATAGAACTGCTCTCTCCTTGGTGAGTTGTTTACCTTCTTTTCACTCTAAATCT
* *
11979050 TTAGTTTTACTTGTATACTTATTGAATTTTGCTTGATACAGTTTATTTTCGCACATTTGATTGCT
325 TTAGTTTTACTTGTATACTTATTGAATTTTGCTTGATACAGTTTATTTCCGCACATTTAATTGCT
*
11979115 GTTTGGATTACATTTGTAGTGCATACTCAATTTTCTATATTTTTTAATGCTATTTAGTTTGCTAG
390 GTTTGGATTACATTTGTAGTGCATACTCAATTTTCTACATTTTTTAATGCTATTTAGTTTGCTAG
* *
11979180 CTAATTGAGCTTGTTTTTCTTTTCTTTTTTTTTTTTGTTATGAATTTCTTGCTTGATTTTGTAGT
455 CTAATTGAGCTTGTTTTTCTTTTC-TTTTTTTTTTAGTTATGAATTTCTTGCTTGATTTTGTAGC
11979245 AAATTTGTTGTTTAATTGTTCCTTAGCTCAGTTTTACTTCATTTTCATTCCAAATTTCTTTATCT
519 AAATTTGTTGTTTAATTGTTCCTTAGCTCAGTTTTACTTCATTTTCATTCCAAATTTCTTTATCT
* * *
11979310 AATTTTTTCTTGCGTGAACTCAGTGAGTTACAGCTGAAAATTTTGAAATCTGTTTTAGTTTCCTT
584 AATTTTTTCTTACGTGAACTCAGTGAGTTACACCTGAAAATTTTGAAATCTATTTTAGTTTCCTT
11979375 AAAGAGTTCTTACATTTCCTTTTACTTTTTGTTCTACAATTCATTCTTTCTTTTACTTCTTTAGT
649 AAAGAGTTCTTACATTTCCTTTTACTTTTTGTTCTACAATTCATTCTTTCTTTTACTTCTTTAGT
11979440 TGATCTTTTTAATTTCAACACATAGTCATTTGCTTTAGCTTCAATTAGATATAGATTAATCAAAT
714 TGATCTTTTTAATTTCAACACATAGTCATTTGCTTTAGCTTCAATTAGATATAGATTAATCAAAT
* *
11979505 TCAAATTCAGTTGCAAGTTAATTAAATGTTAGTTGTGGTTTTGTATCCCTCCATTCCTTTGTGCA
779 TCAAATTCAGTTGCAAGTTAATTAAATGTTAGTTGCGGTTTTGTATCCCTCCATTCCTTTATGCA
*
11979570 ATTTTCTCTACTTTTTTTTTTTAATTTGATTCTTCATAATGTTCCATGATAGATTCTTAAAATTT
844 ATTTTCTCTACTTTTGTTTTTTAATTTGATTCTTCATAATGTTCCATGATAGATTCTTAAAATTT
11979635 CAATAGGTTTTCATTTGATCAAGTACAACTTAGATGCAAAATAGTAGTTAAAAAAT
909 CAATAGGTTTTCATTTGATCAAGTACAACTTAGATGCAAAATAGTAGTTAAAAAAT
11979691 TTTGATTTTT
Statistics
Matches: 926, Mismatches: 36, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
965 32 0.03
966 316 0.34
967 578 0.62
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (967 bp):
TTTTCAAGCTTAAATCTACTAATTTCTCATTGATACTCAAATATGTTTTTGAATATACCAATTCT
AACCTAGCTACAGTTTTTAGATCATATCTCATTCAAATCTTACTTGTTTTTTGTTTAATTTTTTT
CATTATTTCCTAATTCATTTAGCTACAACATATTAAAAATTCAACCTTAAACTCGCATCACAGCA
TTTCAAATCAAGCTTGGAAGATTTGTTTAGATGCAGGAGATAGTACAAGTAGATGTGATCAATCA
ATTATTTTGTCATAGAACTGCTCTCTCCTTGGTGAGTTGTTTACCTTCTTTTCACTCTAAATCTT
TAGTTTTACTTGTATACTTATTGAATTTTGCTTGATACAGTTTATTTCCGCACATTTAATTGCTG
TTTGGATTACATTTGTAGTGCATACTCAATTTTCTACATTTTTTAATGCTATTTAGTTTGCTAGC
TAATTGAGCTTGTTTTTCTTTTCTTTTTTTTTTAGTTATGAATTTCTTGCTTGATTTTGTAGCAA
ATTTGTTGTTTAATTGTTCCTTAGCTCAGTTTTACTTCATTTTCATTCCAAATTTCTTTATCTAA
TTTTTTCTTACGTGAACTCAGTGAGTTACACCTGAAAATTTTGAAATCTATTTTAGTTTCCTTAA
AGAGTTCTTACATTTCCTTTTACTTTTTGTTCTACAATTCATTCTTTCTTTTACTTCTTTAGTTG
ATCTTTTTAATTTCAACACATAGTCATTTGCTTTAGCTTCAATTAGATATAGATTAATCAAATTC
AAATTCAGTTGCAAGTTAATTAAATGTTAGTTGCGGTTTTGTATCCCTCCATTCCTTTATGCAAT
TTTCTCTACTTTTGTTTTTTAATTTGATTCTTCATAATGTTCCATGATAGATTCTTAAAATTTCA
ATAGGTTTTCATTTGATCAAGTACAACTTAGATGCAAAATAGTAGTTAAAAAATATG
Found at i:11981873 original size:212 final size:207
Alignment explanation
Indices: 11981500--11981920 Score: 583
Period size: 212 Copynumber: 2.0 Consensus size: 207
11981490 ATTTTTTGAG
* * * * * *
11981500 TTCTTTGAAGATCACTTATCCGATTGTGTGGATATGTATGAGGTGAAATAAGGCAAGCTTACTAG
1 TTCTTTAAAGATCACTTATCCGATTGTATGGATATATATAAGGTGAAATAAAGCAAGCTTACTAA
* * * ** * * * *
11981565 ATAGATCATTTGAGCCCTTAGACACAATCTTTCTTGAATCTTGTTTTGAGCTTAAGTATAAAGAG
66 ATAAATCATTTAAGCCCTTAGAAACAATCCATCTTGAATATAGTTTTAAGCTTAAGGATAAAGAG
* *
11981630 GAACTCATTAGGAAAGAACTTACTTGTCTAGTAGCTTTTCCAGTTCTTGATCCTATGCTCGAAGT
131 GAACTCATTAGGAAAGAACTTACTTGTCTAGTAGCTTTTCCAGTCCTTGATCCTATGCTCGAAGC
11981695 TTTAGACACCTAA
196 TTTAGACACC-AA
*
11981708 TTCTTTAAAGATCACTTATCCGATTGTATGGATATATATATATAAGGTGGAATAAAGCAAGCTTA
1 TTCTTTAAAGATCACTTATCCGATTGTATGG----ATATATATAAGGTGAAATAAAGCAAGCTTA
*
11981773 CTAAATAAATCATTTAAGCCCTTAGAAACATTCCATCTTGAATATAGTTTTAAGCTTAAGGATAA
62 CTAAATAAATCATTTAAGCCCTTAGAAACAATCCATCTTGAATATAGTTTTAAGCTTAAGGATAA
* * *
11981838 GGAGGAACTCATTAGGAAATAACTTA-TTAGTCTAGTAGCTTTTTCAGTCCTTGATCCTATGCTC
127 AGAGGAACTCATTAGGAAAGAACTTACTT-GTCTAGTAGCTTTTCCAGTCCTTGATCCTATGCTC
11981902 GAAGCTTTAGACACCAA
191 GAAGCTTTAGACACCAA
11981919 TT
1 TT
11981921 TTTTGAGCTT
Statistics
Matches: 186, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
208 29 0.16
211 6 0.03
212 151 0.81
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (207 bp):
TTCTTTAAAGATCACTTATCCGATTGTATGGATATATATAAGGTGAAATAAAGCAAGCTTACTAA
ATAAATCATTTAAGCCCTTAGAAACAATCCATCTTGAATATAGTTTTAAGCTTAAGGATAAAGAG
GAACTCATTAGGAAAGAACTTACTTGTCTAGTAGCTTTTCCAGTCCTTGATCCTATGCTCGAAGC
TTTAGACACCAA
Found at i:11983412 original size:13 final size:13
Alignment explanation
Indices: 11983396--11983422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11983386 AATGAGAAAT
11983396 TAAAAAAATAAAA
1 TAAAAAAATAAAA
11983409 TAAAAAAATAAAA
1 TAAAAAAATAAAA
11983422 T
1 T
11983423 TCAAGCTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:11987318 original size:25 final size:26
Alignment explanation
Indices: 11987272--11987320 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11987262 CAAAATTTAA
* *
11987272 ACCCTAATTCCAAACCCTAAATCCTT
1 ACCCTAATACCAAACCCCAAATCCTT
11987298 ACCCTAA-ACCAAACCCCAAATCC
1 ACCCTAATACCAAACCCCAAATCC
11987321 AATCCTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (26 bp):
ACCCTAATACCAAACCCCAAATCCTT
Found at i:11987322 original size:13 final size:13
Alignment explanation
Indices: 11987270--11987322 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
11987260 CCCAAAATTT
*
11987270 AAACCCTAATTCC
1 AAACCCTAAATCC
11987283 AAACCCTAAATCC
1 AAACCCTAAATCC
**
11987296 TTACCCTAAA-CC
1 AAACCCTAAATCC
*
11987308 AAACCCCAAATCC
1 AAACCCTAAATCC
11987321 AA
1 AA
11987323 TCCTTAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 9 0.27
13 24 0.73
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACCCTAAATCC
Found at i:11987408 original size:6 final size:7
Alignment explanation
Indices: 11987393--11987432 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
11987383 TTAAAACTCA
11987393 AAACCTT
1 AAACCTT
11987400 AAA-CTT
1 AAACCTT
*
11987406 AAATCTT
1 AAACCTT
*
11987413 AAACCCT
1 AAACCTT
11987420 AAACCTT
1 AAACCTT
11987427 AAACCT
1 AAACCT
11987433 GAAATCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
AAACCTT
Found at i:11987408 original size:28 final size:28
Alignment explanation
Indices: 11987352--11987438 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
11987342 AACCCTAAAG
* *
11987352 AAATCATAAA-TCAAAACCCTAAA-TCT
1 AAATCTTAAACTCAAAACCTTAAACTCT
11987378 AAA-CTTTAAAACTCAAAACCTTAAACT-T
1 AAATC-TT-AAACTCAAAACCTTAAACTCT
* *
11987406 AAATCTTAAACCCTAAACCTTAAAC-CT
1 AAATCTTAAACTCAAAACCTTAAACTCT
11987433 GAAATC
1 -AAATC
11987439 CAAATCTTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 20 0.40
28 23 0.46
29 2 0.04
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.25
Consensus pattern (28 bp):
AAATCTTAAACTCAAAACCTTAAACTCT
Found at i:11997724 original size:14 final size:14
Alignment explanation
Indices: 11997705--11997733 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11997695 GGAGGCTTAA
11997705 GAAATGAGTGCAAT
1 GAAATGAGTGCAAT
11997719 GAAATGAGTGCAAT
1 GAAATGAGTGCAAT
11997733 G
1 G
11997734 GCATTCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (14 bp):
GAAATGAGTGCAAT
Found at i:12000185 original size:85 final size:85
Alignment explanation
Indices: 12000040--12000212 Score: 256
Period size: 85 Copynumber: 2.0 Consensus size: 85
12000030 TTTGAAAAAG
* * *
12000040 AAATTATTTATGATTTAATCTCTAAAACTAATTCAAATTCAGAAGACAATGAGTAGTTTTTCTAA
1 AAATTATTTATGAATTAATCTCTAAAACTAATTCAAATTCAGAAGACAATGAGTAATTTTTATAA
12000105 TGAATACTAGTAATATTTCT
66 TGAATACTAGTAATATTTCT
* * * *
12000125 AAATTATTTATGAATTAATCTCTAAAACTAATTCCACTTCAGAAGACGATGAGTAATTTTTATGA
1 AAATTATTTATGAATTAATCTCTAAAACTAATTCAAATTCAGAAGACAATGAGTAATTTTTATAA
** *
12000190 TGAATGTTAGTAATATTTGT
66 TGAATACTAGTAATATTTCT
12000210 AAA
1 AAA
12000213 ACTAATAATC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (85 bp):
AAATTATTTATGAATTAATCTCTAAAACTAATTCAAATTCAGAAGACAATGAGTAATTTTTATAA
TGAATACTAGTAATATTTCT
Found at i:12003436 original size:3 final size:3
Alignment explanation
Indices: 12003428--12003495 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
12003418 ATACTCTAAA
12003428 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
12003476 ATT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT AT
12003496 GTATAAGATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12005744 original size:3 final size:3
Alignment explanation
Indices: 12005736--12005765 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12005726 CAGGTATGTT
12005736 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12005766 CAGCTTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12006347 original size:21 final size:21
Alignment explanation
Indices: 12006317--12006358 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12006307 TTTTTATAAT
12006317 TTAATAATTTTCAATAATTAA
1 TTAATAATTTTCAATAATTAA
* * *
12006338 TTAATTATTTTTAATTATTAA
1 TTAATAATTTTCAATAATTAA
12006359 AAAGGAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATAATTTTCAATAATTAA
Found at i:12006973 original size:14 final size:15
Alignment explanation
Indices: 12006938--12006980 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
12006928 ATTTAAATAC
* *
12006938 AAATATTAATTTTTT
1 AAATAATAATATTTT
*
12006953 AAATAATATTATTTT
1 AAATAATAATATTTT
12006968 -AATAATAATATTT
1 AAATAATAATATTT
12006981 AATGTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATAATAATATTTT
Found at i:12006983 original size:24 final size:25
Alignment explanation
Indices: 12006956--12007002 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
12006946 ATTTTTTAAA
*
12006956 TAATATTATTTTAATAAT-AATATT
1 TAATATTATATTAATAATGAATATT
* *
12006980 TAATGTTATATTCATAATGAATA
1 TAATATTATATTAATAATGAATA
12007003 CTTCAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
TAATATTATATTAATAATGAATATT
Found at i:12012836 original size:21 final size:20
Alignment explanation
Indices: 12012812--12012850 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12012802 AGTGATAGTC
12012812 AAAATATAAATATA-TAAAATT
1 AAAAT-TAAA-ATACTAAAATT
12012833 AAAATTAAAATACTAAAA
1 AAAATTAAAATACTAAAA
12012851 CACTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 9 0.53
21 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTAAAATACTAAAATT
Found at i:12013613 original size:28 final size:26
Alignment explanation
Indices: 12013581--12013633 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
12013571 TATATTTATT
*
12013581 ATTAAAATAATAACATAAATACATTTTC
1 ATTAAAAT-ATAAAAT-AATACATTTTC
*
12013609 ATTAAAATATAAAATAATATATTTT
1 ATTAAAATATAAAATAATACATTTT
12013634 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTAAAATATAAAATAATACATTTTC
Found at i:12018240 original size:21 final size:23
Alignment explanation
Indices: 12018191--12018241 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
12018181 AGAAAAGCAT
*
12018191 AGCATGCTAGAATAGAAGAGAAA
1 AGCATGCTAAAATAGAAGAGAAA
*
12018214 TG--TGCTAAAATA-AA-AGAAA
1 AGCATGCTAAAATAGAAGAGAAA
12018233 AGCATGCTA
1 AGCATGCTA
12018242 GAATGTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 14 0.61
23 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.18
Consensus pattern (23 bp):
AGCATGCTAAAATAGAAGAGAAA
Found at i:12024036 original size:20 final size:21
Alignment explanation
Indices: 12023997--12024036 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12023987 TAATTAATCA
12023997 TTTTAAAAATTAAATTATTTG
1 TTTTAAAAATTAAATTATTTG
* *
12024018 TTTTCAAAA-TAATTTATTT
1 TTTTAAAAATTAAATTATTT
12024037 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAAAAATTAAATTATTTG
Found at i:12024313 original size:17 final size:15
Alignment explanation
Indices: 12024293--12024352 Score: 59
Period size: 15 Copynumber: 3.7 Consensus size: 15
12024283 CAAAAGGAAA
12024293 AAAATAGAAAAAAAGAG
1 AAAA-AGAAAAAAA-AG
12024310 AAAAA-AAAAAGAAAG
1 AAAAAGAAAAA-AAAG
12024325 AAAAGAGAAAACAAAAAG
1 AAAA-AG-AAA-AAAAAG
12024343 AAAAAGAAAA
1 AAAAAGAAAA
12024353 CTATTTAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
15 12 0.32
16 7 0.18
17 6 0.16
18 11 0.29
19 2 0.05
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:12024315 original size:9 final size:10
Alignment explanation
Indices: 12024284--12024347 Score: 67
Period size: 11 Copynumber: 6.2 Consensus size: 10
12024274 CCTTCTCAAC
12024284 AAAAG-GAAA
1 AAAAGAGAAA
*
12024293 AAAATAGAAA
1 AAAAGAGAAA
12024303 AAAAGAGAAAA
1 AAAAGAG-AAA
*
12024314 AAAAAAGAAA
1 AAAAGAGAAA
12024324 GAAAAGAGAAA
1 -AAAAGAGAAA
*
12024335 ACAAAAAGAAA
1 A-AAAGAGAAA
12024346 AA
1 AA
12024348 GAAAACTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.09
10 15 0.33
11 27 0.59
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAGAGAAA
Found at i:12024318 original size:22 final size:21
Alignment explanation
Indices: 12024290--12024347 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
12024280 CAACAAAAGG
*
12024290 AAAAAAATAGAAAAAAAGAGA
1 AAAAAAAAAGAAAAAAAGAGA
12024311 AAAAAAAAAGAAAGAAAAGAGA
1 AAAAAAAAAGAAA-AAAAGAGA
*
12024333 AAACAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
12024348 GAAAACTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAGAGA
Found at i:12024348 original size:24 final size:22
Alignment explanation
Indices: 12024290--12024352 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
12024280 CAACAAAAGG
* *
12024290 AAAAAAATAGAAA-AAAAGAGA
1 AAAAAAAAAAAAAGAAAAGAGA
*
12024311 AAAAAAAAAGAAAGAAAAGAGA
1 AAAAAAAAAAAAAGAAAAGAGA
12024333 AAACAAAAAGAAAAAGAAAA
1 AAA-AAAAA-AAAAAGAAAA
12024353 CTATTTAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 12 0.32
22 11 0.30
23 5 0.14
24 9 0.24
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAAAGAAAAGAGA
Found at i:12024353 original size:17 final size:17
Alignment explanation
Indices: 12024293--12024352 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
12024283 CAAAAGGAAA
* *
12024293 AAAATAGAAAAAAAGAG
1 AAAAGAGAAAAAAAAAG
*
12024310 AAAA-A-AAAAAGAAAG
1 AAAAGAGAAAAAAAAAG
12024325 AAAAGAGAAAACAAAAAG
1 AAAAGAGAAAA-AAAAAG
12024343 AAAA-AGAAAA
1 AAAAGAGAAAA
12024353 CTATTTAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
17 14 0.38
18 9 0.24
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAGAGAAAAAAAAAG
Found at i:12033495 original size:29 final size:28
Alignment explanation
Indices: 12033433--12033496 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
12033423 AAACAACAAA
* **
12033433 AAAATTATTAAATTTCAAACATAAAATT
1 AAAATTAATAAATAACAAACATAAAATT
12033461 ATAAATTAATAAATAACAAA-ATCAAAATAT
1 A-AAATTAATAAATAACAAACAT-AAAAT-T
12033491 AAAATT
1 AAAATT
12033497 TAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 25 0.83
30 2 0.07
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATTAATAAATAACAAACATAAAATT
Found at i:12034076 original size:22 final size:21
Alignment explanation
Indices: 12034028--12034076 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
12034018 AAAACAACGA
* *
12034028 AAAAATTATTAAATTTTAAAT
1 AAAAATTATAAAATTATAAAT
12034049 ATAAAATTATAAAATTAATAAAT
1 A-AAAATTATAAAATT-ATAAAT
12034072 AAAAA
1 AAAAA
12034077 AATTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTATAAAATTATAAAT
Found at i:12034776 original size:18 final size:18
Alignment explanation
Indices: 12034745--12034780 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12034735 CTGAGTTATC
12034745 TTTTCTTTTGGCTTTTGT
1 TTTTCTTTTGGCTTTTGT
12034763 TTTTACTTTT-GCTTTTGT
1 TTTT-CTTTTGGCTTTTGT
12034781 AGTTTTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.03, C:0.11, G:0.14, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTGGCTTTTGT
Found at i:12036832 original size:15 final size:15
Alignment explanation
Indices: 12036812--12036843 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12036802 TTAGTGTCAT
12036812 TGAATCTTATATTTG
1 TGAATCTTATATTTG
12036827 TGAATCTTATATTTG
1 TGAATCTTATATTTG
12036842 TG
1 TG
12036844 GTCAAGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (15 bp):
TGAATCTTATATTTG
Found at i:12038248 original size:8 final size:7
Alignment explanation
Indices: 12038217--12038258 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
12038207 GTAAAAAAAA
12038217 AAAAATG
1 AAAAATG
*
12038224 -AAACTG
1 AAAAATG
*
12038230 AAAATTG
1 AAAAATG
12038237 AAAAATG
1 AAAAATG
12038244 AAAAATG
1 AAAAATG
12038251 AAAAATG
1 AAAAATG
12038258 A
1 A
12038259 GAAGAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.17
Consensus pattern (7 bp):
AAAAATG
Done.