Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, 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: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 20
Found at i:975989 original size:199 final size:199
Alignment explanation
Indices: 975525--976867 Score: 1549
Period size: 199 Copynumber: 6.8 Consensus size: 199
975515 GAAAATAGGT
* *
975525 ACGCATAAAGTGTCAATACATTTATAAAAAATATCGATCCCAAAAACAT-GAAAACCCATAATTA
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCG-AAACCCATAATTA
* * *
975589 TAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTC
65 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGG-TTTATGAGAAAATAGGTC
*
975654 TACATACTGTATCGACACTTGTGGAACTTGTGTCGATA-TTTTTTGTCCAGAATGAATGCCCAAA
129 TACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTT-TCCAGAATGAATG-CCAAA
975718 AGGGGTGC
192 AGGGGTGC
** *
975726 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCAAAAAAACATCGAAACTCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
*
975791 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCAGTTTATGAGAAAATAGGTCTA
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAATAGGTCTA
* * * *
975856 TATAATGTATCGACACTTGTGGATCTTGTGTCGATACTTTTTTTTCAGAATGAATGCCTAAAGGG
131 CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATGCCAAAAGGG
975921 GTGC
196 GTGC
* * * *
975925 ACGCATAAAGTATCGATACATTTATAAAACGTATCGATACCAAAAATATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
****
975990 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTAATTATTTATGAGAAAATAGGTCTA
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAATAGGTCTA
* * *
976055 TATAATGTATCGACATTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGG
131 CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATG-CCAAAAGG
976120 GGTGC
195 GGTGC
*
976125 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCTAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* * * *
976190 AATGTAATATGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACAAGTCTA
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAATAGGTCTA
*
976255 CATAATATATCGACACTTGTGGAACTTGTGTCGATA-TTTTTTGTCCAGAATGAATGCCCAAAA-
131 CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTT-TCCAGAATGAATG-CCAAAAG
976318 GGGTGC
194 GGGTGC
* *
976324 ACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* * * * *
976389 AATGTAATAGGTAAATTTTCAATGTAACCGATAGAAATTTACCGGTTTATGAGAAAACATGTCTA
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAATAGGTCTA
* * *
976454 CATAGTATATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-G
131 CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATG-CCAAAAGG
976518 GGTGC
195 GGTGC
* ** * ***
976523 ACGTATAAAGTGTCGAT-C----CCAAAAA--ATCGAAACCCATAATTATA-AT-GTAATAGGTA
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCG-ATCCCA-AA--A-ACATCG-AA-ACCCA
* ** * * * ** * * *
976579 -AATTTACAATGTAACCGGTAAAAATTTAC-CTGTTTA--TG-A-AAAAATA--GGTCTA-CATA
59 TAA-TTATAATGTAATAGGT--AAATTTACAATG-TAACCGGTATAAATTTACCGGTTTATGAGA
** * * * * * *
976635 ATGTA--TC-A-ACACT-TATGGA-AC-T-T-G----TGT--CGATACTTGTTGTCCATAATGAA
120 AAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAA
976685 TGCCCAAAA-GGGTGC
185 TG-CCAAAAGGGGTGC
* *
976700 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCGAAAAATATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* *
976765 AATGTAATAGGTAAATTTACAATGTAACTGGTAAAAATTTACCGGTTTTATGAGAAAATAGGTCT
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGG-TTTATGAGAAAATAGGTCT
* ** *
976830 ACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
130 ACATAATGTATCGACACTTGTGGAACTTGTGTCGATAC
976868 AATTTTAAAT
Statistics
Matches: 982, Mismatches: 110, Indels: 101
0.82 0.09 0.08
Matches are distributed among these distances:
177 62 0.06
178 3 0.00
179 20 0.02
180 8 0.01
181 6 0.01
182 7 0.01
183 7 0.01
184 8 0.01
185 6 0.01
186 2 0.00
187 7 0.01
188 4 0.00
189 4 0.00
190 7 0.01
191 2 0.00
192 9 0.01
193 11 0.01
194 7 0.01
195 6 0.01
196 8 0.01
197 16 0.02
198 6 0.01
199 402 0.41
200 258 0.26
201 105 0.11
202 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAATAGGTCTA
CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATGCCAAAAGGG
GTGC
Found at i:976268 original size:399 final size:399
Alignment explanation
Indices: 975525--976867 Score: 1939
Period size: 399 Copynumber: 3.4 Consensus size: 399
975515 GAAAATAGGT
* *
975525 ACGCATAAAGTGTCAATACATTTATAAAAAATATCGATCCCAAAAACAT-GAAAACCCATAATTA
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCG-AAACCCATAATTA
* * *
975589 TAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTC
65 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGTC
* *
975654 TACATACTGTATCGACACTTGTGGAACTTGTGTCGATATTTTTTGTCCAGAATGAATGCCCAAAA
129 TACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
** *
975719 GGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCAAAAAAACATCGAAACTCA
194 GGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCA
*
975784 TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCAGTTTATGAGAAAAT
259 TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCAGTTTATGAGAAAAT
* * *
975849 AGGTCTATATAATGTATCGACACTTGTGGATCTTGTGTCGATACTTTTTTTTCAGAATGAATGCC
324 AGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATGCC
* *
975914 TAAAGGGGTGC
389 CAAAAGGGTGC
* * * *
975925 ACGCATAAAGTATCGATACATTTATAAAACGTATCGATACCAAAAATATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
**
975990 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-ATTATTTATGAGAAAATAGGTCT
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACGGT-TTTATGAGAAAATAGGTCT
* *
976054 ATATAATGTATCGACATTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG
130 ACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG
*
976119 GGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCTAAACCCAT
195 GGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCAT
* * * *
976184 AATTATAATGTAATATGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACA
260 AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCAGTTTATGAGAAAATA
* *
976249 AGTCTACATAATATATCGACACTTGTGGAACTTGTGTCGATA-TTTTTTGTCCAGAATGAATGCC
325 GGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTT-TCCAGAATGAATGCC
976313 CAAAAGGGTGC
389 CAAAAGGGTGC
* *
976324 ACACATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* * * * *
976389 AATGTAATAGGTAAATTTTCAATGTAACCGATAGAAATTTACCGG-TTTATGAGAAAACATGTCT
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGTCT
* *
976453 ACATAGTATATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-
130 ACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG
*
976517 GGGT----GC----A----CG-------TAT--AAAGTGTCGATCCCAAAAA-ATCGAAACCCAT
195 GGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCAT
* *
976560 AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCTGTTTATGAAAAAATA
260 AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCAGTTTATGAGAAAATA
* * * * *
976625 GGTCTACATAATGTATCAACACTTATGGAACTTGTGTCGATACTTGTTGTCCATAATGAATGCCC
325 GGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATGCCC
976690 AAAAGGGTGC
390 AAAAGGGTGC
* *
976700 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCGAAAAATATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* *
976765 AATGTAATAGGTAAATTTACAATGTAACTGGTAAAAATTTACCGGTTTTATGAGAAAATAGGTCT
66 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTA-CGGTTTTATGAGAAAATAGGTCT
* ** *
976830 ACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
130 ACATAATGTATCGACACTTGTGGAACTTGTGTCGATAC
976868 AATTTTAAAT
Statistics
Matches: 859, Mismatches: 77, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
376 236 0.27
377 71 0.08
379 3 0.00
386 2 0.00
390 1 0.00
394 2 0.00
398 11 0.01
399 437 0.51
400 95 0.11
401 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (399 bp):
ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACGGTTTTATGAGAAAATAGGTCTA
CATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGG
GGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATA
ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCAGTTTATGAGAAAATAG
GTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTTTCCAGAATGAATGCCCA
AAAGGGTGC
Found at i:976667 original size:177 final size:178
Alignment explanation
Indices: 976351--976867 Score: 631
Period size: 177 Copynumber: 2.8 Consensus size: 178
976341 ACATTTATAA
* * *
976351 AAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTTTCAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* * * * * * *
976416 CCGATAGAAATTTACCGGTTTATGAGAAAACATGTCTACATAGTATATCGACACTTGTGGAACTT
66 CCGGTAAAAATTTACCGGTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTATGGAACTT
* *
976481 GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGTAT
131 GTGTCGATACTTGTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCAT
976529 AAAGTGTCGATCCCAAAAA-ATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* * *
976593 CCGGTAAAAATTTACCTGTTTATGAAAAAATAGGTCTACATAATGTATCAACACTTATGGAACTT
66 CCGGTAAAAATTTACCGGTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTATGGAACTT
*
976658 GTGTCGATACTTGTTGTCCATAATGAATGCCCAAAAGGGTGCACGCAT
131 GTGTCGATACTTGTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCAT
*
976706 AAAGTGTCGATACATTTATAAAAAGTATCGATCCGAAAAATATCGAAACCCATAATTATAATGTA
1 AAAGTGTCGAT-C---------------C----C-AAAAACATCGAAACCCATAATTATAATGTA
*
976771 ATAGGTAAATTTACAATGTAACTGGTAAAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
45 ATAGGTAAATTTACAATGTAACCGGTAAAAATTTACCGG-TTTATGAGAAAATAGGTCTACATAA
* ** *
976836 TGTATCGACACTTTTTAAATTTGTGTCGATAC
109 TGTATCGACACTTATGGAACTTGTGTCGATAC
976868 AATTTTAAAT
Statistics
Matches: 292, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
177 154 0.53
178 19 0.07
193 1 0.00
197 1 0.00
198 5 0.02
199 61 0.21
200 51 0.17
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (178 bp):
AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
CCGGTAAAAATTTACCGGTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTATGGAACTT
GTGTCGATACTTGTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCAT
Found at i:977538 original size:2 final size:2
Alignment explanation
Indices: 977531--977560 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
977521 ATGGGGAAAG
977531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
977561 CTCCGGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:979839 original size:24 final size:25
Alignment explanation
Indices: 979812--979866 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
979802 TTTCAAGTTC
*
979812 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
979836 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
979860 ATTTCAA
1 ATTTCAA
979867 TATAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:979852 original size:18 final size:18
Alignment explanation
Indices: 979831--979867 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
979821 GTAATTGGAG
979831 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
979849 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
979867 T
1 T
979868 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:979874 original size:24 final size:24
Alignment explanation
Indices: 979823--979875 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
979813 TTTCATATGT
* * *
979823 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
979847 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
979871 AATTT
1 AATTT
979876 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:981461 original size:198 final size:198
Alignment explanation
Indices: 981117--982958 Score: 2671
Period size: 198 Copynumber: 9.3 Consensus size: 198
981107 TAAAATCTAA
* * * *
981117 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTACAATGTAACAGGTAGAT
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
* *
981182 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAAATTGTACCGATA
66 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
* * * *
981247 CTTGTTATCGAGAATGAATGCCTAAAAGGGTGCATGCATAAAGTGTCGATACATATAAAATTGTA
131 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
981312 TCG
196 TCG
* *
981315 ATCCCAAAAATATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGCA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
*
981380 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCAACACTTGTGGAATTTGTGCCGATA
66 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
*
981445 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCTTAAAGTGTCGATACATTTAAAATTGTA
131 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
981510 TCG
196 TCG
* * *
981513 ATCCCAAAAACATCGAATAAGATCATTATAATGTAATAGGTCAATTTCCAATGTAACCAGTAGAA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
* * *
981578 ATATA-CTGATTAGTTAGATAATAGGTCTACATAATGTATCGACACTTGTTGAATTTGTGCCGAT
66 ATATACCAG-TTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGAT
* * *
981642 ACTTGTTGTCCATAATGAATGCCAAAAAGGGTGCACGCATAAAGTGTCGATATATTTAAAATTGT
130 ACTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGT
981707 ATCG
195 ATCG
* *
981711 ATCCCAAAAACATCGAATAAGATCATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGAA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
*** * * *
981776 ATATATTGGTTAATTAGATAATAAGCCTACATAATGTATCGACACATGTGGAATTTGTGCCGATA
66 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
* * * *
981841 CTTGTTGTCCAGAATGAATGCCTAAAAGGATGCACACATAAAGTGTCTATACATTTAAAATCGTA
131 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
981906 TCG
196 TCG
* * *
981909 ATCTCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTCTCAATGTAATCGGTAGAA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
* * *
981974 ATATACCGGTTAAATAGATAATAGGTCTACATAATGTATTGACACTTGTGGAATTTGTGCCGATA
66 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
* *
982039 CTTGTTGTCCAGAATGAATGCATAAAGGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
131 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
982104 TCG
196 TCG
* * * *
982107 ATCCCAAAAACATCGAATAAGATCATTAAAATGTAATAGGTCAATTTCCAATGTAACTGGTAGAA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
** * * *
982172 ATATACTGGTTAATTAGATAATATGTCTACATAATGTATCGAGACTTGTTGAATTTGTGCCGATA
66 ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
*
982237 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAATGTCGATACATTTAAAATTGTA
131 CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
982302 TCG
196 TCG
* *
982305 ATCCCAAAAACATCGAATAAGATCATTATATTGTAATAGGTCAA-TTTCTAATGTAACCGGTAGA
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTC-AATGTAACCGGTAGA
* * * *
982369 AATATATCGGTTAATTAGATAATAGATCTACATAATGTATCGACACTTGTGGAATTTGTGTCGAT
65 AATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGAT
* * *
982434 ACTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCAAGCATTAAGTGTCGATACATTTAAAATTTT
130 ACTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGT
982499 ATCG
195 ATCG
* **
982503 ATCCCAAAAACATCGAA-ACCA-ATAATTATAATATAATAGGT-AACTTTAAAATGTAACCGGTA
1 ATCCCAAAAACATCGAATA--AGATAATTATAATGTAATAGGTCAA-TTTTCAATGTAACCGGTA
* * * *
982565 GAAATATAACAGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGTCG
63 GAAATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCG
* *
982630 ATACTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCAAGCATTAAGTGTCGATACATTTAAAATT
128 ATACTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATT
*
982695 TTATCG
193 GTATCG
* *
982701 ATCCCAAAAACATCGAA-ACCA-ATAATTATAATATAATAGGT-AACTTTACAATGTAACCGGTA
1 ATCCCAAAAACATCGAATA--AGATAATTATAATGTAATAGGTCAA-TTTTCAATGTAACCGGTA
* * ** * *
982763 GAAATATACCAGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTT-TTTAAATTGTGTCG
63 GAAATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCG
* ** * *
982827 ATTA-TTTTTGTCCAGAATGAATGACC-AACCGAGGTGCACGAATAAAGTGTAGATACATTTATA
128 A-TACTTGTTGTCCAGAATGAATG-CCTAAAAG-GGTGCACGCATAAAGTGTCGATACATTTA-A
***
982890 AAAAATATCG
189 AATTGTATCG
* * **
982900 ATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTCAATTTTTGATGTAACCG
1 ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCG
982959 ATACCTGTTA
Statistics
Matches: 1509, Mismatches: 121, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
197 41 0.03
198 1406 0.93
199 59 0.04
200 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (198 bp):
ATCCCAAAAACATCGAATAAGATAATTATAATGTAATAGGTCAATTTTCAATGTAACCGGTAGAA
ATATACCAGTTAATTAGATAATAGGTCTACATAATGTATCGACACTTGTGGAATTTGTGCCGATA
CTTGTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTA
TCG
Found at i:984686 original size:19 final size:19
Alignment explanation
Indices: 984646--984694 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
984636 ATGTAGGGGA
*
984646 AATTTTGTATACAATTCGT
1 AATTTTGTATACAATTCAT
* *
984665 AATTTTGTATACGATTTAT
1 AATTTTGTATACAATTCAT
*
984684 AATTTTTTATA
1 AATTTTGTATA
984695 TGAATGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTTTGTATACAATTCAT
Found at i:987681 original size:199 final size:199
Alignment explanation
Indices: 987172--987839 Score: 954
Period size: 200 Copynumber: 3.4 Consensus size: 199
987162 TTATAAAAAA
*
987172 TATCGATCTCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
1 TATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
*
987237 TATAAATTTACCGGTTTTATGAGAAAATAGGTTTACATAATGTATCGACACTTGTGGAACTTGTG
66 TATAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTG
*
987302 TCGATACTTGTTGTCCAGAATGAATGCCCAAA--ATGGTGCACGTATAAAGTGTCGATACATTTA
131 TCGATACTTGTTGTCCAGAATGAATG-CCAAACGA-GGTGCACGCATAAAGTGTCGATACATTTA
**
987365 TAAAAAG
194 -AAATTG
*
987372 TATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
1 TATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
987437 TATAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTG
66 TATAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTG
* * *
987502 TCGATACTTGTTGTCCAGAATGAATGCCAAACGGGGTGCACGCATAAAGTGCCGATACATTTGAA
131 TCGATACTTGTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAA
987567 ATTG
196 ATTG
* * *
987571 TATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGA
1 TATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
* * * * * ** *
987636 TAGAAATTTACCGGTTTTATAAAAAAATATGTCTACATAATGTATCGATACTT-TTTAAGTTTGT
66 TATAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAA-CTTGT
** * * *
987700 GTCGATACGTT-TT-AACAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGATACCTTTA
130 GTCGATAC-TTGTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTA
987763 AAATTG
194 AAATTG
* * * * * *
987769 TATTGATCCCAAAAATAT-TAAACCGATAATTATAATGTAATAGGTAAATTTGCAATGTTACC-A
1 TATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
987832 GTATAAAT
66 -TATAAAT
987840 AAACCGATTT
Statistics
Matches: 426, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
196 1 0.00
197 45 0.11
198 67 0.16
199 132 0.31
200 181 0.42
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
TATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
TATAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTG
TCGATACTTGTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAA
ATTG
Found at i:988001 original size:23 final size:23
Alignment explanation
Indices: 987951--987995 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
987941 TGTCTATTTT
* *
987951 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGATACCTAATAC
*
987974 ATTATATAAGCGATACTTAATA
1 ATTATATAAGCGATACCTAATA
987996 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:988013 original size:87 final size:87
Alignment explanation
Indices: 987867--988029 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
987857 AAATATGTCA
* **
987867 ATATAAGTGCTACATATTACATTATATAAGTTATACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
987932 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* *
987954 ATATAAGCGCTACCTATTACATTATATAAGCGATACTTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
988019 CCGGTTAAATG
66 CCGGTTAAATG
988030 ATATAACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:988269 original size:14 final size:14
Alignment explanation
Indices: 988250--988285 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
988240 TTATAATTAA
988250 TTTAAATACTTTAT
1 TTTAAATACTTTAT
*
988264 TTTAAATATTTTAT
1 TTTAAATACTTTAT
*
988278 TTGAAATA
1 TTTAAATA
988286 GAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTAAATACTTTAT
Found at i:988741 original size:18 final size:18
Alignment explanation
Indices: 988716--988758 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
988706 TTTAGCCCTA
988716 AGCCCAATACTAGACAAT
1 AGCCCAATACTAGACAAT
*
988734 ATCCCAATACTAGACAAT
1 AGCCCAATACTAGACAAT
988752 AGCCCAA
1 AGCCCAA
988759 AACCTCCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.30, G:0.09, T:0.16
Consensus pattern (18 bp):
AGCCCAATACTAGACAAT
Found at i:998012 original size:2 final size:2
Alignment explanation
Indices: 997954--997996 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
997944 CTAAATATTC
997954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
997996 A
1 A
997997 CATTTTTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:998814 original size:44 final size:44
Alignment explanation
Indices: 998729--998838 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
998719 GTTCAAGTGA
* * *
998729 TATCGATACAT-GTATCGATACCAATGTGTAAAAATAAATTGAAG
1 TATCGATAC-TGGTACCGATACTAATGTGTAAAAACAAATTGAAG
* * *
998773 TA-CTGATATTGGTACCGATACTAGTGTGTAAAAACACATTGAAG
1 TATC-GATACTGGTACCGATACTAATGTGTAAAAACAAATTGAAG
998817 TATCGATACTGGTACCGATACT
1 TATCGATACTGGTACCGATACT
998839 CCTATGAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.04
44 53 0.95
45 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (44 bp):
TATCGATACTGGTACCGATACTAATGTGTAAAAACAAATTGAAG
Found at i:1002500 original size:20 final size:19
Alignment explanation
Indices: 1002453--1002500 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1002443 AAAACCAGAA
*
1002453 CCCC-AGGGGGTATTGATT
1 CCCCTAGGGGGTATCGATT
1002471 CCCCTAGGGGGTATCGATT
1 CCCCTAGGGGGTATCGATT
1002490 CCCCTAGGGGG
1 CCCCTAGGGGG
1002501 GAATCGGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.23
Consensus pattern (19 bp):
CCCCTAGGGGGTATCGATT
Found at i:1002506 original size:20 final size:19
Alignment explanation
Indices: 1002453--1002512 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
1002443 AAAACCAGAA
* *
1002453 CCCC-AGGGGGTATTGATT
1 CCCCTAGGGGGAATCGATT
*
1002471 CCCCTAGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
1002490 CCCCTAGGGGGGAATCGGTT
1 CCCCTA-GGGGGAATCGATT
1002510 CCC
1 CCC
1002513 ATTCAAAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 4 0.11
19 19 0.51
20 14 0.38
ACGTcount: A:0.15, C:0.28, G:0.33, T:0.23
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:1002543 original size:22 final size:22
Alignment explanation
Indices: 1002476--1002557 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 22
1002466 TGATTCCCCT
*
1002476 AGGGGGTATCGATTCCCC-T-A
1 AGGGGGAATCGATTCCCCTTCA
* * *
1002496 GGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGATTCCCCTTC-A
*
1002519 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
1002541 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
1002558 TATGCCCTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 14 0.27
21 1 0.02
22 16 0.31
23 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:1003059 original size:14 final size:14
Alignment explanation
Indices: 1003040--1003068 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1003030 AATAGTACTA
1003040 GTATTGTCACACTT
1 GTATTGTCACACTT
1003054 GTATTGTCACACTT
1 GTATTGTCACACTT
1003068 G
1 G
1003069 ATAGGAATGG
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:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (14 bp):
GTATTGTCACACTT
Found at i:1008332 original size:19 final size:19
Alignment explanation
Indices: 1008308--1008358 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1008298 CCGTTGAACA
1008308 GGGGGGAATCGGTACCCCT
1 GGGGGGAATCGGTACCCCT
1008327 GGGGGGAATCGGTACCCCT
1 GGGGGGAATCGGTACCCCT
1008346 GGGGGGAATCGGT
1 GGGGGGAATCGGT
1008359 TCCCTCTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.16, C:0.22, G:0.47, T:0.16
Consensus pattern (19 bp):
GGGGGGAATCGGTACCCCT
Found at i:1013781 original size:52 final size:54
Alignment explanation
Indices: 1013725--1013846 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 54
1013715 TCAAAGAAAG
* *
1013725 CTCAAGAAATCCAAATAACCT-TAAACCCTAA-AGTTTACACCT-AA-ACTCAGAA
1 CTCAAGAAATCCAAA-AACCTCTAAACCCTAAGA-TTTACACATGAAGACTCAAAA
* * *
1013777 CTCAAGAAATCCAAAGAGCTCTAAACTCTAAGATTTACACATGAAGTACTCAAAA
1 CTCAAGAAATCCAAAAACCTCTAAACCCTAAGATTTACACATGAAG-ACTCAAAA
1013832 CTCAAGAAATCCAAA
1 CTCAAGAAATCCAAA
1013847 GAACATCTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
51 3 0.05
52 32 0.53
53 3 0.05
55 22 0.37
ACGTcount: A:0.47, C:0.25, G:0.08, T:0.20
Consensus pattern (54 bp):
CTCAAGAAATCCAAAAACCTCTAAACCCTAAGATTTACACATGAAGACTCAAAA
Found at i:1014516 original size:27 final size:27
Alignment explanation
Indices: 1014480--1014536 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1014470 GCACTCAAAA
1014480 TAAATAATTCACGAAATAACGTTCTCC
1 TAAATAATTCACGAAATAACGTTCTCC
1014507 TAAATAATTCACGAAATAACGTTCTCC
1 TAAATAATTCACGAAATAACGTTCTCC
1014534 TAA
1 TAA
1014537 TATTATTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TAAATAATTCACGAAATAACGTTCTCC
Found at i:1014654 original size:29 final size:29
Alignment explanation
Indices: 1014576--1014657 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
1014566 CAGTGGCCGT
* ** *
1014576 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCGGCGACCAACG
* *
1014605 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAACG
*
1014634 AGGTCGCCATGCACTCGCGGCGAC
1 AGGTCGCCATGCACTCCCGGCGAC
1014658 ATCCCCTGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.18, C:0.40, G:0.29, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCGGCGACCAACG
Found at i:1014938 original size:29 final size:29
Alignment explanation
Indices: 1014877--1014960 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
1014867 ATGAATCCTT
** * **
1014877 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
1014906 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
1014935 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
1014961 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:1015292 original size:29 final size:31
Alignment explanation
Indices: 1015260--1015324 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
1015250 TTTGTACACC
1015260 TAAATTAT-ATTTTGGTCAAAATAAATAT-T
1 TAAATTATCATTTTGGTCAAAATAAATATCT
* * * *
1015289 TAAATTATCTTTTTGGTTAGAATATATATCT
1 TAAATTATCATTTTGGTCAAAATAAATATCT
1015320 TAAAT
1 TAAAT
1015325 ATTTAAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.27
30 16 0.53
31 6 0.20
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (31 bp):
TAAATTATCATTTTGGTCAAAATAAATATCT
Found at i:1019770 original size:20 final size:20
Alignment explanation
Indices: 1019741--1019779 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1019731 TTTCCACCAC
*
1019741 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
1019761 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
1019780 TATGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1021834 original size:23 final size:23
Alignment explanation
Indices: 1021808--1021876 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
1021798 CACCACAGCT
*
1021808 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1021831 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
1021854 CGTAGAATTGCACC-ATAGTGCCA
1 CGTAGAATTGCACCGA-AGTGCCA
1021877 TATAATAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1022142 original size:30 final size:30
Alignment explanation
Indices: 1022086--1022154 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
1022076 ACATAATTTG
* * * *
1022086 TATCACGTAGAGATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1022116 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1022146 TATCACATA
1 TATCACATA
1022155 ACTCATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:1022231 original size:25 final size:25
Alignment explanation
Indices: 1022202--1022259 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
1022192 ATGCATATGG
*
1022202 TATGAATTCATG-TCATGTATCATAA
1 TATGAATT-ATGATCATGTATCAAAA
* *
1022227 TATGAAATGTGATCATGTATCAAAA
1 TATGAATTATGATCATGTATCAAAA
1022252 TATTGAAT
1 TA-TGAAT
1022260 CTAGACTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 21 0.78
26 4 0.15
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (25 bp):
TATGAATTATGATCATGTATCAAAA
Found at i:1025216 original size:635 final size:635
Alignment explanation
Indices: 1024001--1025270 Score: 2450
Period size: 635 Copynumber: 2.0 Consensus size: 635
1023991 TCTTGAATTA
1024001 AATCCAGACCAAGAACACTTCGATCTTTGAGTTCATACCAATTTAATGGAGTACGACATTTCCTC
1 AATCCAGACCAAGAACACTTCGATCTTTGAGTTCATACCAATTTAATGGAGTACGACATTTCCTC
1024066 CCATATAATGCCTCATATGGGGCCATCTTTATACTGGACTGATAACTATTGTTGTAAGCGAACTC
66 CCATATAATGCCTCATATGGGGCCATCTTTATACTGGACTGATAACTATTGTTGTAAGCGAACTC
*
1024131 TGCCAGCGGTAAATACTTTTCCCATGATCCTTTGAATTCCATTACGCATGCTCTCAACATATCTT
131 TGCCAGCAGTAAATACTTTTCCCATGATCCTTTGAATTCCATTACGCATGCTCTCAACATATCTT
1024196 CCAATATCTGAATAGTTCTCTCTGATTGCCCGTCAGTCTGAGGATGAAAAGCAGTACTAAAGTTT
196 CCAATATCTGAATAGTTCTCTCTGATTGCCCGTCAGTCTGAGGATGAAAAGCAGTACTAAAGTTT
1024261 AAACGAGTTCCCAACGCTCCATGCAAAGATTTCCAGAATCTAGAAGTGAATCGAGGGTCTCGATC
261 AAACGAGTTCCCAACGCTCCATGCAAAGATTTCCAGAATCTAGAAGTGAATCGAGGGTCTCGATC
* *
1024326 AAAGATTATGGAAACATGCACTCCATGTAATCTAATAATTTCTCTAATATACAGCTCAGCGTACT
326 AAAGACTATGGAAACAGGCACTCCATGTAATCTAATAATTTCTCTAATATACAGCTCAGCGTACT
1024391 TTTCCATAGAGAAATCTGTTCTAACCGGAAGGAAATGCGCTGACTTAGTCAATCGATCAATAATT
391 TTTCCATAGAGAAATCTGTTCTAACCGGAAGGAAATGCGCTGACTTAGTCAATCGATCAATAATT
1024456 ACCCAGATTGATTCTCTTTTGTTCAGAGTCAAGTGTAACCCCGAAACAAAATCCATCGTAACATT
456 ACCCAGATTGATTCTCTTTTGTTCAGAGTCAAGTGTAACCCCGAAACAAAATCCATCGTAACATT
1024521 TTCCCATTTCCATTGAGGAATGTAAAGTGCTTGCAATAATCCTGATGGAACTTAATGCTCAGCTT
521 TTCCCATTTCCATTGAGGAATGTAAAGTGCTTGCAATAATCCTGATGGAACTTAATGCTCAGCTT
*
1024586 TGACTTGTTGACATATCAAACACTTAGACACAAATTTGGTGATGCTTCGT
586 TGACTTCTTGACATATCAAACACTTAGACACAAATTTGGTGATGCTTCGT
1024636 AATCCAGACCAAGAACACTTCGATCTTTGAGTTCATACCAATTTAATGGAGTACGACATTTCCTC
1 AATCCAGACCAAGAACACTTCGATCTTTGAGTTCATACCAATTTAATGGAGTACGACATTTCCTC
1024701 CCATATAATGCCTCATATGGGGCCATCTTTATACTGGACTGATAACTATTGTTGTAAGCGAACTC
66 CCATATAATGCCTCATATGGGGCCATCTTTATACTGGACTGATAACTATTGTTGTAAGCGAACTC
1024766 TGCCAGCAGTAAATACTTTTCCCATGATCCTTTGAATTCCATTACGCATGCTCTCAACATATCTT
131 TGCCAGCAGTAAATACTTTTCCCATGATCCTTTGAATTCCATTACGCATGCTCTCAACATATCTT
* *
1024831 CCAATATCTGAATATTTCTCTTTGATTGCCCGTCAGTCTGAGGATGAAAAGCAGTACTAAAGTTT
196 CCAATATCTGAATAGTTCTCTCTGATTGCCCGTCAGTCTGAGGATGAAAAGCAGTACTAAAGTTT
1024896 AAACGAGTTCCCAACGCTCCATGCAAAGATTTCCAGAATCTAGAAGTGAATCGAGGGTCTCGATC
261 AAACGAGTTCCCAACGCTCCATGCAAAGATTTCCAGAATCTAGAAGTGAATCGAGGGTCTCGATC
1024961 AAAGACTATGGAAACAGGCACTCCATGTAATCTAATAATTTCTCTAATATACAGCTCAGCGTACT
326 AAAGACTATGGAAACAGGCACTCCATGTAATCTAATAATTTCTCTAATATACAGCTCAGCGTACT
1025026 TTTCCATAGAGAAATCTGTTCTAACCGGAAGGAAATGCGCTGACTTAGTCAATCGATCAATAATT
391 TTTCCATAGAGAAATCTGTTCTAACCGGAAGGAAATGCGCTGACTTAGTCAATCGATCAATAATT
* *
1025091 ACCCAGATTGATTCTCTTTTGTTCGGAGTCAATTGTAACCCCGAAACAAAATCCATCGTAACATT
456 ACCCAGATTGATTCTCTTTTGTTCAGAGTCAAGTGTAACCCCGAAACAAAATCCATCGTAACATT
* *
1025156 TTCCCATTTCCATTGAGGAATGTAAAGTGGTTGCAATAATCCTGATGGAACTTGATGCTCAGCTT
521 TTCCCATTTCCATTGAGGAATGTAAAGTGCTTGCAATAATCCTGATGGAACTTAATGCTCAGCTT
1025221 TGACTTCTTGACATATCAAACACTTAGACACAAATTTGGTGATGCTTCGT
586 TGACTTCTTGACATATCAAACACTTAGACACAAATTTGGTGATGCTTCGT
1025271 TTCATCACTG
Statistics
Matches: 625, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
635 625 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (635 bp):
AATCCAGACCAAGAACACTTCGATCTTTGAGTTCATACCAATTTAATGGAGTACGACATTTCCTC
CCATATAATGCCTCATATGGGGCCATCTTTATACTGGACTGATAACTATTGTTGTAAGCGAACTC
TGCCAGCAGTAAATACTTTTCCCATGATCCTTTGAATTCCATTACGCATGCTCTCAACATATCTT
CCAATATCTGAATAGTTCTCTCTGATTGCCCGTCAGTCTGAGGATGAAAAGCAGTACTAAAGTTT
AAACGAGTTCCCAACGCTCCATGCAAAGATTTCCAGAATCTAGAAGTGAATCGAGGGTCTCGATC
AAAGACTATGGAAACAGGCACTCCATGTAATCTAATAATTTCTCTAATATACAGCTCAGCGTACT
TTTCCATAGAGAAATCTGTTCTAACCGGAAGGAAATGCGCTGACTTAGTCAATCGATCAATAATT
ACCCAGATTGATTCTCTTTTGTTCAGAGTCAAGTGTAACCCCGAAACAAAATCCATCGTAACATT
TTCCCATTTCCATTGAGGAATGTAAAGTGCTTGCAATAATCCTGATGGAACTTAATGCTCAGCTT
TGACTTCTTGACATATCAAACACTTAGACACAAATTTGGTGATGCTTCGT
Found at i:1029413 original size:23 final size:23
Alignment explanation
Indices: 1029387--1029478 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
1029377 CACCACAGCT
*
1029387 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1029410 CGTAGAATTGCACC-AGAGTGCCG
1 CGTAGAATTGCACCGA-AGTGCCA
* * *
1029433 CGTTGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1029456 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1029479 TATAATAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
22 1 0.02
23 59 0.98
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1029731 original size:30 final size:30
Alignment explanation
Indices: 1029690--1029758 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
1029680 ACATAATTTG
* * *
1029690 TATCACGTAGACATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1029720 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1029750 TATCACATA
1 TATCACATA
1029759 ACTCATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:1031690 original size:16 final size:16
Alignment explanation
Indices: 1031669--1031702 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1031659 TGCGCTTTTT
*
1031669 AAATCAATGAGGAGGG
1 AAATCAACGAGGAGGG
*
1031685 AAATCAACGAGGTGGG
1 AAATCAACGAGGAGGG
1031701 AA
1 AA
1031703 TATTCTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.35, T:0.12
Consensus pattern (16 bp):
AAATCAACGAGGAGGG
Found at i:1037176 original size:36 final size:36
Alignment explanation
Indices: 1037084--1037177 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
1037074 AGCAGACTGT
* * *
1037084 GTCTCGCTTGAGATAAGTTTTATAAAAACAAATTTT
1 GTCTCGCTTGAGATAATTTTTCTAAAAACAAATTTC
* * *
1037120 GTCTTGCTTGAGATAATTTTTCTCAAAATAAATTTC
1 GTCTCGCTTGAGATAATTTTTCTAAAAACAAATTTC
*
1037156 GTCTCGCTTGAGATATTTTTTC
1 GTCTCGCTTGAGATAATTTTTC
1037178 CTTTAAGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (36 bp):
GTCTCGCTTGAGATAATTTTTCTAAAAACAAATTTC
Found at i:1037502 original size:40 final size:40
Alignment explanation
Indices: 1037436--1037703 Score: 128
Period size: 40 Copynumber: 6.3 Consensus size: 40
1037426 AAATATGTCT
* * *
1037436 TACCATCCTCATCATGCAAGAACCGTGTCATCCACCGACCA
1 TACC-TCCTCATCACGTAGGAACCGTGTCATCCACCGACCA
* * **
1037477 TACCTCCTCATCACGTAGGAGCCGTGTCACCCATAGATAACCA
1 TACCTCCTCATCACGTAGGAACCGTGTCATCCACCG---ACCA
* ** *
1037520 -ACCGTCCTCATCACGTAGGAACCATGTTATCATCCCTAAAGATGGCA
1 TACC-TCCTCATCACGTAGGAACC--G-TGTCAT-CC-ACCGA--CCA
* * *
1037567 TGTA-GTCCTCATCACGTAGGAACCGTGTCATCCACCTACTA
1 --TACCTCCTCATCACGTAGGAACCGTGTCATCCACCGACCA
* * * ***
1037608 GACCTCCTCATCACGTAGGAGCCGTGTCACCCTTAAATAACCA
1 TACCTCCTCATCACGTAGGAACCGTGTCATCC---ACCGACCA
* * *
1037651 GT-CGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACTA
1 -TACCTCCTCATCACGTAGGAACCGTGTCATCCACCGACCA
* *
1037691 GATCTCCTCATCA
1 TACCTCCTCATCA
1037704 TGTAAGAGCC
Statistics
Matches: 167, Mismatches: 40, Indels: 41
0.67 0.16 0.17
Matches are distributed among these distances:
39 1 0.01
40 63 0.38
41 5 0.03
42 3 0.02
43 54 0.32
44 2 0.01
45 7 0.04
46 5 0.03
47 4 0.02
48 22 0.13
50 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.23
Consensus pattern (40 bp):
TACCTCCTCATCACGTAGGAACCGTGTCATCCACCGACCA
Found at i:1037531 original size:43 final size:43
Alignment explanation
Indices: 1037473--1037679 Score: 140
Period size: 43 Copynumber: 4.8 Consensus size: 43
1037463 TCATCCACCG
*
1037473 ACCATACC-TCCTCATCACGTAGGAGCCGTGTCACCCATAGAT
1 ACCATACCGTCCTCATCACGTAGGAACCGTGTCACCCATAGAT
* *
1037515 AACCA-ACCGTCCTCATCACGTAGGAACCATGTTATCATCCCTAAAGAT
1 -ACCATACCGTCCTCATCACGTAGGAACC--G-TGTCA-CCC-ATAGAT
** *** * **
1037563 GGCATGTAGTCCTCATCACGTAGGAACCGTGTCATCC--ACCT
1 ACCATACCGTCCTCATCACGTAGGAACCGTGTCACCCATAGAT
* * * * *
1037604 ACTAGACC-TCCTCATCACGTAGGAGCCGTGTCACCCTTAAAT
1 ACCATACCGTCCTCATCACGTAGGAACCGTGTCACCCATAGAT
*
1037646 AACCAGT--CGTCCTCATCGCGTAGGAACCGTGTCA
1 -ACCA-TACCGTCCTCATCACGTAGGAACCGTGTCA
1037680 TCCACCGACT
Statistics
Matches: 125, Mismatches: 27, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
40 26 0.21
41 3 0.02
42 6 0.05
43 48 0.38
44 2 0.02
45 5 0.04
46 5 0.04
47 5 0.04
48 25 0.20
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
ACCATACCGTCCTCATCACGTAGGAACCGTGTCACCCATAGAT
Found at i:1037670 original size:83 final size:83
Alignment explanation
Indices: 1037571--1037725 Score: 256
Period size: 83 Copynumber: 1.9 Consensus size: 83
1037561 ATGGCATGTA
* * *
1037571 GTCCTCATCACGTAGGAACCGTGTCATCCACCTACTAGACCTCCTCATCACGTAGGAGCCGTGTC
1 GTCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCATGTC
1037636 ACCCTTAAATAACCAGTC
66 ACCCTTAAATAACCAGTC
* * *
1037654 GTCCTCATCGCGTAGGAACCGTGTCATCCACCGACTAGATCTCCTCATCATGTAAGAGCCATGTC
1 GTCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCATGTC
1037719 ACCCTTA
66 ACCCTTA
1037726 GATGACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (83 bp):
GTCCTCATCACGTAGGAACCGTGTCATCCACCGACTAGACCTCCTCATCACGTAAGAGCCATGTC
ACCCTTAAATAACCAGTC
Found at i:1037925 original size:3 final size:3
Alignment explanation
Indices: 1037919--1037959 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1037909 AAAATTATTA
* *
1037919 TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1037960 AATACAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.02, C:0.00, G:0.27, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:1037934 original size:12 final size:12
Alignment explanation
Indices: 1037913--1037959 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
1037903 GTCTACAAAA
*
1037913 TTATTATTGTTG
1 TTATTGTTGTTG
1037925 TTATTGTTGTTG
1 TTATTGTTGTTG
*
1037937 TTGTTGTTGTTG
1 TTATTGTTGTTG
*
1037949 TTTTTGTTGTT
1 TTATTGTTGTT
1037960 AATACAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.70
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:1038633 original size:167 final size:167
Alignment explanation
Indices: 1038357--1038691 Score: 555
Period size: 167 Copynumber: 2.0 Consensus size: 167
1038347 ATAAAATGGC
*
1038357 AACAAAATCCCGATGAAATCAGGCTAGGACAGAGATCCTATGAAATCTATCAACAACTAATCAAC
1 AACAAAATCCCGATGAAATCAGGCTAAGACAGAGATCCTATGAAATCTATCAACAACTAATCAAC
* * * *
1038422 ACTGGTATAGGAAAATAAAAGATAGAAAAGAAAGAGGAAAAAGGGGGGGACCATTCGGTGGAGGG
66 ACAGGTAGAGGAAAATAAAAGATAGAAAAGAAAGA-GAAAAAAGGGGGAACCATTCGGTGGAGGG
1038487 AG-AAAAAAATAGAGAGATTGAAACAGAAAGAAAAAAA
130 AGAAAAAAAATAGAGAGATTGAAACAGAAAGAAAAAAA
* * *
1038524 AACAAAATCCTGATGAAATCGGGCTAAGATAGAGATCCTATGAAATCTATCAACAACTAATCAAC
1 AACAAAATCCCGATGAAATCAGGCTAAGACAGAGATCCTATGAAATCTATCAACAACTAATCAAC
* * *
1038589 ACAGGTAGAGGCAAATAAAAGATAGAAAAGAAAGAGAAAAAAGGGGGAATCATTCGGTGGAGTGA
66 ACAGGTAGAGGAAAATAAAAGATAGAAAAGAAAGAGAAAAAAGGGGGAACCATTCGGTGGAGGGA
1038654 GAAAAAAAATAGAGAGATTGAAACAGAAAGAAAAAAA
131 GAAAAAAAATAGAGAGATTGAAACAGAAAGAAAAAAA
1038691 A
1 A
1038692 GAGAGAAAGT
Statistics
Matches: 156, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 27 0.17
167 129 0.83
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.14
Consensus pattern (167 bp):
AACAAAATCCCGATGAAATCAGGCTAAGACAGAGATCCTATGAAATCTATCAACAACTAATCAAC
ACAGGTAGAGGAAAATAAAAGATAGAAAAGAAAGAGAAAAAAGGGGGAACCATTCGGTGGAGGGA
GAAAAAAAATAGAGAGATTGAAACAGAAAGAAAAAAA
Found at i:1039523 original size:3 final size:3
Alignment explanation
Indices: 1039515--1039583 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
1039505 AAATTTAAAT
** ** * *
1039515 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TAA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1039563 TTA TTA -TA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA
1039584 AATATTACAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:1039531 original size:24 final size:24
Alignment explanation
Indices: 1039503--1039576 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
1039493 TTTTTCCATT
* *
1039503 TTAAATTTAAATTTATTATTATTA
1 TTAAAATTAAAATTATTATTATTA
1039527 TTAAAATTAAAATTATTATTATTA
1 TTAAAATTAAAATTATTATTATTA
* *
1039551 TTATAA-TAATTATTATTA-TATTA
1 TTAAAATTAA-AATTATTATTATTA
1039574 TTA
1 TTA
1039577 TTTATTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
23 11 0.24
24 34 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAAATTAAAATTATTATTATTA
Found at i:1041457 original size:21 final size:22
Alignment explanation
Indices: 1041422--1041463 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1041412 CCATTTTCTG
*
1041422 ATATTTTTATGTAAAAAAATAA
1 ATATTTTTATATAAAAAAATAA
*
1041444 ATATTTTTA-ATAAATAAATA
1 ATATTTTTATATAAAAAAATA
1041464 TGTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTTTTATATAAAAAAATAA
Found at i:1041566 original size:107 final size:106
Alignment explanation
Indices: 1041363--1041563 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 106
1041353 CATATTTTAA
*
1041363 TATATATTTATCAATATTAAGAAAGGACAGTCGTAAAGCAACTAGATGTCCATTTTCTGATATTT
1 TATATATTTATCAATATTAAGAAAGGACAGTCGTAAAGCAACTAGAAGTCCATTTTCTGATATTT
* **
1041428 TTATGTAAAAAAATAAATATTTTTAATAAATAAATATGTTTT
66 CTAAATAAAAAAAT-AATATTTTTAATAAATAAATATGTTTT
* * * * * *
1041470 TATATTTTTATTAATATTAAGAAAGGAGCTGTCTTAAAGCACCTAGAAG-CCCTTTTCTGATATT
1 TATATATTTATCAATATTAAGAAAGGA-CAGTCGTAAAGCAACTAGAAGTCCATTTTCTGATATT
* *
1041534 TCTAAATAAATAAAT-ATCTTGTTTAATAAA
65 TCTAAATAAAAAAATAATATT-TTTAATAAA
1041564 ATATATATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
105 4 0.05
106 9 0.11
107 50 0.62
108 17 0.21
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (106 bp):
TATATATTTATCAATATTAAGAAAGGACAGTCGTAAAGCAACTAGAAGTCCATTTTCTGATATTT
CTAAATAAAAAAATAATATTTTTAATAAATAAATATGTTTT
Found at i:1041602 original size:11 final size:13
Alignment explanation
Indices: 1041563--1041604 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
1041553 TGTTTAATAA
1041563 AATATATATATATT
1 AATATAT-TATATT
*
1041577 AATATATTATCTT
1 AATATATTATATT
1041590 AA-A-ATTATATT
1 AATATATTATATT
1041601 AATA
1 AATA
1041605 AACTTAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 7 0.28
14 7 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATATTATATT
Found at i:1046647 original size:72 final size:75
Alignment explanation
Indices: 1046550--1046728 Score: 224
Period size: 76 Copynumber: 2.4 Consensus size: 75
1046540 CCCCTAAAGT
* * * **
1046550 AATTTGTTAATAGCCCCGGCTTTATGGATAATATTCAGCT-A-GT-TTATTATGCT-T-GAGTTA
1 AATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAACCTATTA-TATG-TATAAAACTA
1046610 TCCCTCTAGAGC
64 TCCCTCTAGAGC
* *
1046622 AATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAACCTATTATATGTAATAAAACTGT
1 AATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAACCTATTATATGT-ATAAAACTAT
1046687 CCCTCTAGAGC
65 CCCTCTAGAGC
*
1046698 AATTGGTTAATCGCCCCGGCTTTATGGATAA
1 AATTGGTTAATAGCCCCGGCTTTATGGATAA
1046729 GTTTCAATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
72 38 0.41
73 2 0.02
74 5 0.05
75 4 0.04
76 43 0.47
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (75 bp):
AATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAACCTATTATATGTATAAAACTATC
CCTCTAGAGC
Found at i:1051007 original size:22 final size:22
Alignment explanation
Indices: 1050982--1051038 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1050972 ATTTACACTT
*
1050982 TTCAAAGATGATAG-ACTATTTC
1 TTCAAAGATGATAGCA-TATCTC
1051004 TTCAAAGATGATAGCATATCTC
1 TTCAAAGATGATAGCATATCTC
*
1051026 TTTAAAGATGATA
1 TTCAAAGATGATA
1051039 TATTCTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
TTCAAAGATGATAGCATATCTC
Found at i:1051054 original size:22 final size:22
Alignment explanation
Indices: 1050979--1051058 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
1050969 TACATTTACA
* * *
1050979 CTTTTCAAAGATGATAGACTAT
1 CTTTTCAAAGATGATACATTCT
1051001 -TTCTTCAAAGATGATAGCATATCT
1 CTT-TTCAAAGATGATA-CAT-TCT
*
1051025 C-TTT-AAAGATGATATATTCT
1 CTTTTCAAAGATGATACATTCT
1051045 CTTTTCAAAGATGA
1 CTTTTCAAAGATGA
1051059 AAGCTTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.08
21 7 0.15
22 31 0.65
23 3 0.06
24 3 0.06
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (22 bp):
CTTTTCAAAGATGATACATTCT
Found at i:1051786 original size:45 final size:45
Alignment explanation
Indices: 1051721--1051856 Score: 202
Period size: 45 Copynumber: 3.0 Consensus size: 45
1051711 CTATTTCCCA
*
1051721 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGG-
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
1051765 CTATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGT
1 C-ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1051811 CATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1051857 AGATTTTTGA
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
44 1 0.01
45 69 0.83
46 5 0.06
47 8 0.10
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1051919 original size:45 final size:45
Alignment explanation
Indices: 1051870--1051977 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
1051860 TTTTTGATAT
* * *
1051870 TTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
* *
1051915 TTTCAAAACCTTCGGGTTATCCGTAAGCCCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
1051960 TTTCAAAAAGCCTTCGGG
1 TTTC-AAAA-CCTTCGGG
1051978 AGCTTTTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 44 0.79
46 4 0.07
47 8 0.14
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
Found at i:1051956 original size:121 final size:121
Alignment explanation
Indices: 1051742--1052460 Score: 1271
Period size: 121 Copynumber: 6.0 Consensus size: 121
1051732 CCTTCAGTGC
*
1051742 TTGATGTTTTCAAAACCTTCGGG-CTATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTT
1 TTGATATTTTCAAAACCTTCGGGTC-ATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTT
* *
1051806 CGGGTCATCCGTAAGCCCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGATTT
65 CGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
1051863 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
*
1051928 GGGTTATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
1051984 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* *
1052049 GGGTCATCCGTAAGCCATGCAGTGCACGATGTTTTCAAAAAGCCTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
*
1052105 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* *
1052170 GGATCATCCGTAAGCCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
*
1052226 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1052291 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
* *
1052347 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* * * *
1052412 GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
1052461 TCATCTGTAA
Statistics
Matches: 577, Mismatches: 20, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
120 8 0.01
121 568 0.98
122 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (121 bp):
TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
Found at i:1052040 original size:45 final size:45
Alignment explanation
Indices: 1051991--1052098 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
1051981 TTTTTGATAT
* * * *
1051991 TTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCATGCAGTGCACGATGC
*
1052036 TTTCAAAACCTTCGGGTCATCCGTAAGCCATGCAGTGCACGATGT
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCATGCAGTGCACGATGC
1052081 TTTCAAAAAGCCTTCGGG
1 TTTC-AAAA-CCTTCGGG
1052099 AGCTTTTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 44 0.79
46 4 0.07
47 8 0.14
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCGTAAGCCATGCAGTGCACGATGC
Found at i:1052161 original size:45 final size:45
Alignment explanation
Indices: 1052112--1052219 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
1052102 TTTTTGATAT
* *
1052112 TTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGC
* * *
1052157 TTTCAAAACCTTTGGATCATCCGTAAGCCCTGCAGTGCATGATGT
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGC
1052202 TTTCAAAAAGCCTTCGGG
1 TTTC-AAAA-CCTTCGGG
1052220 AGCTTTTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 44 0.81
46 4 0.07
47 6 0.11
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGC
Found at i:1052282 original size:45 final size:45
Alignment explanation
Indices: 1052233--1052340 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
1052223 TTTTTGATAT
* * *
1052233 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
* *
1052278 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGT
1 TTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
1052323 TTTCAAAAAGCCTTCGGG
1 TTTC--AAAGCCTTCGGG
1052341 AGCTTTTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 44 0.80
47 11 0.20
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (45 bp):
TTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
Found at i:1052470 original size:46 final size:45
Alignment explanation
Indices: 1052348--1052495 Score: 242
Period size: 45 Copynumber: 3.3 Consensus size: 45
1052338 GGGAGCTTTT
* *
1052348 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1052393 TGATGCTTTCAAAACCTTTGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1052438 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1052484 TGATGTTTTCAA
1 TGATGTTTTCAA
1052496 CATTTCCATC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 51 0.54
46 43 0.46
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1052641 original size:3 final size:3
Alignment explanation
Indices: 1052633--1052694 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
1052623 TTAAATTTAA
* * * * * *
1052633 TAT TAT TAT TAA AAT TAA AAT TAT AAT TAT TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1052681 TA- TAT TATT TAT TA
1 TAT TAT TA-T TAT TA
1052695 AATATTACAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:1052644 original size:12 final size:12
Alignment explanation
Indices: 1052629--1052701 Score: 69
Period size: 12 Copynumber: 5.8 Consensus size: 12
1052619 AAATTTAAAT
1052629 TTAATATTATTA
1 TTAATATTATTA
*
1052641 TTAAAATTAAAATTA
1 TTAATATT---ATTA
1052656 -TAATTATTATTA
1 TTAA-TATTATTA
1052668 TTAATATTATTA
1 TTAATATTATTA
1052680 TT-ATATTATTTA
1 TTAATATTA-TTA
1052692 TTAAATATTA
1 TT-AATATTA
1052702 CAAAACCCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
11 6 0.12
12 26 0.51
13 3 0.06
14 9 0.18
15 7 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:1052645 original size:24 final size:26
Alignment explanation
Indices: 1052617--1052697 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
1052607 TTTTTTCATT
*
1052617 TTAAATTTAAATT-TAA-TATTATTA
1 TTAAATTAAAATTATAATTATTATTA
1052641 TTAAAATTAAAATTATAATTATTATTA
1 TT-AAATTAAAATTATAATTATTATTA
**
1052668 TTAATATTATTATTAT-ATTA-T-TTA
1 TTAA-ATTAAAATTATAATTATTATTA
1052692 TTAAAT
1 TTAAAT
1052698 ATTACAAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
23 2 0.04
24 9 0.18
25 11 0.22
26 9 0.18
27 19 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAAATTAAAATTATAATTATTATTA
Found at i:1052650 original size:18 final size:18
Alignment explanation
Indices: 1052623--1052682 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
1052613 CATTTTAAAT
*
1052623 TTAAATTTAATATTATTA
1 TTAAAATTAATATTATTA
*
1052641 TTAAAATTAAAATTATAATTA
1 TTAAAATT--AA-TATTATTA
**
1052662 TTATTATTAATATTATTA
1 TTAAAATTAATATTATTA
1052680 TTA
1 TTA
1052683 TATTATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 17 0.50
19 2 0.06
20 2 0.06
21 13 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATTAATATTATTA
Found at i:1054548 original size:11 final size:13
Alignment explanation
Indices: 1054511--1054550 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
1054501 TTTTTAATAA
1054511 AATATA-TATATT
1 AATATATTATATT
*
1054523 AATATATTATCTT
1 AATATATTATATT
1054536 AA-A-ATTATATT
1 AATATATTATATT
1054547 AATA
1 AATA
1054551 AACTTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:1056909 original size:15 final size:15
Alignment explanation
Indices: 1056889--1056970 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
1056879 TTCCAAAAAA
1056889 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1056904 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1056919 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
1056934 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1056949 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
1056963 TGAATTAC
1 TGAATTAC
1056971 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1056923 original size:30 final size:30
Alignment explanation
Indices: 1056889--1056970 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
1056879 TTCCAAAAAA
**
1056889 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
1056919 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
1056949 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
1056971 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:1056949 original size:45 final size:44
Alignment explanation
Indices: 1056885--1056970 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
1056875 GGTTTTCCAA
**
1056885 AAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTGG
1 AAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTGG
1056930 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1056971 ATTTCTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (44 bp):
AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTGG
Found at i:1056976 original size:20 final size:20
Alignment explanation
Indices: 1056953--1057022 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
1056943 GGAATTTGAA
1056953 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
1056973 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1056993 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1057013 TTCTGGAAAA
1 TTCTGGAAAA
1057023 CATCTAGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1057226 original size:26 final size:25
Alignment explanation
Indices: 1057186--1057272 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 25
1057176 CTTTACTAAA
1057186 ATATTATTGAAATATAAATAATATTAT
1 ATATTATT-AAATATAAA-AATATTAT
1057213 -TCATTATTAAATATAAAAAAATTTATTAT
1 AT-ATTATTAAATAT--AAAAA--TATTAT
*
1057242 ATATTATTAAA-ATAAAAATATAAT
1 ATATTATTAAATATAAAAATATTAT
*
1057266 ATCTTAT
1 ATATTAT
1057273 ATTATTATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
24 11 0.21
26 12 0.23
27 8 0.15
28 5 0.10
29 15 0.29
30 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (25 bp):
ATATTATTAAATATAAAAATATTAT
Found at i:1057249 original size:29 final size:27
Alignment explanation
Indices: 1057186--1057259 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 27
1057176 CTTTACTAAA
*
1057186 ATATTATTGAAATAT-AAATAATATTAT
1 ATATTATT-AAATATAAAAAAATATTAT
1057213 -TCATTATTAAATATAAAAAAATTTATTAT
1 AT-ATTATTAAATATAAAAAAA--TATTAT
1057242 ATATTATTAAA-ATAAAAA
1 ATATTATTAAATATAAAAA
1057260 TATAATATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 7 0.17
27 11 0.27
28 7 0.17
29 15 0.37
30 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
ATATTATTAAATATAAAAAAATATTAT
Found at i:1057273 original size:29 final size:29
Alignment explanation
Indices: 1057201--1057279 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
1057191 ATTGAAATAT
1057201 AAATAATATTAT-TCATTATTAAATATAAAA
1 AAAT-ATATTATAT-ATTATTAAATATAAAA
*
1057231 AAATTTATTATATATTATTAAA-ATAAAA
1 AAATATATTATATATTATTAAATATAAAA
*
1057259 ATATAATATCT-TATATTATTA
1 AAAT-ATAT-TATATATTATTA
1057280 TATAATTGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 9 0.21
29 28 0.65
30 6 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATATATTATATATTATTAAATATAAAA
Found at i:1057338 original size:23 final size:23
Alignment explanation
Indices: 1057269--1057339 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
1057259 ATATAATATC
*
1057269 TTATATTATTATATAATTGATT-ATT
1 TTATATTATTATA-AA-T-ATTAATA
*
1057294 TTATATATATTAAAAATA-TAATA
1 TTATAT-TATTATAAATATTAATA
1057317 TTATATTATTATAAATATTAATA
1 TTATATTATTATAAATATTAATA
1057340 AATATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 11 0.28
23 14 0.35
24 1 0.03
25 8 0.20
26 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
TTATATTATTATAAATATTAATA
Found at i:1057344 original size:22 final size:22
Alignment explanation
Indices: 1057296--1057349 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
1057286 TGATTATTTT
*
1057296 ATATATATTAAAAATATAATATT
1 ATAT-TATTAAAAATATAATATA
*
1057319 ATATTATTATAAATATTAATA-A
1 ATATTATTAAAAATA-TAATATA
1057341 ATATT-TTAA
1 ATATTATTAA
1057350 TATTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATTAAAAATATAATATA
Found at i:1057353 original size:27 final size:28
Alignment explanation
Indices: 1057308--1057367 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
1057298 ATATATTAAA
*
1057308 AATATAATATTATATTATTATAAAT-ATT
1 AATATAATATTATAATATT-TAAATAATT
* *
1057336 AATA-AATATTTTAATATTTTAATAATT
1 AATATAATATTATAATATTTAAATAATT
1057363 AATAT
1 AATAT
1057368 TTTGATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.15
27 19 0.70
28 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AATATAATATTATAATATTTAAATAATT
Found at i:1057600 original size:42 final size:42
Alignment explanation
Indices: 1057541--1057655 Score: 212
Period size: 42 Copynumber: 2.7 Consensus size: 42
1057531 ATGAATTACA
*
1057541 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1057583 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
1057625 TTCCGTAAAACGAATTACGTGAAACAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
1057656 TGAAATTCGG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1061769 original size:19 final size:19
Alignment explanation
Indices: 1061745--1061786 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1061735 TCATCACTAG
1061745 TGGCATCTTGATGTTTTCC
1 TGGCATCTTGATGTTTTCC
1061764 TGGCATCTTGATGTTTTCC
1 TGGCATCTTGATGTTTTCC
1061783 TGGC
1 TGGC
1061787 TTTCATGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (19 bp):
TGGCATCTTGATGTTTTCC
Found at i:1064258 original size:23 final size:23
Alignment explanation
Indices: 1064232--1064286 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1064222 CAAATTAAAT
1064232 AAAATAAAAGAAATAAAAAGAAGA
1 AAAATAAAAGAAATAAAAAGAA-A
* *
1064256 AAAAT-AAATAAATAAAAGGAAA
1 AAAATAAAAGAAATAAAAAGAAA
1064278 AAAATAAAA
1 AAAATAAAA
1064287 CTCGAGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 17 0.61
24 5 0.18
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAATAAAAGAAATAAAAAGAAA
Found at i:1064259 original size:19 final size:17
Alignment explanation
Indices: 1064215--1064286 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 17
1064205 TAACTAAATT
*
1064215 AAGAAAACAAATTAAATAA
1 AAGAAAA-AAAATAAA-AA
* *
1064234 AATAAAAGAAATAAAAA
1 AAGAAAAAAAATAAAAA
1064251 GAAGAAAAATAAATAAATAA
1 -AAGAAAAA-AAATAAA-AA
*
1064271 AAGGAAAAAAATAAAA
1 AAGAAAAAAAATAAAA
1064287 CTCGAGCCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.07
18 19 0.43
19 20 0.45
20 2 0.05
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.12
Consensus pattern (17 bp):
AAGAAAAAAAATAAAAA
Found at i:1064669 original size:25 final size:25
Alignment explanation
Indices: 1064641--1064688 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
1064631 CTAACCAGTT
*
1064641 CGGGTCGCTCCAGTGAACCGGGTCC
1 CGGGTCGCTCAAGTGAACCGGGTCC
* * *
1064666 CGGGTTGCTTAAGTGGACCGGGT
1 CGGGTCGCTCAAGTGAACCGGGT
1064689 TGCTGCTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.40, T:0.21
Consensus pattern (25 bp):
CGGGTCGCTCAAGTGAACCGGGTCC
Found at i:1082066 original size:23 final size:23
Alignment explanation
Indices: 1082040--1082084 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1082030 CACCACAGCT
*
1082040 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* * *
1082063 CGTAGAATTGCACTGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1082085 ATGTAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1082249 original size:150 final size:149
Alignment explanation
Indices: 1082052--1082367 Score: 544
Period size: 150 Copynumber: 2.1 Consensus size: 149
1082042 TATAAATGCA
* * *
1082052 CCGAAGTG-CCGCGTAGAATTGCACTGTAGTGCCATGTAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
1082116 TTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGT
* *
1082181 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
1082202 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1082267 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
*
1082332 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
1082351 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1082368 CCCTCTACCC
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
149 53 0.34
150 105 0.66
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:1089022 original size:23 final size:23
Alignment explanation
Indices: 1088996--1089040 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1088986 CACCACAGCT
*
1088996 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1089019 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1089041 ATGTAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1089205 original size:150 final size:149
Alignment explanation
Indices: 1089008--1089323 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
1088998 TATAAATGCA
* *
1089008 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATGTAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
1089072 TTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGT
* *
1089137 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
1089158 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1089223 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
*
1089288 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
1089307 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1089324 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 53 0.33
150 106 0.67
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:1093509 original size:14 final size:14
Alignment explanation
Indices: 1093490--1093516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1093480 GAATGAAAAT
1093490 GAGAATGAATTTAA
1 GAGAATGAATTTAA
1093504 GAGAATGAATTTA
1 GAGAATGAATTTA
1093517 TCAAGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (14 bp):
GAGAATGAATTTAA
Found at i:1095693 original size:20 final size:20
Alignment explanation
Indices: 1095668--1095745 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
1095658 GTGATTTTCC
*
1095668 GACTATCGCAACGCGATTAT
1 GACTATCGCAACGCGATTCT
*
1095688 GACTATCGCAACGAGATTCT
1 GACTATCGCAACGCGATTCT
*
1095708 GACTATCGCAACGCGATGCT
1 GACTATCGCAACGCGATTCT
*
1095728 GACTATCGCAATGCGATT
1 GACTATCGCAACGCGATT
1095746 TTCAAAGCGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (20 bp):
GACTATCGCAACGCGATTCT
Found at i:1096397 original size:20 final size:20
Alignment explanation
Indices: 1096327--1096414 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
1096317 AGAATCGCAA
*
1096327 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** **
1096346 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
1096366 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
1096386 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
1096406 TGCGATTTT
1 TGCGATTTT
1096415 AAGTTTCAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 7 0.12
20 52 0.88
ACGTcount: A:0.15, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:1096421 original size:20 final size:20
Alignment explanation
Indices: 1096378--1096421 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1096368 CGATAGTCAT
* *
1096378 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
1096398 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
1096418 TTTC
1 TTTC
1096422 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:1097984 original size:18 final size:18
Alignment explanation
Indices: 1097961--1098010 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1097951 TTTACTCGTA
1097961 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1097979 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1097997 ATTTCACTTAGATT
1 ATTTCACTTAGATT
1098011 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:1098186 original size:20 final size:20
Alignment explanation
Indices: 1098161--1098205 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1098151 TTTACTTTCA
1098161 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
1098181 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
1098201 CAACG
1 CAACG
1098206 AAAAATCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:1098289 original size:18 final size:19
Alignment explanation
Indices: 1098249--1098289 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1098239 GATTCTCTCA
1098249 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTC-AATTCGCG
*
1098269 TTGCGATAGTC-ATTCGTG
1 TTGCGATAGTCAATTCGCG
1098287 TTG
1 TTG
1098290 TGATTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (19 bp):
TTGCGATAGTCAATTCGCG
Found at i:1098874 original size:21 final size:21
Alignment explanation
Indices: 1098783--1098887 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
1098773 GACTTACCTG
*
1098783 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCACTC
* * *
1098803 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
1098825 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* * *
1098846 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
* *
1098867 TCATCGTTGAAGAGGTCACTC
1 TCATCGTTCAAGAGGCCACTC
1098888 CCAACATTCT
Statistics
Matches: 63, Mismatches: 20, Indels: 3
0.73 0.23 0.03
Matches are distributed among these distances:
20 1 0.02
21 61 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:1098880 original size:42 final size:42
Alignment explanation
Indices: 1098780--1098881 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
1098770 CCCGACTTAC
* * *
1098780 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
* ** *
1098822 CTATCATCCCTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCTCC-CCCACCGTTCAAGAGGCCA
*
1098864 CTGTCATCGTTGAAGAGG
1 CTGTCATCGTTCAAGAGG
1098882 TCACTCCCAA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.04
42 45 0.96
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
Found at i:1100324 original size:14 final size:14
Alignment explanation
Indices: 1100287--1100348 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
1100277 TTGCTTGTTT
*
1100287 AATTGATTTATAAA
1 AATTGATTTGTAAA
1100301 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
1100315 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
1100330 TATTGATGTGTAAA
1 AATTGATTTGTAAA
1100344 TAATT
1 -AATT
1100349 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1100472 original size:20 final size:20
Alignment explanation
Indices: 1100447--1100500 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1100437 AGGTACACTT
*
1100447 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
1100467 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
*
1100487 GCGCAACGCGAAAG
1 TCGCAACGCGAAAG
1100501 TCAATTCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.28, G:0.20, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:1100577 original size:20 final size:20
Alignment explanation
Indices: 1100550--1100861 Score: 327
Period size: 20 Copynumber: 16.5 Consensus size: 20
1100540 TTTCGTTTTA
* *
1100550 ATAGTCAAATACTCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100570 ATAATCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1100590 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100610 ATAGTCAAATTCACGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1100630 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100650 AT--T----TTCTCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
1100664 ATAGTCAAATACCCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100684 ATAATCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1100704 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
1100724 ATAGACAAATTCGCGTTGTG
1 ATAGTCAAATTCGCGTTGCG
*
1100744 AT--T----TTTGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
1100758 ATAGTCATATTCGTGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100778 ATAGTCAAATTTGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
1100798 AT--T----TTTGAGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
1100812 ATAATCAAATTCGTGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1100832 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
1100852 ATATTCAAAT
1 ATAGTCAAAT
1100862 GAATGTGTAA
Statistics
Matches: 245, Mismatches: 29, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
14 35 0.14
16 3 0.01
18 2 0.01
20 205 0.84
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
ATAGTCAAATTCGCGTTGCG
Found at i:1100660 original size:114 final size:114
Alignment explanation
Indices: 1100494--1100741 Score: 374
Period size: 114 Copynumber: 2.2 Consensus size: 114
1100484 AAAGCGCAAC
* * * * * **
1100494 GCGAAAGTC-AATTCACATTGCGATAGTCTAATATGCTTTGCGATTTTTTCGTTTTAATAGTCAA
1 GCGATAGTCAAATTCACGTTGCGATAGTCAAATATGCGTTGCGATTTTCTCGTTGCAATAGTCAA
*
1100558 ATACTCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
66 ATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
*
1100607 GCGATAGTCAAATTCACGTTGCGATAGTCAAAT-TCGCGTTGCGATTTTCTCGTTGCGATAGTCA
1 GCGATAGTCAAATTCACGTTGCGATAGTCAAATAT-GCGTTGCGATTTTCTCGTTGCAATAGTCA
1100671 AATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
65 AATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
* *
1100721 GCGATAGACAAATTCGCGTTG
1 GCGATAGTCAAATTCACGTTG
1100742 TGATTTTTGC
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
113 9 0.07
114 113 0.93
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (114 bp):
GCGATAGTCAAATTCACGTTGCGATAGTCAAATATGCGTTGCGATTTTCTCGTTGCAATAGTCAA
ATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
Found at i:1100661 original size:74 final size:74
Alignment explanation
Indices: 1100584--1100861 Score: 335
Period size: 74 Copynumber: 3.8 Consensus size: 74
1100574 TCAAATTCGC
*
1100584 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCAAATTCGCGTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGC
*
1100649 GATTTTCTC
66 GATTTTCTA
* * *
1100658 GTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGC
*** *
1100723 GATAGACAA
66 GATTTTCTA
* * * ** * * * *
1100732 ATTCGCG-TTGTGATTTTTGCGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTTGCGTTG
1 GTT-GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
1100796 CGATTTT-TGA
65 CGATTTTCT-A
* * *
1100806 GTTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
1100862 GAATGTGTAA
Statistics
Matches: 165, Mismatches: 36, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
73 3 0.02
74 159 0.96
75 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (74 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGC
GATTTTCTA
Found at i:1100726 original size:94 final size:94
Alignment explanation
Indices: 1100561--1100799 Score: 372
Period size: 94 Copynumber: 2.5 Consensus size: 94
1100551 TAGTCAAATA
*
1100561 CTCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGT
1 CTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGT
*
1100626 TGCGATAGTCAAATTCGCGTTGCGATTTT
66 TGCGATAGACAAATTCGCGTTGCGATTTT
* * * *
1100655 CTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGT
1 CTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGT
*
1100720 TGCGATAGACAAATTCGCGTTGTGATTTT
66 TGCGATAGACAAATTCGCGTTGCGATTTT
* * *
1100749 -TGCGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTTGCGTTGCGAT
1 CT-CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1100800 TTTTGAGTTG
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
93 1 0.01
94 130 0.99
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (94 bp):
CTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGT
TGCGATAGACAAATTCGCGTTGCGATTTT
Found at i:1100754 original size:54 final size:54
Alignment explanation
Indices: 1100582--1100853 Score: 261
Period size: 54 Copynumber: 4.9 Consensus size: 54
1100572 AATCAAATTC
* * *
1100582 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTT
* * *
1100642 GCGTTGCGAT--T----TTC-TCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTC
1 GCGTTGCGATAGTCAAATTCGT-GTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTT
* * *
1100696 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGTGATTTTT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* *
1100750 GCGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTTGCGTTGCGATTTTT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* *
1100804 GAGTTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
1100854 ATTCAAATGA
Statistics
Matches: 185, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
54 145 0.78
56 1 0.01
58 2 0.01
60 37 0.20
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
Found at i:1101084 original size:140 final size:140
Alignment explanation
Indices: 1100832--1101101 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
1100822 TCGTGTTGCG
*
1100832 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAAAAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAAAAAGTGATAACAACTGAACAGATCA
1100897 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1100962 AATACACATA
131 AATACACATA
*
1100972 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAAAAAGTGATAACAACTGAACAGATCA
* *
1101037 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAGCTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1101102 TACAACGTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAAAAAGTGATAACAACTGAACAGATCA
TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1101184 original size:18 final size:18
Alignment explanation
Indices: 1101161--1101195 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1101151 AAGCCGGTTG
*
1101161 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1101179 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
1101196 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1104354 original size:20 final size:20
Alignment explanation
Indices: 1104329--1104455 Score: 130
Period size: 20 Copynumber: 6.4 Consensus size: 20
1104319 GAAATTCAGT
*
1104329 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
1104349 GTTGCGATAGTCAAAATCTC
1 GTTGCGATAGTCAGAATCGC
*
1104369 GTTGCGATAGTCAGAATCGT
1 GTTGCGATAGTCAGAATCGC
*
1104389 GTTGCGAT-GTCACAATCGC
1 GTTGCGATAGTCAGAATCGC
* * * *
1104408 ATTGCGATTGTTAGAATCAC
1 GTTGCGATAGTCAGAATCGC
* * *
1104428 ATTGCGATAGTCATACTCGC
1 GTTGCGATAGTCAGAATCGC
*
1104448 ATTGCGAT
1 GTTGCGAT
1104456 TTATATATTC
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
19 16 0.18
20 73 0.82
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1104406 original size:59 final size:60
Alignment explanation
Indices: 1104327--1104440 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 60
1104317 TTGAAATTCA
* * * *
1104327 GTGTTGCGACAGTCAGAATCGCGTTGCGATAGTCAAAATCTCGTTGCGATAGTCAGAATC
1 GTGTTGCGACAGTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCAGAATC
* * * *
1104387 GTGTTGCGA-TGTCACAATCGCATTGCGATTGTTAGAATCACATTGCGATAGTCA
1 GTGTTGCGACAGTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCA
1104441 TACTCGCATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 37 0.80
60 9 0.20
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (60 bp):
GTGTTGCGACAGTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCAGAATC
Found at i:1104453 original size:59 final size:59
Alignment explanation
Indices: 1104338--1104455 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 59
1104328 TGTTGCGACA
* * * * **
1104338 GTCAGAATCGCGTTGCGATAGTCAAAATCTCGTTGCGATAGTCAGAATCGTGTTGCGAT
1 GTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCAGAATCGCATTGCGAT
* * * * *
1104397 GTCACAATCGCATTGCGATTGTTAGAATCACATTGCGATAGTCATACTCGCATTGCGAT
1 GTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCAGAATCGCATTGCGAT
1104456 TTATATATTC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (59 bp):
GTCACAATCGCATTGCGATAGTCAAAATCACATTGCGATAGTCAGAATCGCATTGCGAT
Found at i:1104467 original size:20 final size:20
Alignment explanation
Indices: 1104439--1104514 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
1104429 TTGCGATAGT
*
1104439 CATACTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
1104459 TATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
1104479 CATATTCGCATTGAGATTTA
1 CATATTCGCATTGCGATTTA
*
1104499 CATATGCGCATTGCGA
1 CATATTCGCATTGCGA
1104515 ATTCGGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:1104471 original size:40 final size:39
Alignment explanation
Indices: 1104390--1104514 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 39
1104380 CAGAATCGTG
* * * *
1104390 TTGCGATGTCACAATCGCATTGCGATTGT-TAGAATCACA
1 TTGCGATGTCATAATCGCATTGCGATT-TATATATTCGCA
*
1104429 TTGCGATAGTCATACTCGCATTGCGATTTATATATTCGCA
1 TTGCGAT-GTCATAATCGCATTGCGATTTATATATTCGCA
* * * * *
1104469 TTGCGATTTACATATTCGCATTGAGATTTACATATGCGCA
1 TTGCGATGT-CATAATCGCATTGCGATTTATATATTCGCA
1104509 TTGCGA
1 TTGCGA
1104515 ATTCGGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 9 0.12
40 64 0.88
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (39 bp):
TTGCGATGTCATAATCGCATTGCGATTTATATATTCGCA
Found at i:1104535 original size:21 final size:21
Alignment explanation
Indices: 1104511--1104551 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1104501 TATGCGCATT
1104511 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
*
1104532 GCGAATTTGGAAAATCGCAA
1 GCGAATTCGGAAAATCGCAA
1104552 TGCAATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:1109866 original size:29 final size:29
Alignment explanation
Indices: 1109828--1109918 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 29
1109818 TGAAGGTCAT
* *
1109828 AGTTTGAGGATGAAATTGAAATATTCAAA
1 AGTTTAAGGATGAAATTGAAACATTCAAA
* * * * *
1109857 AGTTTAAGGAT-TAATT--TAGAGTC-AT
1 AGTTTAAGGATGAAATTGAAACATTCAAA
* *
1109882 AGTTTAGGGATGAAATTGAAACATTTAAA
1 AGTTTAAGGATGAAATTGAAACATTCAAA
1109911 AGTTTAAG
1 AGTTTAAG
1109919 ATCAATTTAA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
25 11 0.25
26 8 0.18
28 7 0.16
29 18 0.41
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (29 bp):
AGTTTAAGGATGAAATTGAAACATTCAAA
Found at i:1109912 original size:54 final size:53
Alignment explanation
Indices: 1109823--1109927 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
1109813 TAAAATGAAG
* *
1109823 GTCATAGTTTGAGGATGAAATTGAAATATTCAAAAGTTTAAGGATTAATTTAGA
1 GTCATAGTTTGAGGATGAAATTGAAACATTCAAAAGTTTAA-GATCAATTTAGA
*
1109877 GTCATAGTTT-AGGGATGAAATTGAAACATTTAAAAGTTTAAGATCAATTTA
1 GTCATAGTTTGA-GGATGAAATTGAAACATTCAAAAGTTTAAGATCAATTTA
1109928 AAATGTGAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 10 0.21
54 37 0.79
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (53 bp):
GTCATAGTTTGAGGATGAAATTGAAACATTCAAAAGTTTAAGATCAATTTAGA
Found at i:1111420 original size:113 final size:107
Alignment explanation
Indices: 1111297--1111530 Score: 261
Period size: 107 Copynumber: 2.1 Consensus size: 107
1111287 CTATTCATTT
* * ** *
1111297 AAGTAAAAAAATATTAATTTAATTTATGATGGGACAATGATTCCGTCGAAAATTGTGTTCAACTT
1 AAGT-AAAAAATATCAATTTAATTTACGACAGGACAATGATTCCATCG-AAATT-T-TT---CTT
* * * * *
1111362 TAATTAAAATATATCAATTTAATTTGTGATAGAATAATCATTTCGTCGG
59 TAATTAAAATATAGCAATTTAATTTGTAACAGAATAACCATTCCGTCGG
* * *
1111411 AAGTAAAAAATATCAATTTAATTTACGACAGTACAATGATTCCATCGGAATTTTTTTTTAATTAA
1 AAGTAAAAAATATCAATTTAATTTACGACAGGACAATGATTCCATCGAAATTTTTCTTTAATTAA
* *
1111476 AATATAGCAATTTAATTTGTAACGGAATAGCCATTCCGTCGG
66 AATATAGCAATTTAATTTGTAACAGAATAACCATTCCGTCGG
*
1111518 AAATAAAAAATAT
1 AAGTAAAAAATAT
1111531 ACATAGCTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
107 56 0.54
110 2 0.02
111 1 0.01
112 4 0.04
113 37 0.36
114 4 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (107 bp):
AAGTAAAAAATATCAATTTAATTTACGACAGGACAATGATTCCATCGAAATTTTTCTTTAATTAA
AATATAGCAATTTAATTTGTAACAGAATAACCATTCCGTCGG
Found at i:1111459 original size:48 final size:48
Alignment explanation
Indices: 1111366--1111460 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
1111356 CAACTTTAAT
* ** * * * *
1111366 TAAAATATATCAATTTAATTTGTGATAGAATAATCATTTCGTCGGAAG
1 TAAAAAATATCAATTTAATTTACGACAGAACAATCATTCCATCGGAAG
* *
1111414 TAAAAAATATCAATTTAATTTACGACAGTACAATGATTCCATCGGAA
1 TAAAAAATATCAATTTAATTTACGACAGAACAATCATTCCATCGGAA
1111461 TTTTTTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (48 bp):
TAAAAAATATCAATTTAATTTACGACAGAACAATCATTCCATCGGAAG
Found at i:1117150 original size:29 final size:29
Alignment explanation
Indices: 1117089--1117172 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
1117079 ATTCTACAGT
* ****
1117089 GACCAAGGAGGTCGCCATGCACTCCGGGT
1 GACCAAGGAGGTCGCCATGCACACCCAAC
1117118 GACCAAGGAGGTCGCCATGCACACCCAAC
1 GACCAAGGAGGTCGCCATGCACACCCAAC
* * *
1117147 GACCTTA-TAGGTCACCATGCACACCC
1 GACC-AAGGAGGTCGCCATGCACACCC
1117173 GGCGTCCTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 45 0.98
30 1 0.02
ACGTcount: A:0.26, C:0.36, G:0.25, T:0.13
Consensus pattern (29 bp):
GACCAAGGAGGTCGCCATGCACACCCAAC
Found at i:1117181 original size:29 final size:29
Alignment explanation
Indices: 1117126--1117208 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
1117116 GTGACCAAGG
* *
1117126 AGGTCGCCATGCACACCCAACGACCTTAT
1 AGGTCGCCATGCACACCCGACGTCCTTAT
* *
1117155 AGGTCACCATGCACACCCGGCGTCCTTAT
1 AGGTCGCCATGCACACCCGACGTCCTTAT
*
1117184 AGGTCGCCATGCACGCCCGACGTCC
1 AGGTCGCCATGCACACCCGACGTCC
1117209 AACGTTCCTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCACACCCGACGTCCTTAT
Found at i:1117381 original size:12 final size:11
Alignment explanation
Indices: 1117361--1117418 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
1117351 GAATTTAGCT
1117361 GCATTATTGCA
1 GCATTATTGCA
*
1117372 GCACTTATTGCT
1 GCA-TTATTGCA
1117384 GCATTATTGCA
1 GCATTATTGCA
*
1117395 GCCCTTATTGCTA
1 G-CATTATTGC-A
1117408 -CATTATTGCA
1 GCATTATTGCA
1117418 G
1 G
1117419 TCCTTTAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 19 0.49
12 18 0.46
13 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:1117384 original size:23 final size:23
Alignment explanation
Indices: 1117358--1117418 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1117348 CGTGAATTTA
1117358 GCTGCATTATTGCAGCACTTATT
1 GCTGCATTATTGCAGCACTTATT
*
1117381 GCTGCATTATTGCAGCCCTTATT
1 GCTGCATTATTGCAGCACTTATT
*
1117404 GCTACATTATTGCAG
1 GCTGCATTATTGCAG
1117419 TCCTTTAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (23 bp):
GCTGCATTATTGCAGCACTTATT
Found at i:1117874 original size:27 final size:29
Alignment explanation
Indices: 1117810--1117874 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
1117800 ATATTAAAAA
1117810 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
** *
1117839 -AATTTTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
1117865 AAATAGTTAA
1 AAATAATTAA
1117875 GTTATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.03
27 15 0.50
28 14 0.47
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:1118069 original size:21 final size:21
Alignment explanation
Indices: 1118044--1118083 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1118034 GTTAATTAGT
1118044 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
1118065 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
1118084 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:1118332 original size:30 final size:30
Alignment explanation
Indices: 1118298--1118356 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1118288 TAAAAATCAT
1118298 TTATTAGTTTAA-GTTATATTAAACAATAGC
1 TTATTAG-TTAACGTTATATTAAACAATAGC
*
1118328 TTATTAGTTAACGTTATATTAAAGAATAG
1 TTATTAGTTAACGTTATATTAAACAATAG
1118357 TTAAAGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (30 bp):
TTATTAGTTAACGTTATATTAAACAATAGC
Found at i:1118358 original size:22 final size:22
Alignment explanation
Indices: 1118332--1118380 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1118322 AATAGCTTAT
*
1118332 TAGTTAACGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
1118354 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
1118376 TAGTT
1 TAGTT
1118381 TATTAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (22 bp):
TAGTTAAAGTTATATTAAAGAA
Found at i:1120930 original size:14 final size:14
Alignment explanation
Indices: 1120896--1121193 Score: 179
Period size: 14 Copynumber: 22.3 Consensus size: 14
1120886 TTATTCTATA
* *
1120896 ATTATT-AATAATA
1 ATTATTAAATCATT
1120909 ATTATTAAATCATT
1 ATTATTAAATCATT
*
1120923 AGTATTAAATCATT
1 ATTATTAAATCATT
*
1120937 ATTA-TAAA--ATC
1 ATTATTAAATCATT
* *
1120948 ATTACTAAATAATT
1 ATTATTAAATCATT
*
1120962 ACTATTAAATCATT
1 ATTATTAAATCATT
* *
1120976 ATTA-T-CATTATT
1 ATTATTAAATCATT
1120988 ATTATTAAATC---
1 ATTATTAAATCATT
1120999 ATTATT--ATCATT
1 ATTATTAAATCATT
1121011 ATTATTAAATCATT
1 ATTATTAAATCATT
*
1121025 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
1121037 ATTACTAAATCATT
1 ATTATTAAATCATT
**
1121051 ATTA-T-AAGGATT
1 ATTATTAAATCATT
*
1121063 ATTATCAAATCATT
1 ATTATTAAATCATT
*
1121077 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
*
1121096 AAATATTTAAATCATT
1 -ATTA-TTAAATCATT
*
1121112 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
1121124 ATTACTAAATCATT
1 ATTATTAAATCATT
*
1121138 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
1121150 ATTATCAAATCATT
1 ATTATTAAATCATT
* *
1121164 ACTA-T-AATGATT
1 ATTATTAAATCATT
*
1121176 ATTATCAAATCATT
1 ATTATTAAATCATT
1121190 ATTA
1 ATTA
1121194 AATCATCAAA
Statistics
Matches: 222, Mismatches: 35, Indels: 55
0.71 0.11 0.18
Matches are distributed among these distances:
9 3 0.01
11 12 0.05
12 67 0.30
13 18 0.08
14 94 0.42
15 5 0.02
16 10 0.05
18 1 0.00
19 11 0.05
20 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:1120984 original size:9 final size:9
Alignment explanation
Indices: 1120970--1121015 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
1120960 TTACTATTAA
1120970 ATCATTATT
1 ATCATTATT
1120979 ATCATTATT
1 ATCATTATT
* *
1120988 ATTATTA-A
1 ATCATTATT
1120996 ATCATTATT
1 ATCATTATT
1121005 ATCATTATT
1 ATCATTATT
1121014 AT
1 AT
1121016 TAAATCATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (9 bp):
ATCATTATT
Found at i:1121029 original size:17 final size:17
Alignment explanation
Indices: 1120979--1121011 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1120969 AATCATTATT
*
1120979 ATCATTATTATTATTAA
1 ATCATTATTATCATTAA
1120996 ATCATTATTATCATTA
1 ATCATTATTATCATTA
1121012 TTATTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
ATCATTATTATCATTAA
Found at i:1121055 original size:3 final size:3
Alignment explanation
Indices: 1120973--1121040 Score: 50
Period size: 3 Copynumber: 23.3 Consensus size: 3
1120963 CTATTAAATC
* * * * *
1120973 ATT ATT ATC ATT ATT ATT ATT A-A ATC ATT ATT ATC ATT ATT ATT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
1121019 ATC ATT ATT ATA ATG ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
1121041 CTAAATCATT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (3 bp):
ATT
Done.