Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_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: 2577652
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:883085 original size:45 final size:44
Alignment explanation
Indices: 882879--883137 Score: 358
Period size: 44 Copynumber: 5.8 Consensus size: 44
882869 GATAATCATG
* *
882879 AAAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGT
882923 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGT
*
882967 AAAATAAGCTTACAAGCTTATGGAATAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGT
* * *
883011 AAAATATGCTTACGAGCTTATGGGATTAAATGGTAAGTATACTGGT
1 AAAATAAGCTTACGAGCTTAT-GGAAT-AATGGTAAGTATATTGGT
** * *
883057 AAAATAA-CTTACGAGCTTATGGGTTTAAATGGTAAGTGTTTTGGT
1 AAAATAAGCTTACGAGCTTAT-GGAAT-AATGGTAAGTATATTGGT
* *
883102 AAAATAAGCCTACGAGCTTATGGGATAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAG
883138 AGATTTTATC
Statistics
Matches: 197, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
44 104 0.53
45 58 0.29
46 35 0.18
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (44 bp):
AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGT
Found at i:886229 original size:2 final size:2
Alignment explanation
Indices: 886222--886309 Score: 53
Period size: 2 Copynumber: 47.0 Consensus size: 2
886212 TAAAAATAAT
* *
886222 TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
886260 TT TA AA TA -A AA AA TA TA TA TT TA TA TA TT TA -A TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
886300 TA TA TA TA TA
1 TA TA TA TA TA
886310 CCGGCCCGAT
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
1 6 0.09
2 59 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:886981 original size:16 final size:18
Alignment explanation
Indices: 886954--886987 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
886944 AAATGGATGT
886954 ATGATATTATATG-TTAC
1 ATGATATTATATGCTTAC
886971 ATGAT-TTATATGCTTAC
1 ATGATATTATATGCTTAC
886988 GTGAAAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (18 bp):
ATGATATTATATGCTTAC
Found at i:887318 original size:31 final size:31
Alignment explanation
Indices: 887280--887342 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
887270 AGGGTCGAGG
* **
887280 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTAGGTTCTTCGAAACATATGGACT
*
887311 GTTTACCTAGGTTCTTCGAAATATATGGACT
1 GTTTACCTAGGTTCTTCGAAACATATGGACT
887342 G
1 G
887343 ATCCTTTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAAACATATGGACT
Found at i:889801 original size:53 final size:53
Alignment explanation
Indices: 889721--889839 Score: 238
Period size: 53 Copynumber: 2.2 Consensus size: 53
889711 GCACTCTTAG
889721 TGCACCGATGCACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
1 TGCACCGATGCACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
889774 TGCACCGATGCACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
1 TGCACCGATGCACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
889827 TGCACCGATGCAC
1 TGCACCGATGCAC
889840 CTTGGGTATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (53 bp):
TGCACCGATGCACTAAGGGTCCAACGGTCAAAATATTTGAATTTTACACTTGA
Found at i:897184 original size:28 final size:28
Alignment explanation
Indices: 897130--897208 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
897120 TTGGATTGAT
*
897130 TTTGATG-TTTCTGGATGTTT-AA---A
1 TTTGATGCTTTATGGATGTTTGAACTTA
*
897153 TTTGATGGTTGT-TGGATGTTTGAACTTA
1 TTTGATGCTT-TATGGATGTTTGAACTTA
* *
897181 TTTGTTGCTTTATGGATTTTTGAACTTA
1 TTTGATGCTTTATGGATGTTTGAACTTA
897209 ATATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.15
24 11 0.24
25 3 0.07
27 1 0.02
28 24 0.52
ACGTcount: A:0.19, C:0.05, G:0.23, T:0.53
Consensus pattern (28 bp):
TTTGATGCTTTATGGATGTTTGAACTTA
Found at i:898704 original size:61 final size:61
Alignment explanation
Indices: 898608--898760 Score: 191
Period size: 61 Copynumber: 2.5 Consensus size: 61
898598 ACGTGTTAGA
* * * * *
898608 AACCCCGCGAATGCGCGGATCACCATCCGCACCTTTCCTTACGTGACACCAG-TTCGGACAG
1 AACCCCGCGAAGGCGCGGATGACGATCCACGCCTTTCCTTACGTGACACCAGCTT-GGACAG
**
898669 AACCCCGCGAAGGCGCGGATGACGATCCACGCCTTTCCTTACGTGATGCCAGCTTGGACAG
1 AACCCCGCGAAGGCGCGGATGACGATCCACGCCTTTCCTTACGTGACACCAGCTTGGACAG
** * *
898730 AACCCCTTGAAGGAGCGGATGGCGATCCACG
1 AACCCCGCGAAGGCGCGGATGACGATCCACG
898761 TTTTATTACC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 78 0.98
62 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (61 bp):
AACCCCGCGAAGGCGCGGATGACGATCCACGCCTTTCCTTACGTGACACCAGCTTGGACAG
Found at i:901644 original size:221 final size:213
Alignment explanation
Indices: 901080--901698 Score: 906
Period size: 216 Copynumber: 2.9 Consensus size: 213
901070 CCTATTCATA
* * *
901080 TATTGAATAAAAAT-ATTTTTTATTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
* * *
901144 CGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTC--G-GGTCGG
66 CGGATGAAACTTTATTTTGTTCGGGTCGG-TC-GATTTTTTTAAGTGTGATATTCGGGTGGTCGG
* ** *
901206 GTCGGGTTCGGGTTTATGGTGAAAAAAAATGGACCGACCCGAAAATATATATAATCCAGGTCGGG
129 GTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGGG
901271 TCGGATTAAGTCACTGTTTT
194 TCGGATTAAGTCACTGTTTT
**
901291 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTTAGATTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
* * *
901356 CGGATGAAACTTTATTTTGTTCGGGTCGGGTCGAGTTTTTTAAGTATGATATTTGGGTCGAGTCG
66 CGGATGAAACTTTATTTTGTTCGGGTC-GGTCGATTTTTTTAAGTGTGATATTCGGGT-G-GTCG
*
901421 GGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCTGGTCGG
128 GGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGG
901486 GTCGGATTAAGTCACTGTTTT
193 GTCGGATTAAGTCACTGTTTT
*
901507 TATTAAATAAGAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCAGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTC-GG-
*
901572 CGATTCGGATGAAACTTTATTTTATTCGGGTCGAGTCGATTTTTTTAAGTGTGATATTCGGGTTA
64 -G--TCGGATGAAACTTTATTTTGTTCGGGTCG-GTCGATTTTTTTAAGTGTGATATTCGGG-T-
*
901637 GGTCGGGTCGGGTTCGGGTTTAGGGTG-AAAAAACCGGACCGACCCGAAAAAAATATATAATT
123 GGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCG-AAAATATATATAATT
901699 TTACCTTATA
Statistics
Matches: 368, Mismatches: 25, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
211 31 0.08
212 73 0.20
213 3 0.01
215 1 0.00
216 143 0.39
217 2 0.01
219 1 0.00
220 20 0.05
221 92 0.25
222 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (213 bp):
TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
CGGATGAAACTTTATTTTGTTCGGGTCGGTCGATTTTTTTAAGTGTGATATTCGGGTGGTCGGGT
CGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGGGTC
GGATTAAGTCACTGTTTT
Found at i:902264 original size:18 final size:17
Alignment explanation
Indices: 902228--902272 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
902218 TATGGAATTG
*
902228 GATTCTAATT-CTTACA
1 GATTCCAATTCCTTACA
902244 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTT-ACA
*
902262 GATTTCAATTC
1 GATTCCAATTC
902273 TCTCATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.36
17 3 0.12
18 13 0.52
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (17 bp):
GATTCCAATTCCTTACA
Found at i:902321 original size:12 final size:12
Alignment explanation
Indices: 902306--902330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
902296 AAACGCCACC
902306 TCAAAGTTTACT
1 TCAAAGTTTACT
902318 TCAAAGTTTACT
1 TCAAAGTTTACT
902330 T
1 T
902331 GAGAAAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TCAAAGTTTACT
Found at i:903844 original size:229 final size:227
Alignment explanation
Indices: 903439--903887 Score: 774
Period size: 229 Copynumber: 2.0 Consensus size: 227
903429 GTAAATTATC
* * * *
903439 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
903504 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
903569 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
903634 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
* *
903667 TATCATTTTTATAAAAGTGTACATACTTATTTCACTATTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTACATACTTATTTCACT-GTGAAAACATATTTATTATTATATTTAG
*
903732 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-ATAAT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-AT
* *
903796 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
903861 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
903888 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 40 0.19
229 169 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:903986 original size:19 final size:19
Alignment explanation
Indices: 903937--903995 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
903927 TATATCGATC
* *
903937 CAAAACGATATACCAGGTAA
1 CAAAATGATAAACC-GGTAA
*
903957 -AAATATTATAAACCGGTAA
1 CAAA-ATGATAAACCGGTAA
903976 CAAAATGATAAAACCGGTAA
1 CAAAATGAT-AAACCGGTAA
903996 ATTTAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.19
Consensus pattern (19 bp):
CAAAATGATAAACCGGTAA
Found at i:904141 original size:20 final size:19
Alignment explanation
Indices: 904118--904164 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
904108 CGATATAACA
904118 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
904138 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
904158 GGTAAAA
1 GGTAAAA
904165 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:904166 original size:17 final size:18
Alignment explanation
Indices: 904122--904169 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
904112 ATAACAGGTA
904122 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
904141 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
904161 -AAAATGATA
1 AAAAATGATA
904170 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:907150 original size:395 final size:396
Alignment explanation
Indices: 906363--907303 Score: 1822
Period size: 395 Copynumber: 2.4 Consensus size: 396
906353 CCAATTTGAA
906363 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
906428 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
906493 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
906558 GTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATATGTA
196 GTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATATGTA
906623 TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
261 TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
906688 CACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAA
326 CACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAA
906753 GTGTCG
391 GTGTCG
906759 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
906824 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
906889 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGG-AAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
906953 GTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
196 GTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAATATGT
907017 AATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTC
260 -ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTC
907081 GACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATA
324 GACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATA
907146 AAGTGTCG
389 AAGTGTCG
907154 ATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT-ATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
907217 TTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
907281 CTAATATAGTTTGTGTCGATACT
131 CTAATATAGTTTGTGTCGATACT
907304 AATTTAAATA
Statistics
Matches: 543, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
392 60 0.11
393 42 0.08
394 54 0.10
395 199 0.37
396 188 0.35
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (396 bp):
ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
GTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATATGTA
TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGA
CACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAA
GTGTCG
Found at i:907208 original size:196 final size:199
Alignment explanation
Indices: 906363--907303 Score: 1826
Period size: 197 Copynumber: 4.8 Consensus size: 199
906353 CCAATTTGAA
906363 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
906428 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
906493 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
906558 GTCG
196 GTCG
906562 ATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAATATGT-ATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
906625 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
906690 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
906755 GTCG
196 GTCG
906759 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
906824 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
906889 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGG-AAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
906953 GTCG
196 GTCG
906957 ATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
907021 TTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
907085 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
131 CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
907150 GTCG
196 GTCG
907154 ATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT-ATGTAATATGTAATT
1 ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
907217 TTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
66 TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
907281 CTAATATAGTTTGTGTCGATACT
131 CTAATATAGTTTGTGTCGATACT
907304 AATTTAAATA
Statistics
Matches: 737, Mismatches: 0, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
196 181 0.25
197 316 0.43
198 104 0.14
199 136 0.18
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (199 bp):
ATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACA
CTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATGGAAAACAAGGTGCACCCATAAAGT
GTCG
Found at i:909211 original size:181 final size:182
Alignment explanation
Indices: 908824--909513 Score: 1217
Period size: 181 Copynumber: 3.8 Consensus size: 182
908814 CAAAGTTTTC
* * * *
908824 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
908889 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
908952 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAA-ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
909008 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
909073 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATATAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
909138 AACCGGTATAAAA-ACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
909189 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
909254 AAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
909319 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTAT-AAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
909372 ACACTTTCTAATATTGTGTCGGTAC-TTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
909436 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
909501 AACCGGTATAAAA
131 AACCGGTATAAAA
909514 ATGTGTCGAT
Statistics
Matches: 490, Mismatches: 12, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
181 179 0.37
182 116 0.24
183 119 0.24
184 73 0.15
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (182 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:909547 original size:22 final size:23
Alignment explanation
Indices: 909511--909553 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
909501 AACCGGTATA
909511 AAAATGTGTCGATACCTTTTTAT
1 AAAATGTGTCGATACCTTTTTAT
* *
909534 AAAA-GTGTCTATACTTTTTT
1 AAAATGTGTCGATACCTTTTT
909554 CACTGTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (23 bp):
AAAATGTGTCGATACCTTTTTAT
Found at i:912707 original size:23 final size:23
Alignment explanation
Indices: 912676--912739 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
912666 ATAGGTAAAC
*
912676 ATATTATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
912699 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
912722 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
912740 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:912746 original size:23 final size:23
Alignment explanation
Indices: 912676--912748 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
912666 ATAGGTAAAC
* **
912676 ATATTATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
912699 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
912722 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
912745 ATAT
1 ATAT
912749 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:912936 original size:29 final size:30
Alignment explanation
Indices: 912893--912959 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
912883 GTTACGGTAT
* *
912893 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
912923 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
912953 ATTTTTT
1 ATATTTT
912960 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:913135 original size:23 final size:23
Alignment explanation
Indices: 913104--913167 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
913094 ATAGGTAAAC
*
913104 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
913127 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
913150 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
913168 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:913174 original size:23 final size:23
Alignment explanation
Indices: 913104--913176 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
913094 ATAGGTAAAC
* **
913104 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
913127 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
913150 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
913173 ATAT
1 ATAT
913177 TGTAAATTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:913475 original size:25 final size:25
Alignment explanation
Indices: 913441--913491 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
913431 ACAACAAATC
*
913441 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
913466 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
913491 A
1 A
913492 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:913758 original size:18 final size:18
Alignment explanation
Indices: 913737--913773 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
913727 GTAATTGGAG
913737 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
913755 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
913773 T
1 T
913774 ATATATTTCG
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:913781 original size:24 final size:24
Alignment explanation
Indices: 913729--913775 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
913719 TTTCATATGT
* *
913729 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
913753 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
913776 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:914075 original size:39 final size:39
Alignment explanation
Indices: 914032--914157 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
914022 TCCGATGCTC
* *
914032 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
914071 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
914110 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
914149 ATCAAAATC
1 ATCAAAATC
914158 TACAACTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:914591 original size:23 final size:23
Alignment explanation
Indices: 914560--914623 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
914550 ATAGGTAAAC
*
914560 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
914583 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
914606 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
914624 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:914630 original size:23 final size:23
Alignment explanation
Indices: 914560--914632 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
914550 ATAGGTAAAC
* **
914560 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
914583 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
914606 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
914629 ATAT
1 ATAT
914633 TTAGTAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:915435 original size:13 final size:13
Alignment explanation
Indices: 915410--915444 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
915400 GTCCTTTCCG
*
915410 GCCA-CGACCACT
1 GCCACCGACAACT
915422 GCCACCGACAACT
1 GCCACCGACAACT
915435 GCCACCGACA
1 GCCACCGACA
915445 TAGTTTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.29, C:0.49, G:0.17, T:0.06
Consensus pattern (13 bp):
GCCACCGACAACT
Found at i:917882 original size:46 final size:45
Alignment explanation
Indices: 917798--917884 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
917788 TATTTATCTC
* *
917798 TATTTTTTTTTTTGTGTTTTTGAAGCTCTCCTTTTAAAAATGGTT
1 TATTTTTTTTTTTGTGTTTTTGAAGATCTCCTTATAAAAATGGTT
* **
917843 TATTTTTTCTTTTTGTTTTTTTGTCGATC-CTCTTATAAAAAT
1 TATTTTTT-TTTTTGTGTTTTTGAAGATCTC-CTTATAAAAAT
917885 TATTGTGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
45 9 0.26
46 26 0.74
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (45 bp):
TATTTTTTTTTTTGTGTTTTTGAAGATCTCCTTATAAAAATGGTT
Found at i:929840 original size:14 final size:14
Alignment explanation
Indices: 929821--929849 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
929811 TTACTATTAA
929821 ATCTGGAAAGTAAT
1 ATCTGGAAAGTAAT
929835 ATCTGGAAAGTAAT
1 ATCTGGAAAGTAAT
929849 A
1 A
929850 CCATGAACGA
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:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ATCTGGAAAGTAAT
Found at i:938886 original size:19 final size:19
Alignment explanation
Indices: 938862--938899 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
938852 TCAATGCACC
938862 TACTCGCATGATGTTGGAT
1 TACTCGCATGATGTTGGAT
938881 TACTCGCATGATGTTGGAT
1 TACTCGCATGATGTTGGAT
938900 GCCTCAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (19 bp):
TACTCGCATGATGTTGGAT
Found at i:940874 original size:24 final size:24
Alignment explanation
Indices: 940824--940897 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
940814 TTGAGGGTTC
*
940824 TATGTGCTCATTTGGGA-AAAACC
1 TATGTGCTCATTTGGGACAAAACA
* *
940847 TATGTGGTCCTTTGGGACAAAACA
1 TATGTGCTCATTTGGGACAAAACA
* *
940871 TATGTGTTCATTCGGGACAAAA-A
1 TATGTGCTCATTTGGGACAAAACA
940894 TATG
1 TATG
940898 GTCATTCGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (24 bp):
TATGTGCTCATTTGGGACAAAACA
Found at i:940904 original size:21 final size:22
Alignment explanation
Indices: 940851--940908 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
940841 AAAACCTATG
* *
940851 TGGTCCTTTGGGACAAAACATA
1 TGGTCATTCGGGACAAAACATA
940873 TGTGTTCATTCGGGACAAAA-ATA
1 TG-G-TCATTCGGGACAAAACATA
940896 TGGTCATTCGGGA
1 TGGTCATTCGGGA
940909 TAAATATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 10 0.31
22 3 0.09
23 6 0.19
24 13 0.41
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (22 bp):
TGGTCATTCGGGACAAAACATA
Found at i:947700 original size:24 final size:25
Alignment explanation
Indices: 947664--947732 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 25
947654 GTCGAGGGTT
* *
947664 CTATGTGCTCCTTTGGG-CAAAAAC
1 CTATGTGCACCTTCGGGACAAAAAC
*
947688 CTATGTGGACCTTCGGGAC-AAAA-
1 CTATGTGCACCTTCGGGACAAAAAC
* **
947711 CTATGAGGTCCTTCGGGACAAA
1 CTATGTGCACCTTCGGGACAAA
947733 TATGTGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 17 0.45
24 20 0.53
25 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
CTATGTGCACCTTCGGGACAAAAAC
Found at i:947723 original size:23 final size:24
Alignment explanation
Indices: 947683--947732 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
947673 CCTTTGGGCA
*
947683 AAAACCTATGTGGACCTTCGGGAC
1 AAAACCTATGAGGACCTTCGGGAC
*
947707 AAAA-CTATGAGGTCCTTCGGGAC
1 AAAACCTATGAGGACCTTCGGGAC
947730 AAA
1 AAA
947733 TATGTGTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
AAAACCTATGAGGACCTTCGGGAC
Found at i:949757 original size:65 final size:63
Alignment explanation
Indices: 949684--949839 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 63
949674 TACACTAGGG
* * * ** *
949684 GTGCATCGGTGCACTAATTACATTCGATGTTTCAAATGAGCCTGGAGTGCATCTATGCATGG-TC
1 GTGCATCGGTACACAAATT-CATTCGATGTTTAAAAT-AGCCAAGAGTGCATCGATGCATGGCT-
949748 T
63 T
* **
949749 GTGCATCGGTACACAAAATGCATTCGATGTTTAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACAC-AAATTCATTCGATGTTTAAAATAGCCAAGAGTGCATCGATGCATGGCTT
949813 GTGCATCGGTACACAAAATTCATTCGA
1 GTGCATCGGTACAC-AAATTCATTCGA
949840 AATGGGTGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 46 0.58
65 30 0.38
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (63 bp):
GTGCATCGGTACACAAATTCATTCGATGTTTAAAATAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:952513 original size:23 final size:22
Alignment explanation
Indices: 952479--952558 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 22
952469 CACAGCAGAG
952479 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* *
952502 TGCATCGGTGCATC-TTCATGG-
1 TGCATCGATGCA-CATTCAAGGA
*
952523 TGTATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAA-GGA
952546 TGCATCGATGCAC
1 TGCATCGATGCAC
952559 TGTCTAGTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.02
21 14 0.30
22 2 0.04
23 29 0.62
24 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:952534 original size:21 final size:20
Alignment explanation
Indices: 952458--952577 Score: 64
Period size: 23 Copynumber: 5.7 Consensus size: 20
952448 AACCCGATGT
**
952458 GTGTATCGATGCACAGCA-G
1 GTGTATCGATGCACTTCATG
* *
952477 AGTGCATCGATGCACATTCAAG
1 -GTGTATCGATGCAC-TTCATG
* *
952499 GAATGCATCGGTGCATCTTCATG
1 G--TGTATCGATGCA-CTTCATG
*
952522 GTGTATCGATGCACATTCAAGG
1 GTGTATCGATGCAC-TTC-ATG
* *
952544 GATGCATCGATGCACTGTC-TA
1 G-TGTATCGATGCACT-TCATG
952565 GTGTATCGATGCA
1 GTGTATCGATGCA
952578 TTATGCACTA
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
20 25 0.32
21 17 0.22
22 5 0.06
23 31 0.39
24 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (20 bp):
GTGTATCGATGCACTTCATG
Found at i:952549 original size:44 final size:43
Alignment explanation
Indices: 952477--952577 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 43
952467 TGCACAGCAG
* *
952477 AGTGCATCGATGCACATTCAAGGAATGCATCGGTGCATCT-TCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGATGCA-CTGTC-T
* *
952521 GGTGTATCGATGCACATTCAAGGGATGCATCGATGCACTGTCT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGATGCACTGTCT
952564 AGTGTATCGATGCA
1 AGTGTATCGATGCA
952578 TTATGCACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 16 0.31
44 35 0.69
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
AGTGTATCGATGCACATTCAAGGAATGCATCGATGCACTGTCT
Found at i:966052 original size:22 final size:22
Alignment explanation
Indices: 966011--966052 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
966001 CCATAAATTG
*
966011 TTTTATTTGTTGTTGGATGATA
1 TTTTATTTGTTGTTGAATGATA
966033 TTTTATTTGATTGTT-AATGA
1 TTTTATTTG-TTGTTGAATGA
966053 ATGATGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (22 bp):
TTTTATTTGTTGTTGAATGATA
Found at i:970617 original size:60 final size:60
Alignment explanation
Indices: 970510--970632 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
970500 AATTATTTCT
* * *
970510 TAAATTAATCCTTAAACATTTGAATATTCTAATTTCATTTCCAAACTATCACTCTCATTC
1 TAAATTAATCCTTAAACATTTGAACATTCTAATTTCATTTCCAAACTATCACCCTCACTC
* ** *
970570 TAAATTAATCCTTAAACTTTTGAACATTCTAATTTCATTTCTGAACTATGACCCTCACTC
1 TAAATTAATCCTTAAACATTTGAACATTCTAATTTCATTTCCAAACTATCACCCTCACTC
970630 TAA
1 TAA
970633 TTGGTCCCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (60 bp):
TAAATTAATCCTTAAACATTTGAACATTCTAATTTCATTTCCAAACTATCACCCTCACTC
Found at i:996323 original size:3 final size:3
Alignment explanation
Indices: 996315--996355 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
996305 TTTTGTTTCT
996315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
996356 GTGGATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:997477 original size:135 final size:135
Alignment explanation
Indices: 997235--997503 Score: 484
Period size: 135 Copynumber: 2.0 Consensus size: 135
997225 CAAGGTAACA
*
997235 AGCTCTGCATGCAATTTTTGCCACGACAACCATCATGAAAGTTAATGCCCAAAAAATCGAGAGTC
1 AGCTCTGCATGCAATTTTTGCCACGACAACCATCATGAAAGTGAATGCCCAAAAAATCGAGAGTC
*
997300 CATCAATTTCATGGGCAGTTTTAATAGAAGCAACAACAACCCCTACTCTAATACATACAATCCTG
66 CATCAATTTCATGGGCAGTTTTAATAAAAGCAACAACAACCCCTACTCTAATACATACAATCCTG
997365 GATGC
131 GATGC
* * *
997370 AGCTCTGCATGCAGTTTTTGCCACGACAACCATCATGAAAGTGAATGCCCAGAAAATCGAGAGTT
1 AGCTCTGCATGCAATTTTTGCCACGACAACCATCATGAAAGTGAATGCCCAAAAAATCGAGAGTC
*
997435 CATCAATTTCATGGGTAGTTTTAATAAAAGCAACAACAACCCCTACTCTAATACATACAATCCTG
66 CATCAATTTCATGGGCAGTTTTAATAAAAGCAACAACAACCCCTACTCTAATACATACAATCCTG
997500 GATG
131 GATG
997504 GCAACAACAT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 128 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (135 bp):
AGCTCTGCATGCAATTTTTGCCACGACAACCATCATGAAAGTGAATGCCCAAAAAATCGAGAGTC
CATCAATTTCATGGGCAGTTTTAATAAAAGCAACAACAACCCCTACTCTAATACATACAATCCTG
GATGC
Found at i:998497 original size:13 final size:14
Alignment explanation
Indices: 998469--998502 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
998459 TCTTTAATGT
*
998469 TTTATTTGTTTTTC
1 TTTATTTGTATTTC
998483 TTTATTT-TATTTC
1 TTTATTTGTATTTC
998496 TTTATTT
1 TTTATTT
998503 ACTTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTATTTGTATTTC
Found at i:999478 original size:96 final size:94
Alignment explanation
Indices: 999344--999519 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 94
999334 ACAGCTCAGG
* * *
999344 GCTGTAAGGTATGCTTCTTCTCACCTAGAGTGTGGGATGGTAGGTATGATGGGCTGACTCCCCTT
1 GCTGAAAGGTATGCTCCTTCTCACCTAGAGTGTGGGATGGTA-GTATGATGCGCTGACTCCCCTT
*
999409 GAAGCAGTGTTAAAAAAACTCTACCTGACTA
65 AAAGCA-TGTTAAAAAAACTCTACCTGACTA
* *
999440 GCTGAAAGGTATGCTCCCTT-TGACCTAGAGTGTGGGATGGTAGTGTGATGCGCTGACTCCCCTT
1 GCTGAAAGGTATGCT-CCTTCTCACCTAGAGTGTGGGATGGTAGTATGATGCGCTGACTCCCCTT
*
999504 AAAGTATGTTAAAAAA
65 AAAGCATGTTAAAAAA
999520 GTTGAAGTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
94 10 0.14
95 24 0.33
96 35 0.49
97 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (94 bp):
GCTGAAAGGTATGCTCCTTCTCACCTAGAGTGTGGGATGGTAGTATGATGCGCTGACTCCCCTTA
AAGCATGTTAAAAAAACTCTACCTGACTA
Found at i:1007280 original size:45 final size:45
Alignment explanation
Indices: 1007216--1007306 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
1007206 TTAAAAAATG
*
1007216 ATAGTCTCAGGAAATAAGTTGGGTAATAATGGTAATAGCTCCAAC
1 ATAGTCTCAGGAAATAAGTTGGGTAATAATAGTAATAGCTCCAAC
* **
1007261 ATAGTCTTAGGAAATAAGTTGGGTAATGTTAGTAATAGCTCCAAC
1 ATAGTCTCAGGAAATAAGTTGGGTAATAATAGTAATAGCTCCAAC
1007306 A
1 A
1007307 GAGTGAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (45 bp):
ATAGTCTCAGGAAATAAGTTGGGTAATAATAGTAATAGCTCCAAC
Found at i:1010293 original size:35 final size:35
Alignment explanation
Indices: 1010254--1010355 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 35
1010244 ACATTTCACG
* * *
1010254 GTTATCAGATATTTACAATCATTAGATGTTTTTTA
1 GTTATCAGATATTTACAATCATCAAATGATTTTTA
* * *
1010289 GTTATAAGCTATTTACAATTATCAAATGATTTTTA
1 GTTATCAGATATTTACAATCATCAAATGATTTTTA
* * *
1010324 GTTATCTGATGA-TTATAATTATCAAATG-TTTT
1 GTTATCAGAT-ATTTACAATCATCAAATGATTTT
1010356 ACAATTAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
34 4 0.07
35 51 0.91
36 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (35 bp):
GTTATCAGATATTTACAATCATCAAATGATTTTTA
Found at i:1010328 original size:18 final size:18
Alignment explanation
Indices: 1010305--1010355 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
1010295 AGCTATTTAC
1010305 AATTATCAAATGATTTTT
1 AATTATCAAATGATTTTT
* ** *
1010323 AGTTATCTGATGA-TTAT
1 AATTATCAAATGATTTTT
1010340 AATTATCAAATG-TTTT
1 AATTATCAAATGATTTT
1010356 ACAATTAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 3
0.69 0.23 0.09
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (18 bp):
AATTATCAAATGATTTTT
Found at i:1014332 original size:27 final size:29
Alignment explanation
Indices: 1014296--1014364 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
1014286 CATTATATTT
*
1014296 TTAAAATAAAAATAAAATA-ATTT-TAAA
1 TTAATATAAAAATAAAATATATTTATAAA
*
1014323 TTAAGT-TAAACATAAAATATATTTAATAAA
1 TTAA-TATAAAAATAAAATATATTT-ATAAA
1014353 TTAATATAAAAA
1 TTAATATAAAAA
1014365 ATTTTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 16 0.47
28 4 0.12
29 1 0.03
30 13 0.38
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
TTAATATAAAAATAAAATATATTTATAAA
Found at i:1015554 original size:515 final size:514
Alignment explanation
Indices: 1014583--1015610 Score: 2002
Period size: 515 Copynumber: 2.0 Consensus size: 514
1014573 TTCTCTGAAC
1014583 AAGAGGATGAGACATGTTACCTTCTAATTGCTGAAAATAAATATATTAAAAATAAAATTAGTCTT
1 AAGAGGATGAGACATGTTACCTTCTAATTGCTGAAAATAAATATATTAAAAATAAAATTAGTCTT
*
1014648 TCAATCAAATGGTAACATGTGGTACGACATGTGACATCATTCGATTGGAGGAATAAATATATTTT
66 TCAATCAAATGGTAACATGTGGTACGACATGTGACATCATTCGATTGAAGGAATAAATATATTTT
1014713 AATTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATGACATGAATCAAATATGTGATTAT
131 AATTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATGACATGAATCAAATATGTGATTAT
1014778 ACCAAAATATTTAAGTGACATATCACCTAATTTGTTAACTGTTAACGACAGTTAAACCGTGATAA
196 ACCAAAATATTTAAGTGACATATCACCTAATTTGTTAACTGTTAACGACAGTTAAACCGTGATAA
1014843 TCACATCTTAACTGAATAAAAACGAAAGAGATCATATATTATATATTTTGAAATCAGTGAGAAAA
261 TCACATCTTAACTGAATAAAAACGAAAGAGATCATATATTATATATTTTGAAATCAGTGAGAAAA
1014908 AATAGACAAAACACAAATACAAGTGATCAATCATGTAATTAACCCTATATTTTAATATTATTTCT
326 AATAGACAAAACACAAATACAAGTGATCAATCATGTAATTAACCCTATATTTTAATATTATTTCT
1014973 AAAATTATATATTTTTTAATTTAAATGAATCAGAGGATAACATGTGTTTGTATCATCAATTTTGT
391 AAAATTATATATTTTTTAATTTAAATGAATCAGAGGATAACATGTGTTTGTATCATCAATTTTGT
*
1015038 CCTGTTAGCCAAACTTAAAAAAGAACACTTTTTAGAGTTATAAGTAGTGCCTAAAACTTA
456 CCTGTTAGCCAAACTTAAAAAA-AACACTTTTTAGAGTTATAAGCAGTGCCTAAAACTTA
1015098 AAGAGGATGAGACATGTTACCTTCTAATTGCTGAAAATAAATATATTAAAAATAAAATTAGTCTT
1 AAGAGGATGAGACATGTTACCTTCTAATTGCTGAAAATAAATATATTAAAAATAAAATTAGTCTT
*
1015163 TCAATCAAATGGTAACATGTGGTACGATATGTGACATCATTCGATTGAAGGAATAAATATATTTT
66 TCAATCAAATGGTAACATGTGGTACGACATGTGACATCATTCGATTGAAGGAATAAATATATTTT
1015228 AATTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATGACATGAATCAAATATGTGATTAT
131 AATTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATGACATGAATCAAATATGTGATTAT
*
1015293 ACCAAAATATTTAAGTGACATATCACCTAATTTGTTAACTGTTAACGACAGTTAAACCGTGATGA
196 ACCAAAATATTTAAGTGACATATCACCTAATTTGTTAACTGTTAACGACAGTTAAACCGTGATAA
1015358 TCACATCTTAACTGAATAAAAACGAAAGAGATCATATATTATATATTTTGAAATCAGTGAGAAAA
261 TCACATCTTAACTGAATAAAAACGAAAGAGATCATATATTATATATTTTGAAATCAGTGAGAAAA
1015423 AATAGACAAAACACAAATACAAGTGATCAATCATGTAATTAACCCTATATTTTAATATTATTTCT
326 AATAGACAAAACACAAATACAAGTGATCAATCATGTAATTAACCCTATATTTTAATATTATTTCT
1015488 AAAATTATATATTTTTTAATTTAAATGAATCAGAGGATAACATGTGTTTGTATCATCAATTTTGT
391 AAAATTATATATTTTTTAATTTAAATGAATCAGAGGATAACATGTGTTTGTATCATCAATTTTGT
*
1015553 CCTGTTAGCCAAACTTAAAAAAAACACTTTTTAGAGTTATAAGCAGTGCCTAACACTT
456 CCTGTTAGCCAAACTTAAAAAAAACACTTTTTAGAGTTATAAGCAGTGCCTAAAACTT
1015611 TAATGTTATT
Statistics
Matches: 508, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
514 34 0.07
515 474 0.93
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (514 bp):
AAGAGGATGAGACATGTTACCTTCTAATTGCTGAAAATAAATATATTAAAAATAAAATTAGTCTT
TCAATCAAATGGTAACATGTGGTACGACATGTGACATCATTCGATTGAAGGAATAAATATATTTT
AATTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATGACATGAATCAAATATGTGATTAT
ACCAAAATATTTAAGTGACATATCACCTAATTTGTTAACTGTTAACGACAGTTAAACCGTGATAA
TCACATCTTAACTGAATAAAAACGAAAGAGATCATATATTATATATTTTGAAATCAGTGAGAAAA
AATAGACAAAACACAAATACAAGTGATCAATCATGTAATTAACCCTATATTTTAATATTATTTCT
AAAATTATATATTTTTTAATTTAAATGAATCAGAGGATAACATGTGTTTGTATCATCAATTTTGT
CCTGTTAGCCAAACTTAAAAAAAACACTTTTTAGAGTTATAAGCAGTGCCTAAAACTTA
Found at i:1020814 original size:24 final size:21
Alignment explanation
Indices: 1020782--1020861 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 21
1020772 TAAGTAAAAT
1020782 AAAAAATATAAAGAAAAAGAAGA
1 AAAAAATATAAA-AAAAAGAA-A
1020805 AAAAATATATAAATAAAACA-AATA
1 AAAAA-ATATAAA-AAAA-AGAA-A
*
1020829 AATAAAATAATAAAAAAAAGTAA
1 AA-AAAAT-ATAAAAAAAAGAAA
*
1020852 AAATAATATA
1 AAAAAATATA
1020862 TATATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
21 3 0.06
22 4 0.08
23 9 0.19
24 23 0.48
25 9 0.19
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAATATAAAAAAAAGAAA
Found at i:1020854 original size:46 final size:47
Alignment explanation
Indices: 1020778--1020916 Score: 108
Period size: 46 Copynumber: 2.9 Consensus size: 47
1020768 ATAGTAAGTA
1020778 AAATAAA-AAATATAA-AGAAAAAGAAG-AAAAAATATATAAATA-AAAC
1 AAATAAATAAA-ATAATA-AAAAA-AAGTAAAAAATATATAAATATAAAC
* *
1020824 AAATAAATAAAATAATAAAAAAAAGTAAAAATAATATATATATATATATAT
1 AAATAAATAAAATAATAAAAAAAAGT-AAAA-AATATATA-A-ATATAAAC
* * * *
1020875 ATAATAAATAAAA-ACTTAAAAATAGTAAATATATATATAAAT
1 A-AATAAATAAAATAATAAAAAAAAGTAAA-AAATATATAAAT
1020917 TAATAAAACG
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
45 3 0.04
46 16 0.21
47 8 0.10
48 10 0.13
49 2 0.03
50 13 0.17
51 14 0.18
52 11 0.14
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (47 bp):
AAATAAATAAAATAATAAAAAAAAGTAAAAAATATATAAATATAAAC
Found at i:1020859 original size:22 final size:22
Alignment explanation
Indices: 1020783--1020859 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
1020773 AAGTAAAATA
*
1020783 AAAAAT-ATAA-AGAAAAAGAAGA
1 AAAAATAATAATA-AAAAA-AAGT
*
1020805 AAAAATATATAAATAAAACAAA-T
1 AAAAATA-AT-AATAAAAAAAAGT
1020828 AAATAA-AATAATAAAAAAAAGT
1 AAA-AATAATAATAAAAAAAAGT
1020850 AAAAATAATA
1 AAAAATAATA
1020860 TATATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
21 12 0.27
22 16 0.36
23 4 0.09
24 6 0.13
25 6 0.13
26 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATAATAATAAAAAAAAGT
Found at i:1020860 original size:48 final size:49
Alignment explanation
Indices: 1020778--1020916 Score: 124
Period size: 48 Copynumber: 2.8 Consensus size: 49
1020768 ATAGTAAGTA
*
1020778 AAATAAAAAATATAAAGAAAAAG-AAGAAAAAATATATAAATA-AAACA-AAT
1 AAAT-AAAAA-ATAAA-AAAAAGTAA-AAATAATATATAAATATAAACATAAT
* *
1020828 AAATAAAATAATAAAAAAAAGTAAAAATAATATATATATATATATATATAAT
1 AAATAAAA-AATAAAAAAAAGTAAAAATAATATATA-A-ATATAAACATAAT
* * * *
1020880 AAATAAAAACTTAAAAATAGTAAATAT-ATATATAAAT
1 AAATAAAAAATAAAAAAAAGTAAAAATAATATATAAAT
1020917 TAATAAAACG
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
48 19 0.25
49 13 0.17
50 15 0.20
51 18 0.24
52 11 0.14
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (49 bp):
AAATAAAAAATAAAAAAAAGTAAAAATAATATATAAATATAAACATAAT
Found at i:1020907 original size:40 final size:40
Alignment explanation
Indices: 1020833--1020955 Score: 119
Period size: 40 Copynumber: 3.0 Consensus size: 40
1020823 CAAATAAATA
1020833 AAATAATAAAAAAAAGTAAAAATAATATATATATATATAT
1 AAATAATAAAAAAAAGTAAAAATAATATATATATATATAT
* * *
1020873 ATATAATAAATAAAAACTTAAAAATAGTA-A-ATATATATAT
1 AAATAATAAA-AAAAA-GTAAAAATAATATATATATATATAT
* *
1020913 AAATTAATAAAACGGATAA--AAAAATAACATATATATATATAT
1 AAA-TAATAAAA---AAAAGTAAAAATAATATATATATATATAT
1020955 A
1 A
1020956 TATGTAATCT
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
40 30 0.44
41 14 0.21
42 21 0.31
43 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (40 bp):
AAATAATAAAAAAAAGTAAAAATAATATATATATATATAT
Found at i:1020925 original size:36 final size:39
Alignment explanation
Indices: 1020865--1020953 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
1020855 TAATATATAT
* *
1020865 ATATATATATATAATAAATAAAAAC-TTAAAAATAGTAA-
1 ATATATATATATAATAAATAAAAACGATAAAAA-AATAAC
*
1020903 ATATATATATA-AATTAAT-AAAACGGATAAAAAAATAAC
1 ATATATATATATAATAAATAAAAAC-GATAAAAAAATAAC
1020941 ATATATATATATA
1 ATATATATATATA
1020954 TATATGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 5 0.11
37 10 0.23
38 28 0.64
39 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (39 bp):
ATATATATATATAATAAATAAAAACGATAAAAAAATAAC
Found at i:1021103 original size:14 final size:15
Alignment explanation
Indices: 1021084--1021122 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1021074 AAATGTGCGT
*
1021084 ATAAATAAAATTA-A
1 ATAAATAAAATAATA
1021098 ATAAATAAAATAATA
1 ATAAATAAAATAATA
*
1021113 ATAATTAAAA
1 ATAAATAAAA
1021123 CGTAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAAAATAATA
Found at i:1021550 original size:37 final size:37
Alignment explanation
Indices: 1021509--1021618 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
1021499 GCTTGTGGAG
*
1021509 CCTATTTTTAGGAGTTTGAATAATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
* *
1021546 CCTATTTTAAAGAGTTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
* *
1021583 CCTATTTTTAGGAGTTTGAATCCTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
1021619 ACGTTTATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
Found at i:1022295 original size:35 final size:34
Alignment explanation
Indices: 1022224--1022339 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
1022214 AAGGTCTTGG
*
1022224 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
*
1022258 GTTTCAAGAGAAACAATTTCTAAGGTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGG-TTTTTTTGT
*
1022293 GTTTCAAGAGAAATAATTTCAAAGGTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
1022327 G-TTCAAGAGAAAC
1 GTTTCAAGAGAAAC
1022340 TGTCTCAAGG
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
33 11 0.14
34 33 0.43
35 32 0.42
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (34 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
Found at i:1022372 original size:37 final size:37
Alignment explanation
Indices: 1022321--1022681 Score: 316
Period size: 37 Copynumber: 10.2 Consensus size: 37
1022311 TCAAAGGTTT
* *
1022321 TTTTGTGTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA
1 TTTTGT-TTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
1022359 TTTTGTTTCAAGAGAAACATAT-TC-A-A-AG-----A
1 TTTTGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAA
* *
1022388 TTGGTGTTTCAAGAGAAACTCTCTCAAGAGAGACAAAA
1 TT-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1022426 TTTTGTTTCAAGGGAAACTGTCTCAAGACAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1022463 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * * * *
1022499 CTTAGTTCCAAAAGAAACTGTCACAAGGGAGACGAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
**
1022536 -TTTGTTTCAAG-GAAA-------AA-AGATTCAAAGA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-A
* *
1022564 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-TAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
1022600 TTTTTTTTCAAGTGAAACTGTCTCAAGAGAGATAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
1022637 CTTTGTTTCAATG-GAAACTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA
*
1022674 CTTTGTTT
1 TTTTGTTT
1022682 TGAGTAAATT
Statistics
Matches: 266, Mismatches: 32, Indels: 51
0.76 0.09 0.15
Matches are distributed among these distances:
27 5 0.02
28 3 0.01
29 16 0.06
30 21 0.08
31 1 0.00
32 1 0.00
33 2 0.01
34 2 0.01
35 4 0.02
36 74 0.28
37 122 0.46
38 15 0.06
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:1022487 original size:73 final size:73
Alignment explanation
Indices: 1022392--1022681 Score: 328
Period size: 73 Copynumber: 4.1 Consensus size: 73
1022382 CAAAGATTGG
* * *
1022392 TGTTTCAAGAGAAACTCTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGACAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1022457 ACAAAATT
66 ACAAAATT
* * ** * *
1022465 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
1022530 ACGAAATT
66 ACAAAATT
** *
1022538 TGTTTCAAG-GAAA-------AA-AGATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTTGTTTCAAGGGAAACTGTCTCAAGAGA
* *
1022594 GATAAATTT
65 GACAAAATT
* * * *
1022603 TTTTTCAAGTGAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAATGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1022668 ACAAAACTT
66 ACAAAA-TT
1022677 TGTTT
1 TGTTT
1022682 TGAGTAAATT
Statistics
Matches: 175, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
64 7 0.04
65 40 0.23
66 4 0.02
72 4 0.02
73 108 0.62
74 12 0.07
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:1022609 original size:138 final size:138
Alignment explanation
Indices: 1022421--1022681 Score: 389
Period size: 138 Copynumber: 1.9 Consensus size: 138
1022411 TCAAGAGAGA
1022421 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGACAGACAAAATTTGTTTCAAGAGAAACTGTCTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGACAGACAAAATTTGTTTCAAGAGAAACTGTCTC
* *
1022486 AAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGGGAGACGAAA-TTTGTTTCAAGGAA
66 AAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAGAGACAAAACTTTGTTTCAAGGAA
1022550 AAAAGATT
131 AAAAGATT
* * * * *
1022558 CAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAATTTTTTTTCAAGTGAAACTGTCT
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGACAGACAAAATTTGTTTCAAGAGAAACTGTCT
* * * ** *
1022623 CAAGAGAGATAAAACTTTGTTTCAATGGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
65 CAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAGAGACAAAACTTTGTTT
1022682 TGAGTAAATT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 4 0.04
138 98 0.90
139 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (138 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGACAGACAAAATTTGTTTCAAGAGAAACTGTCTC
AAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAGAGACAAAACTTTGTTTCAAGGAA
AAAAGATT
Found at i:1022642 original size:102 final size:103
Alignment explanation
Indices: 1022463--1022653 Score: 251
Period size: 102 Copynumber: 1.9 Consensus size: 103
1022453 ACAGACAAAA
*
1022463 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAG
*
1022528 AGACGAAATTTGTTTCAA-GGAAAAAAGATTCAAAGAT
66 AGACAAAATTTGTTTCAATGGAAAAAAGATTCAAAGAT
* * * ** * ** *
1022565 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-TAAATTTTTTTTCAAGTGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAG
*
1022629 AGATAAAACTTTGTTTCAATGGAAA
66 AGACAAAA-TTTGTTTCAATGGAAA
1022654 CTGTCTCAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
101 30 0.40
102 40 0.53
103 5 0.07
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (103 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCACAAGAG
AGACAAAATTTGTTTCAATGGAAAAAAGATTCAAAGAT
Found at i:1023340 original size:32 final size:32
Alignment explanation
Indices: 1023299--1023387 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
1023289 TTCGCATCAG
* *
1023299 GATGTTGAATCCCCAAAGATACCCCAATATTC
1 GATGTTGAATCTCCAAAGATACCCCAACATTC
* * * *
1023331 GATGTTGAATATCCAAAAATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATACCCCAACATTC
* * *
1023363 GATGTTGCATCTTCAAAGATTCCCC
1 GATGTTGAATCTCCAAAGATACCCC
1023388 CAATGTTCCT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATACCCCAACATTC
Found at i:1024470 original size:12 final size:13
Alignment explanation
Indices: 1024455--1024517 Score: 58
Period size: 14 Copynumber: 4.7 Consensus size: 13
1024445 TTTTCCTTTG
*
1024455 TTTTTGTTTCTCT
1 TTTTTTTTTCTCT
1024468 TTTTTATTTTCTCT
1 TTTTT-TTTTCTCT
1024482 TTTCTTTTTTCTAC-
1 TTT-TTTTTTCT-CT
*
1024496 -CTTTTTTTCTCT
1 TTTTTTTTTCTCT
1024508 TTTTTCTTTT
1 TTTTT-TTTT
1024518 TGTTCTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 8 0.20
13 9 0.22
14 20 0.49
15 3 0.07
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:1027544 original size:21 final size:20
Alignment explanation
Indices: 1027520--1027656 Score: 71
Period size: 20 Copynumber: 6.7 Consensus size: 20
1027510 AATTAAAATG
1027520 AAGAAAAAATAAATTAAATAA
1 AAGAAAAAATAAA-TAAATAA
* * * ***
1027541 AAGATAAGATAAAGAAGGCA
1 AAGAAAAAATAAATAAATAA
* * *
1027561 AAGATAAAAT-AGTAAGTAA
1 AAGAAAAAATAAATAAATAA
* *
1027580 AATAAAAAATATATATAAAAAA
1 AAGAAAAAATA-A-ATAAATAA
* *
1027602 ATAAAAAAAATAAAGAAA-AA
1 A-AGAAAAAATAAATAAATAA
*
1027622 GAAGAAAAAATATATAAATAA
1 -AAGAAAAAATAAATAAATAA
*
1027643 AACAAATAAATAAA
1 AAGAAA-AAATAAA
1027657 ATAATAATAA
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
19 13 0.15
20 32 0.37
21 25 0.29
22 7 0.08
23 9 0.10
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (20 bp):
AAGAAAAAATAAATAAATAA
Found at i:1027549 original size:26 final size:27
Alignment explanation
Indices: 1027486--1027549 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
1027476 GTGTTAGATA
*
1027486 AAAAGGTAAGAAATAAATAAATTAAAT
1 AAAAGATAAGAAATAAATAAATTAAAT
*
1027513 TAAA-ATGAAGAAA-AAATAAATTAAAT
1 AAAAGAT-AAGAAATAAATAAATTAAAT
1027539 AAAAGATAAGA
1 AAAAGATAAGA
1027550 TAAAGAAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAGATAAGAAATAAATAAATTAAAT
Found at i:1027610 original size:9 final size:9
Alignment explanation
Indices: 1027578--1027660 Score: 69
Period size: 9 Copynumber: 8.8 Consensus size: 9
1027568 AATAGTAAGT
1027578 AAAATAAAA
1 AAAATAAAA
1027587 AATATATATAAA
1 AA-A-ATA-AAA
1027599 AAAATAAAA
1 AAAATAAAA
1027608 AAAATAAAGA
1 AAAATAAA-A
*
1027618 AAAAGAAGAA
1 AAAATAA-AA
*
1027628 AAAAT-ATA
1 AAAATAAAA
*
1027636 TAAATAAAA
1 AAAATAAAA
* *
1027645 CAAATAAAT
1 AAAATAAAA
1027654 AAAATAA
1 AAAATAA
1027661 TAATAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
8 5 0.08
9 29 0.48
10 16 0.27
11 5 0.08
12 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:1027653 original size:4 final size:4
Alignment explanation
Indices: 1027579--1027757 Score: 54
Period size: 4 Copynumber: 44.5 Consensus size: 4
1027569 ATAGTAAGTA
* * * * *
1027579 AAAT AAA- AAAT ATATAT AAAA AAAT AAAAA AAAT AAAG AAAA AGAAG
1 AAAT AAAT AAAT A-A-AT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT
* *
1027626 AAA- AAAT ATAT AAAT AAAAC AAAT AAAT AAA- ATAAT -AAT AAA- AAAGT
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T
* * * *
1027673 AAAA ATAAT ATAT ATAT ATAAT AAAT AAA- AACAT AAA- AAAT -AGT AAAT
1 AAAT A-AAT AAAT AAAT A-AAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
* * * *
1027721 ATAT ATAT AAAT TAAT AAAAC AAAT -AAT AAA- AAAT AA
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AA
1027758 CATATATATA
Statistics
Matches: 131, Mismatches: 23, Indels: 42
0.67 0.12 0.21
Matches are distributed among these distances:
3 26 0.20
4 78 0.60
5 24 0.18
6 3 0.02
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1027678 original size:25 final size:26
Alignment explanation
Indices: 1027578--1027703 Score: 83
Period size: 25 Copynumber: 5.2 Consensus size: 26
1027568 AATAGTAAGT
*
1027578 AAAATAAAAAATATATATAAAAAA-A
1 AAAATAAAATATATATATAAAAAATA
* * *
1027603 TAAA-AAAA-ATA-A-A-GAAAAAGA
1 AAAATAAAATATATATATAAAAAATA
* *
1027624 AGAA-AAAATATATAAATAAAACAA-A
1 AAAATAAAATATATATATAAAA-AATA
*
1027649 TAAATAAAATA-ATA-ATAAAAAAGTA
1 AAAATAAAATATATATATAAAAAA-TA
* *
1027674 AAAATAATATATATATATAATAAATA
1 AAAATAAAATATATATATAAAAAATA
1027700 AAAA
1 AAAA
1027704 CATAAAAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.06
21 8 0.10
22 4 0.05
23 6 0.08
24 11 0.14
25 22 0.28
26 17 0.21
27 7 0.09
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (26 bp):
AAAATAAAATATATATATAAAAAATA
Found at i:1027723 original size:33 final size:34
Alignment explanation
Indices: 1027648--1027732 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 34
1027638 AATAAAACAA
*
1027648 ATAAATAAAATAAT-AATAAAAAAGTAAAAATAAT
1 ATAAAT-ATATAATAAATAAAAAAGTAAAAATAAT
*
1027682 ATATATATATAATAAATAAAAACA-T-AAAA-AAT
1 ATAAATATATAATAAATAAAAA-AGTAAAAATAAT
1027714 AGTAAATATATATATAAAT
1 A-TAAATATATA-ATAAAT
1027733 TAATAAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 4 0.09
33 19 0.43
34 20 0.45
35 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (34 bp):
ATAAATATATAATAAATAAAAAAGTAAAAATAAT
Found at i:1027751 original size:42 final size:42
Alignment explanation
Indices: 1027629--1027771 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 42
1027619 AAAGAAGAAA
* ** *
1027629 AAATATATAAATAAAACAAATAAATAAAATAATAATAAAAAAGT
1 AAATATATATAT-AAATTAATAAATAAAATAATAA-AAAATAGT
* *
1027673 AAAAATAATATATATATATAATAAATAAAA-ACATAAAAAATAGT
1 AAATAT-ATATATAAAT-TAATAAATAAAATA-ATAAAAAATAGT
**
1027717 AAATATATATATAAATTAATAAA-ACAAATAATAAAAAATAAC
1 AAATATATATATAAATTAATAAATA-AAATAATAAAAAATAGT
*
1027759 ATATATATATATA
1 AAATATATATATA
1027772 TATATATGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 32 0.39
43 10 0.12
44 20 0.24
45 20 0.24
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (42 bp):
AAATATATATATAAATTAATAAATAAAATAATAAAAAATAGT
Found at i:1027756 original size:35 final size:36
Alignment explanation
Indices: 1027657--1027767 Score: 95
Period size: 35 Copynumber: 3.1 Consensus size: 36
1027647 AATAAATAAA
* *
1027657 ATAA-TAATAAAA-AAGTAA-AAATAATATATATAT
1 ATAATTAATAAAACAAATAATAAAAAATATATATAT
* * **
1027690 ATAATAAATAAAAACATAAAAAATAGTAAATATATATAT
1 ATAATTAAT-AAAAC--AAATAATAAAAAATATATATAT
*
1027729 A-AATTAATAAAACAAATAATAAAAAATAACATATAT
1 ATAATTAATAAAACAAATAATAAAAAAT-ATATATAT
1027765 ATA
1 ATA
1027768 TATATATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 15 0.25
36 8 0.14
37 6 0.10
38 10 0.17
39 13 0.22
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (36 bp):
ATAATTAATAAAACAAATAATAAAAAATATATATAT
Found at i:1029029 original size:16 final size:17
Alignment explanation
Indices: 1029005--1029042 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1028995 ATTTCAAAGT
1029005 TATAATTATATA-AAAA
1 TATAATTATATATAAAA
*
1029021 TATATTTATATATAAAA
1 TATAATTATATATAAAA
1029038 TATAA
1 TATAA
1029043 ATAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAATTATATATAAAA
Found at i:1029327 original size:22 final size:22
Alignment explanation
Indices: 1029302--1029346 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
1029292 TTAATAAAAA
1029302 ATATATATATA-TTATTTATTAT
1 ATATATATATATTTATTT-TTAT
1029324 ATATATATATATTTATTTTTAT
1 ATATATATATATTTATTTTTAT
1029346 A
1 A
1029347 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATATATATTTATTTTTAT
Found at i:1029355 original size:3 final size:3
Alignment explanation
Indices: 1029347--1029409 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
1029337 TATTTTTATA
*
1029347 AAT AAT AAT AAT AAT AA- AAT AAT AATT AA- AAC AAT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
1029389 AAT AAT AAT AA- AAT AAAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT
1029410 GATTAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
2 10 0.19
3 37 0.70
4 6 0.11
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1030821 original size:3 final size:3
Alignment explanation
Indices: 1030802--1030869 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
1030792 TTGTAATATT
*
1030802 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TACA -AA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
**
1030849 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1030870 ATTTAAATGA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
2 1 0.02
3 47 0.85
4 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1030874 original size:18 final size:18
Alignment explanation
Indices: 1030841--1030875 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1030831 TAATAATACA
*
1030841 AATAATAATAATTTTAAT
1 AATAATAATAAATTTAAT
1030859 AATAATAATAAATTTAA
1 AATAATAATAAATTTAA
1030876 ATGAAAAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATAATAAATTTAAT
Found at i:1031241 original size:76 final size:76
Alignment explanation
Indices: 1031002--1031948 Score: 1538
Period size: 76 Copynumber: 12.4 Consensus size: 76
1030992 GAAATGTTGA
* * * * *
1031002 AAACATCAGGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGTAAACATCAAAAAGCTCTCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
1031067 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
1031079 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTG-AAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031142 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1031153 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1031218 AGTCTTTTTGG
66 AGGCTTTTTGG
* *
1031229 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTTGAAAACATCAAAAAGCTCCCA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGCTCCCG
1031294 AAGGCTTTTTGG
65 AAGGCTTTTTGG
1031306 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031371 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1031382 AAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031447 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1031458 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031523 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1031534 AAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTTTGAAAACATCAAAAAGCTCCC
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG--CTTTGAAAACATCAAAAAGCTCCC
1031599 GAAGGCTTTTTGG
64 GAAGGCTTTTTGG
*
1031612 AAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031677 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1031688 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031753 AGGCTTTTTGG
66 AGGCTTTTTGG
* * **
1031764 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAATATCAAAAAGCTCTTG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
*
1031829 AAGGCTTTTTGAA
65 AAGGCTTTTTG-G
* * * *
1031842 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGTTTTTGAAAATATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
*
1031907 AAGGCTTTTTGA
65 AAGGCTTTTTGG
*
1031919 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
1031949 TGGGAAATAG
Statistics
Matches: 826, Mismatches: 37, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
74 66 0.08
75 8 0.01
76 435 0.53
77 172 0.21
78 145 0.18
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1031667 original size:230 final size:229
Alignment explanation
Indices: 1031002--1031948 Score: 1578
Period size: 230 Copynumber: 4.1 Consensus size: 229
1030992 GAAATGTTGA
* * * * *
1031002 AAACATCAGGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGTAAACATCAAAAAGCTCTCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCG
*
1031067 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTG-AAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCA
* *
1031130 AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
131 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
*
1031195 TGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGG
196 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
1031229 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTTGAAAACATCAAAAAGCTCCCA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCG
*
1031294 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCA
*
1031359 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTT
131 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
1031424 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
1031458 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCG
* *
1031522 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTTTGAAAACAT
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG--TTTTGAAAACAT
* *
1031587 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGC
129 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
1031652 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
194 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1031688 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC-TTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCG
*
1031752 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAATATC
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATC
** * *
1031817 AAAAAGCTCTTGAAGGCTTTTTGAAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGT
130 AAAAAGCTCCCGAAGGCTTTTTG-GAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-
* * *
1031882 TTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGA
193 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1031919 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
1031949 TGGGAAATAG
Statistics
Matches: 679, Mismatches: 34, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
227 108 0.16
228 77 0.11
229 175 0.26
230 256 0.38
231 63 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (229 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCA
AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:1031716 original size:306 final size:305
Alignment explanation
Indices: 1031002--1031948 Score: 1619
Period size: 306 Copynumber: 3.1 Consensus size: 305
1030992 GAAATGTTGA
* * * * *
1031002 AAACATCAGGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGTAAACATCAAAAAGCTCTCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
* *
1031067 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTG-AAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
* * * *
1031130 AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1031195 TGAAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
* *
1031260 CCCTAAGGCTTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
260 CCCTAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
1031306 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1031371 AGGCTTTTTGGAAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
1031436 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
*
1031501 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATAAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1031566 CCTAAGGTTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
261 CCTAAGG-TTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1031612 AAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1031677 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
1031742 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTT
* ** * *
1031807 TGAAAATATCAAAAAGCTCTTGAAGGCTTTTTGAAAAACATCATGCACTGAAGGGCTTACAGATG
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG-GAAACATCATGCACTGAAGGACTTACAGATG
* *
1031872 ACCCTAAGGTTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGA
259 ACCCTAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1031919 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
1031949 TGGGAAATAG
Statistics
Matches: 610, Mismatches: 28, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
303 70 0.11
304 41 0.07
305 140 0.23
306 225 0.37
307 97 0.16
308 37 0.06
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (305 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
CCTAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:1032633 original size:22 final size:22
Alignment explanation
Indices: 1032608--1032687 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
1032598 CATAAAGCTT
*
1032608 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
* * *
1032630 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTAAAAAGAGAATCTA
* * **
1032652 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
1032674 TCATCTTTAAAAAG
1 TCATCTTTAAAAAG
1032688 TGCAGATGTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:1035426 original size:114 final size:113
Alignment explanation
Indices: 1035227--1035448 Score: 372
Period size: 114 Copynumber: 2.0 Consensus size: 113
1035217 GATCATGCAG
* * *
1035227 TTCATCTTTCAATTCCAATGATCGGTTTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGAA
1 TTCATCTTTCAAATCCAATGATCGGTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAA
*
1035292 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 CACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
* *
1035340 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGG-TTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
1035405 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGA
65 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGA
1035449 TCACCTGGCA
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 22 0.22
114 79 0.78
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATCGGTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:1042343 original size:14 final size:15
Alignment explanation
Indices: 1042321--1042357 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1042311 TACTGACAGA
1042321 AAAAT-AAATA-ATG
1 AAAATAAAATACATG
*
1042334 AAAATAAAATACTTG
1 AAAATAAAATACATG
1042349 AAAATAAAA
1 AAAATAAAA
1042358 AGAAACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.24
14 5 0.24
15 11 0.52
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (15 bp):
AAAATAAAATACATG
Found at i:1042432 original size:28 final size:29
Alignment explanation
Indices: 1042370--1042432 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
1042360 AAACATTAAT
*
1042370 AAAATAATGTACATATAAATATTATGAAA
1 AAAATAATGTACATATAAAAATTATGAAA
* *
1042399 ATAATAA-GTATATATAAAAATT-TGAAA
1 AAAATAATGTACATATAAAAATTATGAAA
1042426 AGAAATA
1 A-AAATA
1042433 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.21
28 17 0.59
29 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAATAATGTACATATAAAAATTATGAAA
Found at i:1042923 original size:16 final size:17
Alignment explanation
Indices: 1042899--1042936 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1042889 ATTTCAAAGT
1042899 TATAATTATATA-AAAA
1 TATAATTATATATAAAA
*
1042915 TATATTTATATATAAAA
1 TATAATTATATATAAAA
1042932 TATAA
1 TATAA
1042937 ATAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAATTATATATAAAA
Found at i:1043243 original size:3 final size:3
Alignment explanation
Indices: 1043237--1043299 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
1043227 TATTTTTATA
*
1043237 AAT AAT AAT AAT AAT AA- AAT AAT AATT AA- AAC AAT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
1043279 AAT AAT AAT AA- AAT AAAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT
1043300 GATTAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
2 10 0.19
3 37 0.70
4 6 0.11
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1044713 original size:3 final size:3
Alignment explanation
Indices: 1044694--1044761 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
1044684 TTGTAATATT
* *
1044694 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1044741 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1044762 ATTTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1044766 original size:18 final size:18
Alignment explanation
Indices: 1044732--1044767 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1044722 ATAATAATAC
*
1044732 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
1044750 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
1044768 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:1048148 original size:2 final size:2
Alignment explanation
Indices: 1048141--1048173 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1048131 GCACTAAGAT
1048141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1048174 TCACACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1049830 original size:31 final size:31
Alignment explanation
Indices: 1049792--1049919 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
1049782 AAACCTCGGC
* *
1049792 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
1049823 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
*
1049854 TAA-TGTCCATATGTCTCGAA-AGACATAGGTA
1 -AACTGTCCATATGTCCCGAAGA-ACATAGGTA
* * *
1049885 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTCCCGAAGAACATAGGTA
1049917 AAC
1 AAC
1049920 CCTCGACTCT
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
30 2 0.03
31 49 0.63
32 26 0.33
33 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1049902 original size:63 final size:62
Alignment explanation
Indices: 1049795--1049916 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 62
1049785 CCTCGGCAAC
* *
1049795 TGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATAGGTATAA
1 TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTATAA
* * *
1049857 TGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAA-ACTGTCCATATGTTCCGTAGAACATAGGTA
1049917 AACCCTCGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 24 0.45
63 28 0.53
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTATAA
Found at i:1050977 original size:64 final size:64
Alignment explanation
Indices: 1050825--1050986 Score: 166
Period size: 64 Copynumber: 2.5 Consensus size: 64
1050815 TTCCTTTGAA
* * * *
1050825 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATATTTTCATTTTAAGGGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTAAGGGG
* * * * ** * * *
1050889 GTTCATCGATGCA-ATCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTTTTTAA-TG
1 GTGCATCGATGCACTTCC-TATGCATCGATACACAAATCACATTCGATATTTCC-ATTTTAAGGG
1050952 G
64 G
*
1050953 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTTCCTATGCATCGATACACA
1050987 CTGAACAATT
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
63 2 0.03
64 66 0.86
65 9 0.12
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTAAGGGG
Found at i:1054046 original size:2 final size:2
Alignment explanation
Indices: 1054041--1054078 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1054031 ATATCCATTC
1054041 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
1054079 CAAATACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1054538 original size:31 final size:32
Alignment explanation
Indices: 1054422--1054543 Score: 103
Period size: 31 Copynumber: 3.9 Consensus size: 32
1054412 CCTCGACAAC
* * * *
1054422 TGTCCATAGGTCTCGAAGAACCTAGGTAA-AC
1 TGTCCATAGTTCTCGTAGAACATAGGTAATAT
*
1054453 TGTCCATATGTTC-CTTAGAACATAGGT-ATAT
1 TGTCCATA-GTTCTCGTAGAACATAGGTAATAT
* * *
1054484 TATCCATA-TGTCTCG-AAAGACATAGGTAATTT
1 TGTCCATAGT-TCTCGTAGA-ACATAGGTAATAT
1054516 TGTCCATAGTTC-CGTAGAACATAGGTAA
1 TGTCCATAGTTCTCGTAGAACATAGGTAA
1054544 ACCCTTGACT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 48 0.67
32 17 0.24
33 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (32 bp):
TGTCCATAGTTCTCGTAGAACATAGGTAATAT
Found at i:1056739 original size:22 final size:22
Alignment explanation
Indices: 1056713--1056773 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
1056703 CATTGGGACC
1056713 AAAGTACCTTAACACTAATAC-
1 AAAGTACCTTAACACTAATACT
* * * *
1056734 AGAAGTGCATTAGCACTTATACT
1 A-AAGTACCTTAACACTAATACT
*
1056757 AAAGTACCTTAAAACTA
1 AAAGTACCTTAACACTA
1056774 TAGGGGATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (22 bp):
AAAGTACCTTAACACTAATACT
Found at i:1075059 original size:77 final size:80
Alignment explanation
Indices: 1074913--1075059 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 80
1074903 GTAAGCATTA
*
1074913 AAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTCGGAATAATTAAATAAGG
1 AAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTCGGAATAATTAAATAAGA
1074978 TTTTAAATAAAGATT
66 TTTTAAATAAAGATT
* * * * * *
1074993 AAAGATTGTAATTTAGATTATAAGTC-TTTAA-TG-TATATTTAATT-TGAATTAATTAAATAAT
1 AAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTCGGAA-TAATTAAATAAG
1075054 ATTTTA
65 ATTTTA
1075060 TTTATTAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 3 0.05
77 26 0.44
78 2 0.03
79 5 0.08
80 23 0.39
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (80 bp):
AAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTCGGAATAATTAAATAAGA
TTTTAAATAAAGATT
Found at i:1082915 original size:17 final size:17
Alignment explanation
Indices: 1082891--1082925 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1082881 CAAAGTGGTC
1082891 ATTTTCCCA-AAAAGAA
1 ATTTTCCCATAAAAGAA
1082907 ATTTATCCCATAAAAGAA
1 ATTT-TCCCATAAAAGAA
1082925 A
1 A
1082926 AGTTCATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (17 bp):
ATTTTCCCATAAAAGAA
Found at i:1086607 original size:29 final size:30
Alignment explanation
Indices: 1086574--1086633 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1086564 CCAAATGTAT
*
1086574 AAATTTTA-AAAATTACACTTTGGTCCTTA
1 AAATTTTACAAAATTACACTTTGGTCATTA
* *
1086603 AAATTTTACAAATTTATACTTTGGTCATTA
1 AAATTTTACAAAATTACACTTTGGTCATTA
1086633 A
1 A
1086634 CTTTCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATTTTACAAAATTACACTTTGGTCATTA
Found at i:1094255 original size:94 final size:94
Alignment explanation
Indices: 1094084--1094286 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 94
1094074 ATACCGATGA
*
1094084 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAATGTCGAACCTAAAATTGGTACCAT
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGAAATGTCGAACCTAAAATTGGTACCAT
*
1094149 ACCGGAAGGGGGTATCGGTACCATAGTAT
66 ACCGGAAGGGGGTATCAGTACCATAGTAT
* * * * * *
1094178 GGTAGTATCGATACTATGGTAAGGGTATCGATACTAGGAAACT-TTGAACCTAAAATTGGTATCG
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGAAA-TGTCGAACCTAAAATTGGTA-CC
* *
1094242 ATATCGTAA-GGGGTATCAGTACCATAGTAT
64 ATACCGGAAGGGGGTATCAGTACCATAGTAT
* * *
1094272 AGAAGTATCGGTACC
1 GGTAGTATCGATACC
1094287 GGGGTAGTAG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
94 84 0.90
95 9 0.10
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (94 bp):
GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGAAATGTCGAACCTAAAATTGGTACCAT
ACCGGAAGGGGGTATCAGTACCATAGTAT
Found at i:1094676 original size:59 final size:59
Alignment explanation
Indices: 1094607--1094734 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
1094597 TGTTGCAAAA
* *
1094607 TTAAGAAATTCACACTAAGTGTATGAATTTCCATATAGGGC-GCTTCGTGTGCTAAAATG
1 TTAAGAAATTCACACTAAGTGTATGAATTTCCATATAGGGCACCCT-GTGTGCTAAAATG
* * *
1094666 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACCCTGTGTGCTAAAATG
1 TTAAGAAATTCACACTAAGTGTATGAATTTCCATATAGGGCACCCTGTGTGCTAAAATG
*
1094725 ATAAGAAATT
1 TTAAGAAATT
1094735 TATATTAACT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
59 60 0.97
60 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (59 bp):
TTAAGAAATTCACACTAAGTGTATGAATTTCCATATAGGGCACCCTGTGTGCTAAAATG
Found at i:1095384 original size:68 final size:68
Alignment explanation
Indices: 1094971--1095366 Score: 623
Period size: 68 Copynumber: 5.8 Consensus size: 68
1094961 AAGTTAAATG
* ** * *
1094971 TTTGAGGCCTAATTGTGCATATGACCCAAAGGTGTCATTTATGTCAATTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1095036 GTC
66 GCC
* *
1095039 TTTGAGGCCTAACTGTGCATATGACCGAAAGGTGTCATTTATGCCATTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1095104 GCC
66 GCC
* * *
1095107 TTTGAGGCCTAACTGTGCCTATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1095172 GCC
66 GCC
* * *
1095175 TTTG-GCGCCTAACTGTGCATATGATAGAAAGGTGTCATATATGCAAGTTAGATGAAAGGCTAAG
1 TTTGAG-GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAG
1095239 TGCC
65 TGCC
*
1095243 TTTGAGGCCTAACTGTGCATATGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1095308 GCC
66 GCC
* *
1095311 TTTGAGGCCTAACTGTGCATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
1095367 CGGTGAAGTA
Statistics
Matches: 306, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
67 1 0.00
68 304 0.99
69 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:1095524 original size:80 final size:80
Alignment explanation
Indices: 1095326--1095560 Score: 285
Period size: 81 Copynumber: 2.9 Consensus size: 80
1095316 GGCCTAACTG
* * * *
1095326 TGCATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTGAAGTACAATTGAGTAAAAG
1 TGCATTTGATAGAAAG-TGTCAATTATGCCAGTTAGATGAACGGTTAAGTACAACTGAGTAAAAG
* ** *
1095391 AATAATGGTCTAGCTG
65 AATAATGGTCCAAATA
* * * * *
1095407 CGCATTTGATAGAAAGGTGTCAATTATGCCAGATAGATGAACGGTTAAGTGCCACTGATTAAAAG
1 TGCATTTGATAGAAA-GTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACAACTGAGTAAAAG
1095472 AATAATGG-CCAAATA
65 AATAATGGTCCAAATA
* **
1095487 TGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAACTAC-GTTGAGTAAAAG
1 TGCATTTGATAGAAA-GTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACAACTGAGTAAAAG
1095551 AATAATGGTC
65 AATAATGGTC
1095561 GAGTTGTGCA
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
79 17 0.13
80 51 0.39
81 62 0.47
82 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (80 bp):
TGCATTTGATAGAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACAACTGAGTAAAAGA
ATAATGGTCCAAATA
Found at i:1095571 original size:80 final size:80
Alignment explanation
Indices: 1095324--1095608 Score: 324
Period size: 80 Copynumber: 3.5 Consensus size: 80
1095314 GAGGCCTAAC
* * *
1095324 TGTGCATATGACAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTGAAGTACAATTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTAC-ATTGAGTAAA
* *
1095389 AGAATAATGGTCTAGC
65 AGAATAATGGTCCAGA
* * * * * *
1095405 TGCGCATTTGATAGAAAGGTGTCAATTATGCCAGATAGATGAACGGTTAAGTGCCACTGATTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGT-ACATTGAGTAAA
*
1095470 AGAATAATGG-CCAAA
65 AGAATAATGGTCCAGA
* * * * *
1095485 TATGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAACTACGTTGAGTAAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACATTGAGTAAAA
* *
1095550 GAATAATGGTCGAGT
66 GAATAATGGTCCAGA
* *
1095565 TGTGCATTTAACAGAAAGGTGTTAATTA-GTCCA-TATAGATGAAC
1 TGTGCATTTGACAGAAAGGTGTCAATTATG-CCAGT-TAGATGAAC
1095609 AATTAAACAT
Statistics
Matches: 171, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
79 20 0.12
80 86 0.50
81 64 0.37
82 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (80 bp):
TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACATTGAGTAAAA
GAATAATGGTCCAGA
Found at i:1099798 original size:95 final size:95
Alignment explanation
Indices: 1099694--1099904 Score: 307
Period size: 95 Copynumber: 2.2 Consensus size: 95
1099684 ATACCAACGA
*
1099694 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATTGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATTGAACCTAAAATTGGTATCGA
1099759 T-ACCAGAAGCGGGTATCGGTACCATAGTAT
66 TGACC-GAAGCGGGTATCGGTACCATAGTAT
* * *
1099789 GGTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACTTTGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATTGAACCTAAAATTGGTATCGA
* * *
1099854 TGTCCTAAGGGGGTATCGGTACCATAGTAT
66 TGACCGAAGCGGGTATCGGTACCATAGTAT
* * * *
1099884 AGAAGTATCGGTACCAGGGTA
1 GGTAGTATCGATACCATGGTA
1099905 GTAATATCGA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 102 0.98
96 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATTGAACCTAAAATTGGTATCGA
TGACCGAAGCGGGTATCGGTACCATAGTAT
Found at i:1099818 original size:20 final size:20
Alignment explanation
Indices: 1099769--1099822 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
1099759 TACCAGAAGC
* *
1099769 GGGTATCGGTACCATAGTAT
1 GGGTATCGATACCATAGTAA
*
1099789 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
1099811 GGGTATCGATAC
1 GGGTATCGATAC
1099823 TAGGAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:1100290 original size:59 final size:59
Alignment explanation
Indices: 1100219--1100365 Score: 224
Period size: 59 Copynumber: 2.5 Consensus size: 59
1100209 TGTGAAAAAT
* *
1100219 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCGCT-TCGTGTGCTAAAATGT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTCT-GTGTGCTAAAATGA
* *
1100278 TAGGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTCTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTCTGTGTGCTAAAATGA
* *
1100337 TAAGAAATTCATATTAAGTGTAAGAATTT
1 TAAGAAATTCATACTAAGTGTATGAATTT
1100366 TTGTATGGGA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
59 79 0.99
60 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTCTGTGTGCTAAAATGA
Found at i:1100671 original size:68 final size:68
Alignment explanation
Indices: 1100583--1101064 Score: 640
Period size: 68 Copynumber: 7.1 Consensus size: 68
1100573 AGTTAAAAGA
** * *
1100583 TTTGAGGCCTAACACTGCATATGACTGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1100648 TCC
66 GCC
* * * * *
1100651 TTTGGGGCCTAATTATGCATATGACTGAAAGGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1100716 GCC
66 GCC
* * * *
1100719 TTTGAGGTCTAAATGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1100784 GCC
66 GCC
* * * *
1100787 TTTAAGTCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1100852 GCA
66 GCC
* * * *
1100855 TTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTTATTTATGCAAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1100920 GCC
66 GCC
* * * * *
1100923 TTTGAGGCCTAACTGTGCATTTGACATAAAGATGTCATTTATGCGAGTTAGATGAAAGTCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1100988 GCC
66 GCC
* * * * * *
1100991 TTTGAGGCCTGACTATGCATATGACAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1101056 ACC
66 GCC
*
1101059 ATTGAG
1 TTTGAG
1101065 TAAAAGAATA
Statistics
Matches: 363, Mismatches: 51, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 363 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:1101136 original size:81 final size:81
Alignment explanation
Indices: 1101006--1101314 Score: 447
Period size: 81 Copynumber: 3.8 Consensus size: 81
1100996 GGCCTGACTA
* * *
1101006 TGCATATGACAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
1 TGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
*
1101071 AATAGTGGCCTAGCTG
66 AATAATGGCCTAGCTG
* ** * *
1101087 TGCATTTCATAGAAAGAAGTCAATTATGCCAGTTAGATGAACGGCTAAGTACCGTTGAGTAAAAG
1 TGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
1101152 AATAATGGCCTAGCTG
66 AATAATGGCCTAGCTG
* * * **
1101168 TGCATTTGACAGAAAGGTGTCAATTATGCAAGTTTGATGAAAAGTTAAGTACCATTGAGTAAAAG
1 TGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
1101233 AATAATGGCCTAGCTG
66 AATAATGGCCTAGCTG
* ** **
1101249 TGCATTTGATAGAAAGGTGTCAATTATGCCAGATAGATGAACGGTTAAACATTATTGAGTAAAAG
1 TGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
1101314 A
66 A
1101315 TGAACGGTAA
Statistics
Matches: 199, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 199 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (81 bp):
TGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAG
AATAATGGCCTAGCTG
Found at i:1101341 original size:29 final size:29
Alignment explanation
Indices: 1101283--1101343 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1101273 TATGCCAGAT
* * **
1101283 AGATGAACGGTTAAACATTATTGAGTAAA
1 AGATGAACGGTAAAACACTATTGAACAAA
*
1101312 AGATGAACGGTAAAACACTGTTGAACAAA
1 AGATGAACGGTAAAACACTATTGAACAAA
1101341 AGA
1 AGA
1101344 ATAATGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (29 bp):
AGATGAACGGTAAAACACTATTGAACAAA
Found at i:1108082 original size:12 final size:11
Alignment explanation
Indices: 1108044--1108094 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
1108034 TCTCCTTGAA
*
1108044 TCTTCTTCTTT
1 TCTTCTTCTTC
*
1108055 TCATTTTTCTTC
1 TC-TTCTTCTTC
1108067 -CTTCTTACTTC
1 TCTTCTT-CTTC
1108078 TCTTCTTCATTC
1 TCTTCTTC-TTC
1108090 TCTTC
1 TCTTC
1108095 CTTTCGAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.12
11 8 0.24
12 21 0.64
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:1111160 original size:20 final size:20
Alignment explanation
Indices: 1111135--1111204 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1111125 TATTGTTCAT
*
1111135 TACTATTCACACAGTATCAA
1 TACTATTCATACAGTATCAA
* **
1111155 TACTATTCATACAATATCGG
1 TACTATTCATACAGTATCAA
*
1111175 TACTATTCATACAGCA-CAA
1 TACTATTCATACAGTATCAA
*
1111194 TATTATTCATA
1 TACTATTCATA
1111205 AAAAAAATTG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 11 0.27
20 30 0.73
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (20 bp):
TACTATTCATACAGTATCAA
Found at i:1113938 original size:20 final size:20
Alignment explanation
Indices: 1113910--1113975 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
1113900 TACTGTTCAT
* *
1113910 TACTGTTCACACAGTATCAA
1 TACTATTCATACAGTATCAA
* *
1113930 TACTATTCATATAGTATCGA
1 TACTATTCATACAGTATCAA
*
1113950 TACTATTCATACAATA-CAA
1 TACTATTCATACAGTATCAA
1113969 TACTATT
1 TACTATT
1113976 TATAAACCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 9 0.23
20 30 0.77
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (20 bp):
TACTATTCATACAGTATCAA
Found at i:1115331 original size:15 final size:15
Alignment explanation
Indices: 1115311--1115341 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1115301 AATTACAACT
*
1115311 TTCCATTAGAATATC
1 TTCCATTAAAATATC
1115326 TTCCATTAAAATATC
1 TTCCATTAAAATATC
1115341 T
1 T
1115342 CATAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (15 bp):
TTCCATTAAAATATC
Found at i:1120109 original size:32 final size:32
Alignment explanation
Indices: 1120023--1120117 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
1120013 ATACTAGAAG
* *
1120023 AGTGTCACATTCAGATAATGCACAACAATGTT
1 AGTGTCACATTCAGATAATGCATAGCAATGTT
* *
1120055 AGTGTCGCATTCAGATAATGCATAGCAGTGTT
1 AGTGTCACATTCAGATAATGCATAGCAATGTT
* *
1120087 AGTGTCACGTTCAGATAATGCATAGAAATGT
1 AGTGTCACATTCAGATAATGCATAGCAATGT
1120118 GTCATGTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (32 bp):
AGTGTCACATTCAGATAATGCATAGCAATGTT
Found at i:1122615 original size:21 final size:20
Alignment explanation
Indices: 1122591--1122638 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1122581 AAATTCGCGT
*
1122591 TGCGATTTTAGAAAAATGCAA
1 TGCGATTAT-GAAAAATGCAA
* * *
1122612 TGCGAATATGTAAATTGCAA
1 TGCGATTATGAAAAATGCAA
1122632 TGCGATT
1 TGCGATT
1122639 CTAACTATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
TGCGATTATGAAAAATGCAA
Found at i:1122653 original size:20 final size:20
Alignment explanation
Indices: 1122628--1122733 Score: 124
Period size: 20 Copynumber: 5.2 Consensus size: 20
1122618 TATGTAAATT
*
1122628 GCAATGCGATTCTAACTATC
1 GCAACGCGATTCTAACTATC
* * **
1122648 GTAATGCGATAAT-ACATAATC
1 GCAACGCGATTCTAAC-T-ATC
*
1122669 GCAACGCGATTCTGACTATC
1 GCAACGCGATTCTAACTATC
1122689 GCAACGCGATTCTAACTATC
1 GCAACGCGATTCTAACTATC
*
1122709 GCAACGCGATTCTAACTTTC
1 GCAACGCGATTCTAACTATC
1122729 GCAAC
1 GCAAC
1122734 ACTAAATTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
GCAACGCGATTCTAACTATC
Found at i:1122678 original size:41 final size:40
Alignment explanation
Indices: 1122628--1122733 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 40
1122618 TATGTAAATT
* * *
1122628 GCAATGCGATTCTAACTATCGTAATGCGATAAT-ACATAATC
1 GCAACGCGATTCTAACTATCGCAACGCGATAATAAC-T-ATC
* **
1122669 GCAACGCGATTCTGACTATCGCAACGCGATTCTAACTATC
1 GCAACGCGATTCTAACTATCGCAACGCGATAATAACTATC
*
1122709 GCAACGCGATTCTAACTTTCGCAAC
1 GCAACGCGATTCTAACTATCGCAAC
1122734 ACTAAATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 26 0.46
41 28 0.50
42 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
GCAACGCGATTCTAACTATCGCAACGCGATAATAACTATC
Done.