Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 255 of 322
Found at i:84708637 original size:15 final size:15
Alignment explanation
Indices: 84708581--84708660 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
84708571 CAAAGATAAT
*
84708581 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
84708595 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
84708610 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
84708625 AAGAGATCCAGAATA
1 AAGAAATCCAGAATA
* *
84708640 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
84708655 AAGAAA
1 AAGAAA
84708661 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:84708669 original size:15 final size:15
Alignment explanation
Indices: 84708592--84708669 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
84708582 AGAAAACCGA
84708592 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
84708607 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
84708621 AATAAAGAGATCC-AG
1 -ATAAAGAAATCCAAG
* *
84708636 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
84708652 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
84708667 ATA
1 ATA
84708670 CAATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:84721435 original size:27 final size:27
Alignment explanation
Indices: 84721405--84721582 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
84721395 ATATTGAGTC
* *
84721405 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
84721432 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
84721459 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
84721487 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
84721514 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
84721541 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
84721568 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
84721583 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:84721544 original size:82 final size:81
Alignment explanation
Indices: 84721431--84721581 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
84721421 TATAATCAAC
* *
84721431 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
84721496 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
84721513 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
84721577 AGTGC
65 AGTGC
84721582 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:84723973 original size:85 final size:85
Alignment explanation
Indices: 84723829--84724022 Score: 262
Period size: 85 Copynumber: 2.3 Consensus size: 85
84723819 ATCTGTCTGA
* * * * *
84723829 GATATCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATACGACCATGTTT
1 GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
* * *
84723894 GGGATATTGCCATCGTATCT
66 GGGACATCGACATCGTATCT
**
84723914 GATATCGTGTAAGATTGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
1 GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
84723979 GGGACATCGACATCGTATCT
66 GGGACATCGACATCGTATCT
* ** *
84723999 GATTTCAAGTAAGACCCTGTCTGG
1 GATATCGTGTAAGACCGTGTCTGG
84724023 GACAGAGGCA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
GGGACATCGACATCGTATCT
Found at i:84724035 original size:42 final size:43
Alignment explanation
Indices: 84723966--84724067 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
84723956 GATTTACGTA
** *
84723966 TAAGACCATGTCTGGGACATCGACATCG-TATCTG-ATTTCAAG
1 TAAGACCATGTCTGGGACAGAGACATCGATAT-TGAATTACAAG
* * *
84724008 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGACATCGATATTGAATTACAAG
*
84724051 TAAGACCATGTCCGGGA
1 TAAGACCATGTCTGGGA
84724068 TGTCAACATT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGACATCGATATTGAATTACAAG
Found at i:84724037 original size:85 final size:85
Alignment explanation
Indices: 84723837--84724067 Score: 259
Period size: 85 Copynumber: 2.7 Consensus size: 85
84723827 GAGATATCGT
* * * * *
84723837 GTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATACGACCATGTTTGGGATATT
1 GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
* **
84723902 GCCATCGTATCTGATATCGT
66 GACATCGTATCTGATATCAA
** * *
84723922 GTAAGATTGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
1 GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
*
84723987 GACATCGTATCTGATTTCAA
66 GACATCGTATCTGATATCAA
* * * * * *
84724007 GTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGGGA
1 GTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATTTACGTATAAGACCATGTCTGGGA
84724068 TGTCAACATT
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
85 115 0.95
86 1 0.01
87 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
GACATCGTATCTGATATCAA
Found at i:84726544 original size:26 final size:26
Alignment explanation
Indices: 84726515--84726622 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84726505 TGGTACAAAT
84726515 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
84726541 TGATAATGGATTAGGTAAATTTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84726567 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84726593 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84726619 TGAT
1 TGAT
84726623 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84728252 original size:27 final size:27
Alignment explanation
Indices: 84728212--84728352 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
84728202 AGGAAGCGTC
*
84728212 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
84728239 CTGGTGGCTCTGCCAC-ATATAACTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
84728265 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
84728293 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
84728320 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
84728347 CTGGTG
1 CTGGTG
84728353 ACTTCGTCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:84728291 original size:54 final size:54
Alignment explanation
Indices: 84728209--84728352 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
84728199 TGGAGGAAGC
84728209 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
*
84728263 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
* *
84728317 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
84728353 ACTTCGTCAT
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
Found at i:84730184 original size:169 final size:169
Alignment explanation
Indices: 84729905--84730414 Score: 993
Period size: 169 Copynumber: 3.0 Consensus size: 169
84729895 AAAAGTTGAT
*
84729905 TAAATTGACTTAGGTTACCATGGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
1 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
84729970 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
66 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
84730035 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
131 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
84730074 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
1 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
84730139 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
66 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
84730204 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
131 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
84730243 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
1 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
*
84730308 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTCAACCAAACAATTA
66 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
*
84730373 AATTTAATGCTTGGATTCCAACAAAATTTTGACACAAAC
131 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
84730412 TAA
1 TAA
84730415 GAATATATTA
Statistics
Matches: 338, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 338 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (169 bp):
TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
Found at i:84737631 original size:19 final size:19
Alignment explanation
Indices: 84737607--84737643 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84737597 GGATTCTGCA
84737607 TATCTGAAACTAAATCTGT
1 TATCTGAAACTAAATCTGT
* *
84737626 TATCTGAATCTGAATCTG
1 TATCTGAAACTAAATCTG
84737644 AAACTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
TATCTGAAACTAAATCTGT
Found at i:84737643 original size:31 final size:30
Alignment explanation
Indices: 84737608--84737666 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
84737598 GATTCTGCAT
*
84737608 ATCTGAAACTAAATCTGTTATCTGAATCTGA
1 ATCTGAAACTAAATATG-TATCTGAATCTGA
* *
84737639 ATCTGAAACTGAATATGTATCTGTATCT
1 ATCTGAAACTAAATATGTATCTGAATCT
84737667 AACTATGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCTGAAACTAAATATGTATCTGAATCTGA
Found at i:84739983 original size:20 final size:21
Alignment explanation
Indices: 84739936--84739983 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
84739926 TTGGTCCTTC
* *
84739936 TATTAAAAATTTCATCCATTTT
1 TATT-AAAATTTCATCCATGTA
*
84739958 TTTTAAAATTT-ATCCATGTA
1 TATTAAAATTTCATCCATGTA
84739978 TATTAA
1 TATTAA
84739984 CATAAGGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
21 7 0.32
22 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTAAAATTTCATCCATGTA
Found at i:84743402 original size:16 final size:16
Alignment explanation
Indices: 84743351--84743410 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
84743341 AAAAAGAAGA
* *
84743351 TTTCTATTTTCCATCT
1 TTTCAATTTTCTATCT
* * *
84743367 TTTCACTTTTCTACCC
1 TTTCAATTTTCTATCT
*
84743383 TTTCAATTTTTTATCT
1 TTTCAATTTTCTATCT
*
84743399 TTTCAAGTTTCT
1 TTTCAATTTTCT
84743411 TTCCACTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.15, C:0.23, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCAATTTTCTATCT
Found at i:84754577 original size:17 final size:17
Alignment explanation
Indices: 84754555--84754593 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
84754545 TAGTAATTTA
*
84754555 GAAGCTCAAAGTGGTTG
1 GAAGCTCAAAGTGGCTG
**
84754572 GAAGCTGGAAGTGGCTG
1 GAAGCTCAAAGTGGCTG
84754589 GAAGC
1 GAAGC
84754594 CGGTCGGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.41, T:0.18
Consensus pattern (17 bp):
GAAGCTCAAAGTGGCTG
Found at i:84760853 original size:23 final size:23
Alignment explanation
Indices: 84760812--84760856 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84760802 ATTTTATTTT
*
84760812 TATTTAATTTTTCTGTTTTTTAA
1 TATTTAATTTATCTGTTTTTTAA
84760835 TATTTAAATTTATCT-TTTTTTA
1 TATTT-AATTTATCTGTTTTTTA
84760857 TCAAATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTAATTTATCTGTTTTTTAA
Found at i:84762340 original size:19 final size:19
Alignment explanation
Indices: 84762312--84762372 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
84762302 ATTAAATTAT
*
84762312 AAAATTTTAAAAAATATAA
1 AAAATGTTAAAAAATATAA
*
84762331 AAAATGTT-AAAATTATTAA
1 AAAATGTTAAAAAATA-TAA
* *
84762350 AAAAAGTATAAACAATATAA
1 AAAATGT-TAAAAAATATAA
84762370 AAA
1 AAA
84762373 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.18
19 16 0.47
20 7 0.21
21 5 0.15
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATGTTAAAAAATATAA
Found at i:84762342 original size:18 final size:19
Alignment explanation
Indices: 84762321--84762372 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
84762311 TAAAATTTTA
*
84762321 AAAAATATAAAAAATGT-T
1 AAAAATATAAAAAAAGTAT
*
84762339 AAAATTATTAAAAAAAGTAT
1 AAAAATA-TAAAAAAAGTAT
84762359 AAACAATATAAAAA
1 AAA-AATATAAAAA
84762373 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.21
19 9 0.32
20 10 0.36
21 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAAAAGTAT
Found at i:84768248 original size:43 final size:43
Alignment explanation
Indices: 84768182--84768340 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
84768172 AGCTCGTACC
* * * *
84768182 ATGCCAATGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGATGTGGTCTTACACGTAATCAAATATCG
* *
84768225 ATGCCACTGTCTCAGATAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGAT-GTGGTCTTACACGTAATCAAATATCG
*
84768267 ATGCCAAC-GTCCCAGATGTGGTCTTACACGTAAGTCATAA-GTCG
1 ATGCC-ACTGTCCCAGATGTGGTCTTACACGTAA-TCA-AATATCG
* * *
84768311 ATGCCAATGTCCCAGACGTGATCTTACACG
1 ATGCCACTGTCCCAGATGTGGTCTTACACG
84768341 AAAACACATA
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 38 0.39
44 30 0.31
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGATGTGGTCTTACACGTAATCAAATATCG
Found at i:84768325 original size:44 final size:41
Alignment explanation
Indices: 84768182--84768340 Score: 167
Period size: 44 Copynumber: 3.7 Consensus size: 41
84768172 AGCTCGTACC
* *
84768182 ATGCCAATGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATC-AA-ATCG
* * * *
84768225 ATGCCACTGTCTCAGATAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGTAATCAAAT-CG
* *
84768267 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAGTCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAA-TCA-AA-TCG
*
84768311 ATGCCAATGTCCCAGACGTGATCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
84768341 AAAACACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 30 0.31
43 30 0.31
44 32 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATCG
Found at i:84777722 original size:32 final size:35
Alignment explanation
Indices: 84777647--84777712 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 35
84777637 ACCAATTCTA
*
84777647 TATATAACATATACCAAATCATATCATTTCATAAGT
1 TATA-AACATATACCAAAACATATCATTTCATAAGT
84777683 TATAAACATA-A-CAAAACATAT-ATTTCATAA
1 TATAAACATATACCAAAACATATCATTTCATAA
84777713 TCTCAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 9 0.31
33 9 0.31
34 1 0.03
35 6 0.21
36 4 0.14
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (35 bp):
TATAAACATATACCAAAACATATCATTTCATAAGT
Found at i:84778890 original size:27 final size:27
Alignment explanation
Indices: 84778852--84779019 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
84778842 TAAGTTGTAG
* * *
84778852 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTATAA
*
84778879 AATTACCAAAATACCC-CTGGTTTATAA
1 AATTACCAAAATACCCTC-GATTTATAA
* *
84778906 AATTACCAAAAAACCC-CTGATTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAA
* **
84778933 AATTACTAAAATACCCTCGACCTATAA
1 AATTACCAAAATACCCTCGATTTATAA
** *
84778960 AATTACTGAAATACCCTCGACTTATAA
1 AATTACCAAAATACCCTCGATTTATAA
* * *
84778987 GATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTATAA
84779014 AATTAC
1 AATTAC
84779020 TGTTTTACCC
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 119 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTATAA
Found at i:84779009 original size:81 final size:81
Alignment explanation
Indices: 84778846--84778996 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
84778836 AGTGGATAAG
* * *** **
84778846 TTGTAGAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTA
1 TTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCTGACTTATAAAATTA
84778911 CCAAAAAACCCCTGAT
66 CCAAAAAACCCCTGAT
** *
84778927 TTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACTGAAATA-CCCTCGACTTATAAGATT
1 TTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCT-GACTTATAAAATT
84778991 ACCAAA
65 ACCAAA
84778997 GTACCCTCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.07
81 55 0.93
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TTGTAAAATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCTGACTTATAAAATTA
CCAAAAAACCCCTGAT
Found at i:84779016 original size:81 final size:81
Alignment explanation
Indices: 84778852--84779020 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
84778842 TAAGTTGTAG
* *** **
84778852 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAA
1 AATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCTGACTTATAAAATTACCAAAA
**
84778917 AACCCCTGATTTGTAA
66 AACCCCTGATTTACAA
** *
84778933 AATTACTAAAATACCCTCGACCTATAAAATTACTGAAATA-CCCTCGACTTATAAGATTACCAAA
1 AATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCT-GACTTATAAAATTACCAAA
**
84778997 GTA-CCCTCGATTTACAA
65 AAACCCCT-GATTTACAA
84779014 AATTACT
1 AATTACT
84779021 GTTTTACCCT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
80 8 0.11
81 65 0.89
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (81 bp):
AATTACTAAAATACCCTCGACCTATAAAATTACCAAAATACCCCTGACTTATAAAATTACCAAAA
AACCCCTGATTTACAA
Found at i:84779055 original size:27 final size:28
Alignment explanation
Indices: 84778931--84779057 Score: 120
Period size: 27 Copynumber: 4.7 Consensus size: 28
84778921 CCTGATTTGT
* *
84778931 AAAATTACTA-AAATACCCTCGACCTAT
1 AAAATTACTAGAAATACCCTCGACTTAC
*
84778958 AAAATTACT-GAAATACCCTCGACTTAT
1 AAAATTACTAGAAATACCCTCGACTTAC
* * * *
84778985 AAGATTACCA-AAGTACCCTCGATTTAC
1 AAAATTACTAGAAATACCCTCGACTTAC
*** *
84779012 AAAATTACT-GTTTTACCCTCGATTTAC
1 AAAATTACTAGAAATACCCTCGACTTAC
84779039 AAAATTA-TAGAAATACCCT
1 AAAATTACTAGAAATACCCT
84779058 TGTAAGGTAG
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 81 0.99
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATTACTAGAAATACCCTCGACTTAC
Found at i:84779056 original size:54 final size:54
Alignment explanation
Indices: 84778931--84779057 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 54
84778921 CCTGATTTGT
* *
84778931 AAAATTACTAAAATACCCTCGACCTATAAAATTACTGAAATACCCTCGACTTAT
1 AAAATTACTAAAATACCCTCGACCTACAAAATTACTGAAATACCCTCGACTTAC
* * * ** *** *
84778985 AAGATTACCAAAGTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGACCTACAAAATTACTGAAATACCCTCGACTTAC
84779039 AAAATTA-TAGAAATACCCT
1 AAAATTACTA-AAATACCCT
84779058 TGTAAGGTAG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGACCTACAAAATTACTGAAATACCCTCGACTTAC
Found at i:84779125 original size:27 final size:27
Alignment explanation
Indices: 84779048--84779128 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
84779038 CAAAATTATA
* *
84779048 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
84779075 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
84779102 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
84779129 ATTTTTCCCC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:84781116 original size:43 final size:42
Alignment explanation
Indices: 84781046--84781206 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 42
84781036 GAAAAGCTCG
* * *
84781046 TACGATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAA
1 TACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAA
***
84781088 TATCGATGCCATTGTCCCAGACAG-GGTCTTACATGAAATCAAA
1 TA-CGATGCCAACATCCCAGAC-GTGGTCTTACATGAAATCAAA
84781131 TACGATGCCAACATCCCAGACGTGGTCTTACACAT-AAATCATAA
1 TACGATGCCAACATCCCAGACGTGGTCTT--ACATGAAATCA-AA
*
84781175 GT-TGATGCCAACATCCCAGACGTGGTCTTACA
1 -TACGATGCCAACATCCCAGACGTGGTCTTACA
84781207 CGATAACACA
Statistics
Matches: 104, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 42 0.40
44 33 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAA
Found at i:84794306 original size:16 final size:16
Alignment explanation
Indices: 84794285--84794316 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84794275 CATGCATTGA
*
84794285 ACATAATGAACATAAT
1 ACATAATCAACATAAT
84794301 ACATAATCAACATAAT
1 ACATAATCAACATAAT
84794317 CTTGCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATAATCAACATAAT
Found at i:84796392 original size:91 final size:92
Alignment explanation
Indices: 84796281--84796471 Score: 350
Period size: 91 Copynumber: 2.1 Consensus size: 92
84796271 TTGTACGTGA
84796281 ATTAGG-ATATGAAATAAATAATTCGTGTATATGATTGATAGTCTAATGGTCACTTTGGGTTTAA
1 ATTAGGTATATGAAATAAATAATTCGTGTATATGATTGATAGTCTAATGGTCACTTTGGGTTTAA
*
84796345 GCTTGAATGGTGAAATGAATATGTAAT
66 GCTTGAATGCTGAAATGAATATGTAAT
*
84796372 ATTAGGTA-ATGAAATAAATAATTCGTGTCTATGATTGATAGTCTAATGGTCACTTTGGGTTTAA
1 ATTAGGTATATGAAATAAATAATTCGTGTATATGATTGATAGTCTAATGGTCACTTTGGGTTTAA
84796436 GCTTGAATGCTGAAATGAATATGTAAT
66 GCTTGAATGCTGAAATGAATATGTAAT
84796463 ATTAGGTAT
1 ATTAGGTAT
84796472 GACTCTTGAG
Statistics
Matches: 96, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
91 95 0.99
92 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (92 bp):
ATTAGGTATATGAAATAAATAATTCGTGTATATGATTGATAGTCTAATGGTCACTTTGGGTTTAA
GCTTGAATGCTGAAATGAATATGTAAT
Found at i:84796653 original size:39 final size:39
Alignment explanation
Indices: 84796596--84796686 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
84796586 GCATGATACT
* *
84796596 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCAGACTTGAGGTCCGCAGGCTACATGC
*
84796635 TGGAAACATATCCAGACTTGAGGTCCGCAGGCTATATGC
1 TGGAAACATATCCAGACTTGAGGTCCGCAGGCTACATGC
* *
84796674 CGGAAATATATCC
1 TGGAAACATATCC
84796687 GGGCTTAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCAGACTTGAGGTCCGCAGGCTACATGC
Found at i:84804577 original size:39 final size:39
Alignment explanation
Indices: 84804518--84804629 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
84804508 GCATGATACT
* *
84804518 TGGAAACGTATCCGGACTTGAGGTCCGCAGCCTACGTGC
1 TGGAAACATATCCGGGCTTGAGGTCCGCAGCCTACGTGC
* * *
84804557 TGGAAACATATCTGGGCTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGGCTTGAGGTCCGCAGCCTACGTGC
* * *
84804596 TGGAAATATATCCGGGCTTAAAGTCCCGCAGCCT
1 TGGAAACATATCCGGGCTTGAGGT-CCGCAGCCT
84804630 TTATGCTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 54 0.87
40 8 0.13
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGGCTTGAGGTCCGCAGCCTACGTGC
Found at i:84808204 original size:38 final size:38
Alignment explanation
Indices: 84808062--84808204 Score: 198
Period size: 38 Copynumber: 3.8 Consensus size: 38
84808052 AATCGTACTG
* *
84808062 TTATTCAGGCTTAGTGCCTTA-CAGGTTTAGTGTCAGTG
1 TTATTCAGGCTTAGTGCC-TAGCAGGCTTAGTGTCAGTA
* *
84808100 TTATTCAGGCTTAGTGCCTAGCAGACTTTGTGTCAGTA
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTA
* *
84808138 TTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGTCAGTA
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTA
* *
84808176 TTATTTAGGCTTAGTGCCTAGTAGGCTTA
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTA
84808205 TTTCCTGTGT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 2 0.02
38 90 0.98
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.38
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTA
Found at i:84808218 original size:38 final size:37
Alignment explanation
Indices: 84808062--84808226 Score: 154
Period size: 38 Copynumber: 4.4 Consensus size: 37
84808052 AATCGTACTG
* * *
84808062 TTATTCAGGCTTAGTGCCTTA-CAGGTTTAGTGTCAGTG
1 TTATTCAGGCTTAGTGCC-TAGCAGGCTTA-TTTCAGTA
*
84808100 TTATTCAGGCTTAGTGCCTAGCAGACTT-TGTGTCAGTA
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAT-T-TCAGTA
* * *
84808138 TTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGTCAGTA
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTA-TTTCAGTA
* * * *
84808176 TTATTTAGGCTTAGTGCCTAGTAGGCTTATTTCCTGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTATTT-CAGTA
*
84808214 TTATTTAGGCTTA
1 TTATTCAGGCTTA
84808227 TAGATGGTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 100 0.94
40 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (37 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTATTTCAGTA
Found at i:84810864 original size:30 final size:30
Alignment explanation
Indices: 84810824--84810891 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
84810814 TCAAACTTCA
*
84810824 TATACTTAGTATCAATTACCACATAGGTAC
1 TATACGTAGTATCAATTACCACATAGGTAC
84810854 TATACGTAGTATCAATTACCACATAGGTAC
1 TATACGTAGTATCAATTACCACATAGGTAC
84810884 TATACGTA
1 TATACGTA
84810892 CTTGTACTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (30 bp):
TATACGTAGTATCAATTACCACATAGGTAC
Found at i:84813939 original size:31 final size:31
Alignment explanation
Indices: 84813898--84813960 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
84813888 CCCCTCGTAC
84813898 GTTCGCACGCTCATGAAGCCCTGAATGCCGA
1 GTTCGCACGCTCATGAAGCCCTGAATGCCGA
*
84813929 GTTCGTACGCTCATGAAGCCCTGAATGCCGA
1 GTTCGCACGCTCATGAAGCCCTGAATGCCGA
84813960 G
1 G
84813961 GTTTCGGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (31 bp):
GTTCGCACGCTCATGAAGCCCTGAATGCCGA
Found at i:84840029 original size:46 final size:46
Alignment explanation
Indices: 84839961--84840051 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
84839951 TATATATACA
* * *
84839961 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
84840007 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
84840052 ATACACATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:84840094 original size:22 final size:22
Alignment explanation
Indices: 84840068--84840190 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
84840058 ATCCACGTTC
84840068 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
84840090 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
84840115 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
**
84840137 ATCACATATACCCATGT-T-CACATT
1 ATCACAT-TGGCCAT-TCTGC-C-TT
*
84840161 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
84840184 ATCACAT
1 ATCACAT
84840191 ATACCCATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
22 25 0.33
23 17 0.22
24 16 0.21
25 18 0.24
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:84840096 original size:47 final size:47
Alignment explanation
Indices: 84840031--84840208 Score: 221
Period size: 47 Copynumber: 3.8 Consensus size: 47
84840021 TTCGCATTAA
* ** ** * *
84840031 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * *
84840078 CCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
**
84840125 CCATTCGGCCTTATCACATATACCCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
**
84840172 CCATTCGGCCTTATCACATATACCCATGTTCACATTC
1 CCATTCGGCCTTATCACATATATACATGTTCACATTC
84840209 CTTATCCCAT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
Found at i:84840219 original size:28 final size:28
Alignment explanation
Indices: 84840180--84840236 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
84840170 GGCCATTCGG
*
84840180 CCTTATCACATATACCCATGTTCACATT
1 CCTTATCACATATACACATGTTCACATT
*
84840208 CCTTATCCCATATACACATGTTCACATT
1 CCTTATCACATATACACATGTTCACATT
84840236 C
1 C
84840237 ATCACATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (28 bp):
CCTTATCACATATACACATGTTCACATT
Found at i:84840228 original size:75 final size:75
Alignment explanation
Indices: 84840133--84841129 Score: 298
Period size: 69 Copynumber: 14.0 Consensus size: 75
84840123 GGCCATTCGG
*
84840133 CCTTATCACATATACCCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840198 TGTTCACATT
66 TGTTCACATT
* **
84840208 CCTTATCCCATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
*
84840273 TGTTCATATT
66 TGTTCACATT
* * * * *
84840283 -C-T-TCACAT-TGGC-CA--TTCGGCCTT-ATCACACATAT-G-CATGTTC-ACATTCATCACA
1 CCTTATCACATAT-ACACATGTTC-ACATTCAT--CACAT-TGGCCA--TTCGGCCTT-ATCACA
** **
84840337 T-TGGCCA--TT--C-GG
58 TATACCCATGTTCACATT
*
84840349 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840414 TGTTCACATT
66 TGTTCACATT
* * * * * *
84840424 -C--ATCACAT-TGGC-CA--TTCGGCCTT-ATCACATAT-ACACATGTTC-ACATTCATCACAT
1 CCTTATCACATAT-ACACATGTTC-ACATTCATCACAT-TGGC-CA--TTCGGCCTT-ATCACAT
** **
84840479 -TGGCCA--TT--C-GG
59 ATACCCATGTTCACATT
*
84840490 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840555 TGTTCACATT
66 TGTTCACATT
* * * * * *
84840565 -C--ATCACAT-TGGC-CA--TTCGGCCTT-ATCACATAT-ACACATGTTC-ACATTCATCACAT
1 CCTTATCACATAT-ACACATGTTC-ACATTCATCACAT-TGGC-CA--TTCGGCCTT-ATCACAT
** **
84840620 -TGGCCA--TT--C-GG
59 ATACCCATGTTCACATT
*
84840631 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840696 TGTTCACATT
66 TGTTCACATT
* * * * * *
84840706 -C--ATCACAT-TGGC-CA--TTCGGCCTT-ATCACATAT-ACACATGTTC-ACATTCATCACAT
1 CCTTATCACATAT-ACACATGTTC-ACATTCATCACAT-TGGC-CA--TTCGGCCTT-ATCACAT
** **
84840761 -TGGCCA--TT--C-GG
59 ATACCCATGTTCACATT
*
84840772 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840837 TGTTCACATT
66 TGTTCACATT
* * * * * *
84840847 -C--ATCACAT-TGGC-CA--TTCGGCCTT-ATCACATAT-ACACATGTTC-ACATTCATCACAT
1 CCTTATCACATAT-ACACATGTTC-ACATTCATCACAT-TGGC-CA--TTCGGCCTT-ATCACAT
** **
84840902 -TGGCCA--TT--C-GG
59 ATACCCATGTTCACATT
*
84840913 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84840978 TGTTCACATT
66 TGTTCACATT
* * * * * *
84840988 -C--ATCACAT-TGGC-CA--TTCGGCCTT-ATCACATAT-ACACATGTTC-ACATTCATCACAT
1 CCTTATCACATAT-ACACATGTTC-ACATTCATCACAT-TGGC-CA--TTCGGCCTT-ATCACAT
** **
84841043 -TGGCCA--TT--C-GG
59 ATACCCATGTTCACATT
*
84841054 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
84841119 TGTTCACATT
66 TGTTCACATT
84841129 C
1 C
84841130 ATCACATTGG
Statistics
Matches: 645, Mismatches: 137, Indels: 280
0.61 0.13 0.26
Matches are distributed among these distances:
67 11 0.02
68 1 0.00
69 180 0.28
70 95 0.15
71 95 0.15
72 179 0.28
73 1 0.00
74 12 0.02
75 71 0.11
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (75 bp):
CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCA
TGTTCACATT
Found at i:84840267 original size:47 final size:47
Alignment explanation
Indices: 84840208--84841418 Score: 2057
Period size: 47 Copynumber: 25.8 Consensus size: 47
84840198 TGTTCACATT
*
84840208 CCTTATCCCATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
** * *
84840255 CCTTATCACATATATGCATGTTCATATTCTTCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
* **
84840302 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840349 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840396 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840443 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840490 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840537 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840584 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840631 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840678 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840725 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840772 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840819 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840866 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840913 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84840960 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84841007 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84841054 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
84841101 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
** *
84841148 CCTTATCACATATATGCATGTTCATATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
* *
84841195 CCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
* * * ** ** *
84841242 TCTTATCACACAAATGCATGTTCACATTCATCACATTTTCCATTCGA
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
* * * *** *
84841289 CCTTAGCACACAAATGTATGTTCACATTCATCACATTTGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
* * * ** *
84841336 CCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGG
1 CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
** *
84841383 CCTTAGCTCATGTATACACA--TTCACATCCATCACAT
1 CCTTA--TCACATATACACATGTTCACATTCATCACAT
84841419 AAAATCCTAA
Statistics
Matches: 1125, Mismatches: 37, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
47 1119 0.99
49 6 0.01
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
CCTTATCACATATACACATGTTCACATTCATCACATTGGCCATTCGG
Found at i:84840303 original size:122 final size:122
Alignment explanation
Indices: 84840102--84840330 Score: 386
Period size: 122 Copynumber: 1.9 Consensus size: 122
84840092 CACATGTATG
*
84840102 CATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATACCCATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCATGTTCACATTCATCAC
*
84840167 ATTGGCCATTCGGCCTTATCACATATACCCATGTTCACATTCCTTATCCCATATACA
66 ATTGGCCATTCGGCCTTATCACACATACCCATGTTCACATTCCTTATCCCATATACA
** * *
84840224 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCTTCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCATGTTCACATTCATCAC
**
84840289 ATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
66 ATTGGCCATTCGGCCTTATCACACATACCCATGTTCACATTC
84840331 ATCACATTGG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 99 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (122 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACCCATGTTCACATTCATCAC
ATTGGCCATTCGGCCTTATCACACATACCCATGTTCACATTCCTTATCCCATATACA
Found at i:84847146 original size:24 final size:24
Alignment explanation
Indices: 84847118--84847166 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
84847108 CCCGAAAAGG
84847118 TAACAACATCAAATCAGCAGGGCA
1 TAACAACATCAAATCAGCAGGGCA
*
84847142 TAACAACATTAAATCAGCAGGGCA
1 TAACAACATCAAATCAGCAGGGCA
84847166 T
1 T
84847167 TCATAGCCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.16
Consensus pattern (24 bp):
TAACAACATCAAATCAGCAGGGCA
Found at i:84853440 original size:45 final size:46
Alignment explanation
Indices: 84853376--84853560 Score: 200
Period size: 45 Copynumber: 4.0 Consensus size: 46
84853366 CATGTCGGTG
84853376 TTGATTGTGAGACAGTGTAAGACCATGT-T-GGACATGGCATCGGCA
1 TTGATTGTGAG-CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
* *
84853421 TTGATTGTGAGTCAGTGTAAGACCATGT-T-GGACATGGCATTGACA
1 TTGATTGTGAG-CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
* *
84853466 TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
1 TTGAT-TGTGAGC-AGTGTAAGACCATGTCTAGGACATGGCATCGG-CA
* * * *
84853515 -TAACATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGAATCGGC
1 TTGA-TTGTGAG-CAGTGTAAGACCATGTCTAGGACATGGCATCGGC
84853561 CATTCACCCT
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
45 48 0.40
46 20 0.17
47 2 0.02
48 48 0.40
49 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
TTGATTGTGAGCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
Found at i:84853532 original size:48 final size:46
Alignment explanation
Indices: 84853376--84853564 Score: 204
Period size: 48 Copynumber: 4.0 Consensus size: 46
84853366 CATGTCGGTG
* *
84853376 TTGATTGTGAGACAGTGTAAGACCATGTTGGACATGGCATCGG-CA
1 TTGAATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCA
* * * *
84853421 TTGATTGTGAGTCAGTGTAAGACCATGTTGGACATGGCAT-TGACA
1 TTGAATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCA
* *
84853466 TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
1 TTGA-ATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCA
* * *
84853515 -TAACATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGAATCGGCCA
1 TTGA-ATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCA
84853563 TT
1 TT
84853565 CACCCTCTTG
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 45 0.37
46 20 0.16
47 1 0.01
48 52 0.42
49 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (46 bp):
TTGAATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCA
Found at i:84856636 original size:39 final size:39
Alignment explanation
Indices: 84856537--84856770 Score: 182
Period size: 39 Copynumber: 6.0 Consensus size: 39
84856527 ATTTTCAATA
* * * *
84856537 CACCGACACATAG-CTGCTAGGCATAAAGCCTAAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
* * * * * ** *
84856575 AATCAGCATATAGCCTATTAGGCACAAAGCCTAAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
* *
84856614 CACCGGCACACAACCTGCTAGGCACATAGCCCAAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
*** ** **
84856653 CACCTATATGCAGCCTGCTAGGCACATAGCCCGGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAG-CCTAAATAAT
* * * **
84856693 CATCGGCACACAGCCTTCTAGGCACACAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
* * * *
84856732 CACCTGCACACTGCCTGCTTGGCACATAGCCTGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
84856771 ATCCGTGTTT
Statistics
Matches: 152, Mismatches: 42, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
38 8 0.05
39 115 0.76
40 29 0.19
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (39 bp):
CACCGGCACACAGCCTGCTAGGCACATAGCCTAAATAAT
Found at i:84856748 original size:79 final size:78
Alignment explanation
Indices: 84856593--84856770 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 78
84856583 TATAGCCTAT
* ** *
84856593 TAGGCACAAAGCCTAAATAATCACCGGCACACAACCTGCTAGGCACATAGCCCAAATAATCACCT
1 TAGGCACATAGCCGGAATAATCACCGGCACACAACCTGCTAGGCACACAGCCCAAATAATCACCT
* **
84856658 ATATGCAGCCTGC
66 ACACACAGCCTGC
* * * *
84856671 TAGGCACATAGCCCGGAATAATCATCGGCACACAGCCTTCTAGGCACACAGCCCGAATAATCACC
1 TAGGCACATAG-CCGGAATAATCACCGGCACACAACCTGCTAGGCACACAGCCCAAATAATCACC
* *
84856736 TGCACACTGCCTGC
65 TACACACAGCCTGC
* *
84856750 TTGGCACATAGCCTGAATAAT
1 TAGGCACATAGCCGGAATAAT
84856771 ATCCGTGTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 19 0.23
79 65 0.77
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (78 bp):
TAGGCACATAGCCGGAATAATCACCGGCACACAACCTGCTAGGCACACAGCCCAAATAATCACCT
ACACACAGCCTGC
Found at i:84856898 original size:36 final size:36
Alignment explanation
Indices: 84856858--84856929 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
84856848 AATAAGATTA
84856858 ATAGTAACCATATAACAAACTTACCTAGATTGAATC
1 ATAGTAACCATATAACAAACTTACCTAGATTGAATC
* *
84856894 ATAGTAACCATATAACGAACTTACCTGGATTGAATC
1 ATAGTAACCATATAACAAACTTACCTAGATTGAATC
84856930 GTAGAAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAGTAACCATATAACAAACTTACCTAGATTGAATC
Found at i:84860222 original size:42 final size:42
Alignment explanation
Indices: 84860174--84860290 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 42
84860164 TTTAGTATTG
*
84860174 ATGCCTATGTCCCAGACAGGGTCTTACACGAAA-TCAAATACA
1 ATGCCTATGTCCCAGACACGGTCTTACACGAAACTCAAAT-CA
* * * *
84860216 ATGCCTATGTCTCAAACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCTATGTCCCAGACACGGTCTTACACG-AAA-CTCAAATCA
* * *
84860260 AGGCCTGTATCCCAGACACGGTCTTACACGA
1 ATGCCTATGTCCCAGACACGGTCTTACACGA
84860291 TATCTCAGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.44
43 4 0.06
44 25 0.40
45 6 0.10
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACACGGTCTTACACGAAACTCAAATCA
Found at i:84864365 original size:22 final size:22
Alignment explanation
Indices: 84864339--84864396 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
84864329 TGTTTATAGC
*
84864339 TTATGAAATGATATA-ATTTGG
1 TTATGAAATGATATAGAATTGG
*
84864360 TATATGATATG-TATAGAATTGG
1 T-TATGAAATGATATAGAATTGG
*
84864382 TT-GGAAATGATATAG
1 TTATGAAATGATATAG
84864397 CATGATTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.17
21 11 0.37
22 14 0.47
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (22 bp):
TTATGAAATGATATAGAATTGG
Found at i:84873530 original size:48 final size:47
Alignment explanation
Indices: 84873478--84873846 Score: 195
Period size: 48 Copynumber: 7.8 Consensus size: 47
84873468 GCCACATTAT
84873478 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
** * * * * *
84873525 CGAGAGCTTGTGTAAGA-TATGTTTAGGACAT-GCATCGGCCTCGAGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * *
84873571 TCTA-AGCTAATGTAAGA-CATGTTTGGGACAT-GCATTGGC--T-ACGA
1 --GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
* * * *
84873615 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCTTCGACACGTAT-AGA
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGA
* * * ** *
84873665 G-GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GA
* * * * * **
84873714 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
* * * * * *
84873763 GATAGTCAATGTAAGACCATGTTTGGGACATGGCATCGAC-TTAATG-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
*
84873809 GATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
84873847 AGTGTTATAC
Statistics
Matches: 252, Mismatches: 51, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.04
45 13 0.05
46 50 0.20
47 46 0.18
48 56 0.22
49 36 0.14
50 36 0.14
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:84873734 original size:98 final size:96
Alignment explanation
Indices: 84873622--84873848 Score: 264
Period size: 96 Copynumber: 2.3 Consensus size: 96
84873612 CGAGATGTGT
* *
84873622 CAGTGTAAGACCATGTCTGGGACATGGCTTC-GACACG-TATAGAGGT-GTCAGTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCGTCAGACACGATATAGA--TAGTCAATGTAAGACCAT
84873684 GTCTGGGACATGGCATCGACACGGATATGTGA-GAGC
64 GTCTGGGACATGGCATCG--ACGGA-ATG-GATGAGC
* * * * *
84873720 TAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATAGTCAATGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCGTCAGACACGATATAGATAGTCAATGTAAGACCATGT
* **
84873785 TTGGGACATGGCATCGACTTAATGGATGAGC
66 CTGGGACATGGCATCGACGGAATGGATGAGC
* *
84873816 CAGTGTAAGACCATGTTTGGGACATGGCATCAG
1 CAGTGTAAGACCATGTCTGGGACATGGCGTCAG
84873849 TGTTATACCC
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
95 2 0.02
96 37 0.33
97 3 0.03
98 30 0.27
99 36 0.32
100 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
CAGTGTAAGACCATGTCTGGGACATGGCGTCAGACACGATATAGATAGTCAATGTAAGACCATGT
CTGGGACATGGCATCGACGGAATGGATGAGC
Found at i:84873795 original size:49 final size:48
Alignment explanation
Indices: 84873673--84873848 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 48
84873663 GAGGTGTCAG
* * * * *
84873673 TGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGA-GAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATC-AGACTGA-ATG-GATGAGCCAA
* * * * * *
84873723 TGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGAT-AGTCAA
1 TGTAAGACCATGTTTGGGACATGGCATCAGACT-GA-ATGGATGAGCCAA
* *
84873772 TGTAAGACCATGTTTGGGACATGGCATC-GACTTAATGGATGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCAGACTGAATGGATGAGCCAA
84873819 TGTAAGACCATGTTTGGGACATGGCATCAG
1 TGTAAGACCATGTTTGGGACATGGCATCAG
84873849 TGTTATACCC
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 4 0.04
47 33 0.31
48 4 0.04
49 33 0.31
50 31 0.30
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGGACATGGCATCAGACTGAATGGATGAGCCAA
Found at i:84881140 original size:50 final size:50
Alignment explanation
Indices: 84881065--84881164 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
84881055 TGTAAATGGG
*
84881065 CCTATGGAGGGCCCATGTGTTGGCCAAAACCCGGTGGAGTTTTTGAATTT
1 CCTATCGAGGGCCCATGTGTTGGCCAAAACCCGGTGGAGTTTTTGAATTT
*
84881115 CCTATCGAGGGCCCATGTGTTGGCCAAACCCCGGTGGAGTTTTTGAATTT
1 CCTATCGAGGGCCCATGTGTTGGCCAAAACCCGGTGGAGTTTTTGAATTT
84881165 TGGACTTAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (50 bp):
CCTATCGAGGGCCCATGTGTTGGCCAAAACCCGGTGGAGTTTTTGAATTT
Found at i:84883627 original size:40 final size:40
Alignment explanation
Indices: 84883574--84883738 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
84883564 CATTTCCAAA
*
84883574 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAA
1 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
* *
84883614 CCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAG
1 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
* *
84883653 CCC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAG
1 CCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAG
* * * *
84883693 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAG
1 CCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAG
84883733 CCCGGA
1 CCCGGA
84883739 CATCATTCGA
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.04
39 28 0.27
40 59 0.56
41 14 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
Found at i:84883679 original size:39 final size:40
Alignment explanation
Indices: 84883582--84883685 Score: 156
Period size: 39 Copynumber: 2.6 Consensus size: 40
84883572 AACCCGGATA
* *
84883582 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
* *
84883622 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
*
84883661 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
84883686 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
Found at i:84883722 original size:79 final size:80
Alignment explanation
Indices: 84883582--84883736 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
84883572 AACCCGGATA
* * *
84883582 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
84883647 G-CTTAGCCCGAAAT
66 GACTTAGCCCGAAAT
* ** * *
84883661 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
84883724 GGGACTTAGCCCG
64 GGGACTTAGCCCG
84883737 GACATCATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.75
80 13 0.20
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCGAAAT
Found at i:84884937 original size:56 final size:56
Alignment explanation
Indices: 84884870--84884989 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
84884860 TATTAGTTTA
*
84884870 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGAAATGTT
84884926 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGAAATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGAAATGTT
84884982 TTGCCCAT
1 TTGCCCAT
84884990 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGAAATGTT
Found at i:84886149 original size:11 final size:11
Alignment explanation
Indices: 84886127--84886164 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
84886117 TAATATACAC
84886127 GATATG-ACAT
1 GATATGCACAT
84886137 GATATGCACAT
1 GATATGCACAT
84886148 GATATGCACAT
1 GATATGCACAT
84886159 GATATG
1 GATATG
84886165 TTATGAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (11 bp):
GATATGCACAT
Found at i:84886196 original size:32 final size:32
Alignment explanation
Indices: 84886119--84886196 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
84886109 TGAGATTTTA
** * *
84886119 ATATACAC--GATATGACATGATATGCACATG
1 ATATACACATGATATGTTATGAGATGCAAATG
*
84886149 ATATGCACATGATATGTTATGAGATGCAAATG
1 ATATACACATGATATGTTATGAGATGCAAATG
* *
84886181 ATATACTCATTATATG
1 ATATACACATGATATG
84886197 CATGGGTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 7 0.18
32 31 0.82
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (32 bp):
ATATACACATGATATGTTATGAGATGCAAATG
Found at i:84886275 original size:25 final size:25
Alignment explanation
Indices: 84886230--84886302 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
84886220 GGAGGAAGTG
* * *
84886230 CAAAAAGGGTTTTGCCTTAGTTTAC
1 CAAAAAGGGCTTTGCCCTAGTTAAC
* * *
84886255 CGAAATGGGCTTTGCCCTAGTTAAT
1 CAAAAAGGGCTTTGCCCTAGTTAAC
*
84886280 CAAAAAGGGCTTTGCCCCAGTTA
1 CAAAAAGGGCTTTGCCCTAGTTA
84886303 TTAAAAGAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCTAGTTAAC
Found at i:84892396 original size:52 final size:52
Alignment explanation
Indices: 84892339--84892442 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
84892329 TTTGGTTGTG
* **
84892339 AAATTCATAATTGGGGTATGTAAATGGGCCTATGGAGGGCCCATGTGTTGGC
1 AAATTCATAATTGGAGTATGTAAATGGGCCTACAGAGGGCCCATGTGTTGGC
*
84892391 AAATTCATAATTTGAGTATGTAAATGGGCCTACAGAGGGCCCATGTGTTGGC
1 AAATTCATAATTGGAGTATGTAAATGGGCCTACAGAGGGCCCATGTGTTGGC
84892443 CAAAACCCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (52 bp):
AAATTCATAATTGGAGTATGTAAATGGGCCTACAGAGGGCCCATGTGTTGGC
Found at i:84893044 original size:66 final size:65
Alignment explanation
Indices: 84892960--84893090 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 65
84892950 CTTTCTTTCT
*
84892960 TTCTTTTCTTTCCAAAACCAATCTACTATTCCCCTTTCTTCTCTTCACCCTTGCTGAATAGCCAC
1 TTCTTTTCTTTCCAAAACCAATATACTATTCCCCTTTCTTCTCTTCACCCTTGCTGAATAGCCAC
*
84893025 TTCTTTTCTTTTCCAAAACCAATATACTATTCCCTTTTCTTCTCTTCACCCTTGCTGAATAGCCA
1 TTCTTTTC-TTTCCAAAACCAATATACTATTCCCCTTTCTTCTCTTCACCCTTGCTGAATAGCCA
84893090 C
65 C
84893091 AAGAGCCGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 8 0.13
66 55 0.87
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.41
Consensus pattern (65 bp):
TTCTTTTCTTTCCAAAACCAATATACTATTCCCCTTTCTTCTCTTCACCCTTGCTGAATAGCCAC
Found at i:84894265 original size:25 final size:25
Alignment explanation
Indices: 84894219--84894269 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
84894209 CTGAAAATAT
* * **
84894219 GAAAAATGACTATTTTGGCCCTAGG
1 GAAAAATGACCATTATACCCCTAGG
84894244 GAAAAATGACCATTATACCCCTAGG
1 GAAAAATGACCATTATACCCCTAGG
84894269 G
1 G
84894270 TTTAATTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
GAAAAATGACCATTATACCCCTAGG
Found at i:84894320 original size:10 final size:10
Alignment explanation
Indices: 84894299--84894365 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
84894289 CATGAGATTT
84894299 TGATAT-ACA
1 TGATATGACA
*
84894308 TGATTTGACA
1 TGATATGACA
*
84894318 TGATCTGACA
1 TGATATGACA
84894328 TGATATGCACA
1 TGATATG-ACA
**
84894339 TGATATGTTA
1 TGATATGACA
*
84894349 TGAGATGCACA
1 TGATATG-ACA
84894360 TGATAT
1 TGATAT
84894366 ACTCATTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 5 0.11
10 25 0.54
11 16 0.35
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:84894341 original size:21 final size:21
Alignment explanation
Indices: 84894299--84894365 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
84894289 CATGAGATTT
*
84894299 TGATAT-ACATGATTTG-ACA
1 TGATATGACATGATATGCACA
*
84894318 TGATCTGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
84894339 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
84894360 TGATAT
1 TGATAT
84894366 ACTCATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.12
20 9 0.22
21 26 0.65
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:84897317 original size:13 final size:13
Alignment explanation
Indices: 84897299--84897324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84897289 ATATTATAAT
84897299 TATTTTATGTTAA
1 TATTTTATGTTAA
84897312 TATTTTATGTTAA
1 TATTTTATGTTAA
84897325 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:84899655 original size:40 final size:39
Alignment explanation
Indices: 84899557--84899726 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
84899547 TCCTCGTTCA
* * *
84899557 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
*
84899596 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* *
84899635 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* * * *
84899675 ACAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 A-ATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCAC
84899715 AAATGCCTTCGG
1 -AATGCCTTCGG
84899727 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
39 36 0.31
40 76 0.65
41 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:84908440 original size:47 final size:47
Alignment explanation
Indices: 84908382--84908922 Score: 850
Period size: 47 Copynumber: 11.5 Consensus size: 47
84908372 ATTCAGCCAA
*
84908382 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
84908429 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
84908476 GAAAGTGTATATATGTGATAAGGCCTAATGGCCG-TGGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT-GTGATGAATGT
*
84908523 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
84908572 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATCT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
84908619 GAAAGTGTATATGTGTGATAAGGCCTAATAGTCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
84908666 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
84908713 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
84908760 GAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
84908807 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * *
84908854 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
84908901 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
84908923 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 416 0.90
49 45 0.10
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:84909097 original size:37 final size:37
Alignment explanation
Indices: 84909041--84909119 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
84909031 CCGAGCTCTA
* * *
84909041 AAGACCCGATGACTACGTGT-GAGAATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
84909078 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
84909115 AAGAC
1 AAGAC
84909120 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:84911348 original size:63 final size:62
Alignment explanation
Indices: 84911265--84911389 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 62
84911255 ACTTCTCATT
* *
84911265 CCTGTTATGAATCCCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAGGTGCCGA
1 CCTGCTATGAATCCCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAAGTGCCGA
84911327 NCCTGCTATGAATCCCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAAGTGCCGA
1 -CCTGCTATGAATCCCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAAGTGCCGA
84911390 ATTTGGGATG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (62 bp):
CCTGCTATGAATCCCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAAGTGCCGA
Found at i:84916058 original size:47 final size:45
Alignment explanation
Indices: 84915993--84916113 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 45
84915983 TTTGTGTGCT
* *
84915993 AGTGTAAGATATGTCTGGGACATGCATTTGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TT-CCACATTGACGAGAGCC
* *
84916039 AGTGTAAGACCATGTCTGGGACATGGCA-TCCGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTCCACATT--GACGAGAGCC
*
84916087 AGTGTAAGACATGTTTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
84916114 CGGCTGCGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
45 6 0.09
46 13 0.20
47 26 0.41
48 19 0.30
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATTCCACATTGACGAGAGCC
Found at i:84916155 original size:92 final size:95
Alignment explanation
Indices: 84916039--84916253 Score: 251
Period size: 92 Copynumber: 2.3 Consensus size: 95
84916029 TATGAGAGCC
** * *
84916039 AGTGTAAGACCATGTCTGGGACATGGCATCCGCATTGAGA-CGAGAGCTAGTGTAAGA-CATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCCGCACAGAGAGCGAGAGCTAGTGTAAGACCACGTC
84916102 TGGGACAT-GCATCGGCTGCGAGATGTGTT
66 TGGGACATGGCATCGGCTGCGAGATGTGTT
* * * *
84916131 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAGAGCTAGTGTAAGACCACGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCCGCACAGAGA-GCGAGAGCTAGTGTAAGACCACGT
* * **
84916196 CTGGGACATGGCATCGACT-TGATGGAT-TAGCA
65 CTGGGACATGGCATCGGCTGCGA--GATGT-GTT
84916228 AGTGTAAGACCATGTCTGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
84916254 TTTCGGCATT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
92 35 0.34
94 16 0.16
95 14 0.14
96 9 0.09
97 29 0.28
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCCGCACAGAGAGCGAGAGCTAGTGTAAGACCACGTC
TGGGACATGGCATCGGCTGCGAGATGTGTT
Found at i:84916245 original size:47 final size:46
Alignment explanation
Indices: 84916032--84916253 Score: 202
Period size: 47 Copynumber: 4.7 Consensus size: 46
84916022 GCCACATTAT
* *
84916032 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCCGCATTGA-GA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-CG-ACTGATGA
* * *
84916079 CGAGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTG-CGA
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTGATGA
* * * * *
84916123 GATGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTG--ATGA
*
84916174 GAGAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGACTTGATG-
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGATGA
* *
84916220 GATTAGCAAGTGTAAGACCATGTCTGGGACATGG
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGG
84916254 TTTCGGCATT
Statistics
Matches: 145, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 16 0.11
45 16 0.11
46 11 0.08
47 45 0.31
48 19 0.13
49 2 0.01
50 31 0.21
51 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTGATGA
Found at i:84918530 original size:38 final size:37
Alignment explanation
Indices: 84918457--84918535 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
84918447 TATTACGAAA
* *
84918457 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
84918494 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
84918532 TCTT
1 TCTT
84918536 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:84918732 original size:47 final size:47
Alignment explanation
Indices: 84918654--84919043 Score: 609
Period size: 47 Copynumber: 8.2 Consensus size: 47
84918644 CCCTTCGGGA
* * * * * * * *
84918654 CTTATCACATTTCTGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
84918701 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84918748 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84918797 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84918844 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84918892 CTTATCACATATATACACTTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAC--TTTCACATTCATCACATCGGCCATTAGGC
*
84918941 CTTATCACATATATACACTTTCACATTCATCAAATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84918988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84919035 CTTATCACA
1 CTTATCACA
84919044 ATTTAGAATT
Statistics
Matches: 318, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
47 180 0.57
48 45 0.14
49 93 0.29
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84918916 original size:144 final size:143
Alignment explanation
Indices: 84918654--84919043 Score: 627
Period size: 144 Copynumber: 2.7 Consensus size: 143
84918644 CCCTTCGGGA
* * * * * * * * **
84918654 CTTATCACATTTCTGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
*
84918719 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
84918784 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
84918797 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATACA
**
84918862 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
84918927 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
* *
84918941 CTTATCACATATATACACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
84919006 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
84919044 ATTTAGAATT
Statistics
Matches: 229, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
143 92 0.40
144 137 0.60
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:84918993 original size:191 final size:189
Alignment explanation
Indices: 84918669--84919043 Score: 608
Period size: 191 Copynumber: 2.0 Consensus size: 189
84918659 CACATTTCTG
* * * *
84918669 CACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCCATCACATATATACACTTTCACATTCATCAC
*
84918734 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
66 ATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCAAATCGGCCATTAGGCCT
*
84918799 TATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATA
130 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATA
* * **
84918860 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTTTCACATTCATC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCCATCACATATATACAC--TTTCACATTCATC
84918925 ACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAAATCGGCCATTAGGCC
64 ACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAAATCGGCCATTAGGCC
*
84918989 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA
84919044 ATTTAGAATT
Statistics
Matches: 171, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
190 5 0.03
191 129 0.75
193 37 0.22
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (189 bp):
CACTTTCACATCCATCACATCGGCCACTAGGCCCCATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAAATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
Found at i:84926732 original size:28 final size:27
Alignment explanation
Indices: 84926675--84926826 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
84926665 TAAATTGTGC
* *
84926675 AGCACTAAGTGTGCAAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
84926702 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
84926730 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
84926757 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
84926785 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
84926812 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84926827 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:84926739 original size:55 final size:55
Alignment explanation
Indices: 84926675--84926826 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
84926665 TAAATTGTGC
* * *
84926675 AGCACTAAGTGTGCAAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
*
84926730 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
84926785 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
84926827 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:84930388 original size:56 final size:56
Alignment explanation
Indices: 84930297--84930409 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
84930287 GTGAATACCC
* * * *
84930297 GGATGTTTTTCCTGAAGACTTGCCGGGTTTGCCACCTGTTCGGGAGATAGAGTTTG
1 GGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTG
*
84930353 GGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTGTTCGGGAGGTAGAGTTTG
1 GGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTG
84930409 G
1 G
84930410 TATTGAGCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.33
Consensus pattern (56 bp):
GGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTG
Found at i:84942248 original size:15 final size:15
Alignment explanation
Indices: 84942230--84942282 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
84942220 ATCCTAGATC
84942230 TCTTTATTTTGGATT
1 TCTTTATTTTGGATT
* *
84942245 TCTTTATTCTGGGTT
1 TCTTTATTTTGGATT
* *
84942260 TCTCTATCTTGGATT
1 TCTTTATTTTGGATT
84942275 TCTTTATT
1 TCTTTATT
84942283 CGGTTTTCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.13, G:0.13, T:0.62
Consensus pattern (15 bp):
TCTTTATTTTGGATT
Found at i:84942282 original size:30 final size:30
Alignment explanation
Indices: 84942204--84942291 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 30
84942194 CATAGTATCG
* * * * *
84942204 TATCTTGGGTTTCTTTATCCTAGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
84942234 TATTTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
84942264 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
84942292 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:84942292 original size:14 final size:14
Alignment explanation
Indices: 84942230--84942292 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
84942220 ATCCTAGATC
*
84942230 TCTTTATTTTGGATT
1 TCTTTA-TTCGGATT
*
84942245 TCTTTATTCTGGGTT
1 TCTTTATTC-GGATT
* *
84942260 TCTCTATCTTGGATT
1 TCTTTAT-TCGGATT
*
84942275 TCTTTATTCGGTTT
1 TCTTTATTCGGATT
84942289 TCTT
1 TCTT
84942293 GTTATCTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
14 11 0.29
15 26 0.68
16 1 0.03
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.62
Consensus pattern (14 bp):
TCTTTATTCGGATT
Found at i:84944726 original size:46 final size:45
Alignment explanation
Indices: 84944673--84944846 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
84944663 TTTGGGCATT
84944673 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
*** * *
84944719 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* *
84944766 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
*
84944812 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84944847 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:84944826 original size:93 final size:93
Alignment explanation
Indices: 84944667--84944838 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
84944657 AGGATATTTG
* * *
84944667 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84944732 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
84944760 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84944825 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
84944839 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:84948815 original size:30 final size:30
Alignment explanation
Indices: 84948781--84948841 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
84948771 TTCCTGAGCC
84948781 TAGGGGCAAAAGTGTA-AATA-TGCAAAAGTT
1 TAGGGGCAAAA-T-TATAATATTGCAAAAGTT
84948811 TAGGGGCAAAATTATAATATTGCAAAAGTT
1 TAGGGGCAAAATTATAATATTGCAAAAGTT
84948841 T
1 T
84948842 GAGTTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 5 0.17
30 22 0.76
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATTATAATATTGCAAAAGTT
Found at i:84948922 original size:65 final size:65
Alignment explanation
Indices: 84948835--84948963 Score: 258
Period size: 65 Copynumber: 2.0 Consensus size: 65
84948825 TAATATTGCA
84948835 AAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAC
1 AAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAC
84948900 AAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGTAAAATATGATGTTTTA
1 AAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGTAAAATATGATGTTTTA
84948964 GATCCCAGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.39
Consensus pattern (65 bp):
AAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAC
Found at i:84949682 original size:68 final size:64
Alignment explanation
Indices: 84949617--84949824 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
84949607 CATCATGTGT
* *
84949617 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
84949682 TAG
62 TAG
* * * * *
84949685 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
84949750 AG
63 AG
* * * * *
84949752 AGAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG
84949814 TACAAGAGAGC
1 -ACAAGAGAGC
84949825 CGAACTATAT
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 26 0.22
65 3 0.03
66 24 0.21
67 32 0.27
68 13 0.11
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:84953185 original size:30 final size:30
Alignment explanation
Indices: 84953131--84953187 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
84953121 TTCCCGAGCC
*
84953131 TAGGGGCAAAAGTGTAAATATGCAAAATTT
1 TAGGGGCAAAAGTATAAATATGCAAAATTT
* * *
84953161 TAGGGGCAAAATTATAATTTTGCAAAA
1 TAGGGGCAAAAGTATAAATATGCAAAA
84953188 GTTTGAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAATTT
Found at i:84953996 original size:64 final size:64
Alignment explanation
Indices: 84953917--84954100 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
84953907 AGACATTATG
* * * *
84953917 ATGTAGCTAGGTCGCATGGGTGATACTATTTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
84953981 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--T-ATGTACACCATGTAGACAAGAGAGCTACGAGAT
84954046 AA
63 AA
* * * *
84954048 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATATGTACACCATGTAG-ACAAGAGAGC
84954101 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
63 19 0.20
64 24 0.25
66 20 0.21
67 32 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:84960853 original size:64 final size:63
Alignment explanation
Indices: 84960772--84960955 Score: 174
Period size: 67 Copynumber: 2.9 Consensus size: 63
84960762 AGACATTATG
* *
84960772 ATGTAGCTAGGTCGCATGGGTGATACTATTTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * * *
84960835 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTATGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-T-ATGTACACCATGTAGACAAGAGAGCTACGAGA
84960900 TA
62 TA
** * * *
84960902 AACTAGCTAGGTCACATGGGTGGTACTA-AGTGTTCACCATG-AGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATA-TGTACACCATGTAG-ACAAGAGAGC
84960956 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 3 0.03
63 18 0.19
64 20 0.21
65 8 0.08
66 18 0.19
67 29 0.30
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:84973323 original size:40 final size:40
Alignment explanation
Indices: 84973225--84973394 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
84973215 TCCTCGTTCA
* * * *
84973225 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
84973264 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * *
84973304 AATGCCTTCGAGACTTAACCCGAATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
84973344 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
84973384 AAGGCCTTCGG
1 AATGCCTTCGG
84973395 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 34 0.30
40 81 0.70
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:84973366 original size:80 final size:79
Alignment explanation
Indices: 84973225--84973371 Score: 213
Period size: 79 Copynumber: 1.8 Consensus size: 79
84973215 TCCTCGTTCA
* * ** *
84973225 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGAGACATAACCCGAATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
84973290 TAACAACTCGCACG
66 TAACAACTCGCACG
* * *
84973304 AATGCCTTCGAGACTTAACCCGAATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAACCCGAATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
84973369 TTA
65 TTA
84973372 GTATCTCGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 32 0.54
80 27 0.46
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGAGACATAACCCGAATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:84973431 original size:80 final size:79
Alignment explanation
Indices: 84973261--84973447 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 79
84973251 TAGTAACTCA
* * *
84973261 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGAGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
* *
84973326 AATTTAATAACTCG
66 AATATAATAACTAG
** * **
84973340 CACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCG-GATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACC
* * *
84973404 CGGATATATTCACTTAG
64 CGAATATAATAAC-TAG
* *
84973421 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
84973448 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
79 5 0.06
80 80 0.89
81 5 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
AATATAATAACTAG
Found at i:84973456 original size:41 final size:41
Alignment explanation
Indices: 84973379--84973456 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
84973369 TTAGTATCTC
* * *
84973379 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
84973420 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
84973457 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:84983251 original size:49 final size:49
Alignment explanation
Indices: 84983146--84983323 Score: 168
Period size: 49 Copynumber: 3.7 Consensus size: 49
84983136 TATGTGTGCT
* * * * *
84983146 AGTGTAAGACATGTCTGAGACAT-GCATC-AGCCTCGAAATATGCAA-TCT
1 AGTGTAAGACCTGTCTGAGACATGGCATCGA-CCTCGATAGATGAAAGT-A
* * *
84983194 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA-TCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC-CTCGATAGATGAAAGT-A
* * * *
84983243 AGTGTAAGACCTATCTGCGACATGGCATCAACCTCGATATATGAAAGTA
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGTA
*
84983292 AGTGTAAGACCTGTCTAAGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC
84983324 TTAGACATGT
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
48 22 0.20
49 83 0.77
50 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGTA
Found at i:84983314 original size:98 final size:97
Alignment explanation
Indices: 84983146--84983323 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 97
84983136 TATGTGTGCT
* * * * *
84983146 AGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAAATATGCAATCTAGTGTAAGACCTGTCTG
1 AGTGTAAGACATATCTGAGACATGCATCAACCTCGAAATATGAAATCAAGTGTAAGACCTGTCTA
*
84983211 GGACATGGCATCGACACCGATAGATGAGATCC
66 AGACATGGCATCGACACCGATAGATGAGATCC
* * *
84983243 AGTGTAAGACCTATCTGCGACATGGCATCAACCTCGATATATGAAAGT-AAGTGTAAGACCTGTC
1 AGTGTAAGACATATCTGAGACAT-GCATCAACCTCGAAATATGAAA-TCAAGTGTAAGACCTGTC
84983307 TAAGACATGGCATCGAC
64 TAAGACATGGCATCGAC
84983324 TTAGACATGT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
97 20 0.29
98 49 0.70
99 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (97 bp):
AGTGTAAGACATATCTGAGACATGCATCAACCTCGAAATATGAAATCAAGTGTAAGACCTGTCTA
AGACATGGCATCGACACCGATAGATGAGATCC
Found at i:84988033 original size:19 final size:19
Alignment explanation
Indices: 84988005--84988043 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
84987995 AGAGCGAAAG
84988005 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
84988023 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
84988043 A
1 A
84988044 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:84988334 original size:46 final size:46
Alignment explanation
Indices: 84988278--84988369 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
84988268 GAGAAGGGGG
* *
84988278 AGTAATGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCC
1 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
84988324 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
1 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
84988370 GGATTCATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (46 bp):
AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
Found at i:84992974 original size:17 final size:17
Alignment explanation
Indices: 84992937--84992976 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
84992927 CCCCTAGGTG
*
84992937 TGGGCCACTGCATTTAC
1 TGGGCCACTGCATTGAC
* *
84992954 TGGGCCACTGTATTGAT
1 TGGGCCACTGCATTGAC
84992971 TGGGCC
1 TGGGCC
84992977 TCACTTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (17 bp):
TGGGCCACTGCATTGAC
Found at i:84998214 original size:15 final size:15
Alignment explanation
Indices: 84998194--84998248 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
84998184 GTATCGTATC
84998194 TTGGATTTCTCTATT
1 TTGGATTTCTCTATT
* *
84998209 TTGGATCTCTTTATT
1 TTGGATTTCTCTATT
* * *
84998224 CTAGATTTCTCTGTT
1 TTGGATTTCTCTATT
84998239 TTGGATTTCT
1 TTGGATTTCT
84998249 TTTTCTTGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTCTATT
Found at i:84998257 original size:15 final size:15
Alignment explanation
Indices: 84998192--84998264 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
84998182 CGGTATCGTA
*
84998192 TCTTGGATTTCTCTAT
1 TCTTGGATTTCT-TTT
*
84998208 T-TTGGATCTCTTTAT
1 TCTTGGATTTCTTT-T
* *
84998223 TC-TAGATTTCTCTGT
1 TCTTGGATTTCT-TTT
84998238 T-TTGGATTTCTTTT
1 TCTTGGATTTCTTTT
*
84998252 TCTTGGTTTTCTT
1 TCTTGGATTTCTT
84998265 ACCATCTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
14 4 0.09
15 38 0.86
16 2 0.05
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TCTTGGATTTCTTTT
Found at i:84998263 original size:30 final size:31
Alignment explanation
Indices: 84998192--84998263 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
84998182 CGGTATCGTA
84998192 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
1 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
* * *
84998223 TC-TAGATTTCTCTGTTTTGGATTTCTTT-T
1 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
*
84998252 TCTTGGTTTTCT
1 TCTTGGATTTCT
84998264 TACCATCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 30 0.86
31 2 0.06
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.61
Consensus pattern (31 bp):
TCTTGGATTTCTCTATTTTGGATCTCTTTAT
Found at i:85000008 original size:143 final size:144
Alignment explanation
Indices: 84999742--85000028 Score: 443
Period size: 143 Copynumber: 2.0 Consensus size: 144
84999732 TAGAGACAAT
* * *
84999742 GATAAGACAATTTTCAAAGTTAGGTGGAATTTGGTGGCTCATTTGTCTAAAAATAACATAAAATA
1 GATAAGACAATTTTCAAAGTTAGGTGGAATTTGGTAGCTCATTTGACTAAAAATAAAATAAAATA
* * * *
84999807 AAGAGGGAATGATGTCATCTTCTTCTCATCTCTTTCTCCATAAAAAATACCAGAAAAGAGGGGGG
66 AAGAGGGAATGATATCATCTTCTTCTCATCTCTTTCTCCACAAAAAAGAACAGAAAAGAGGGGGG
84999872 TTTTAAAGCTTTAA
131 TTTTAAAGCTTTAA
*
84999886 GATAAGACAATTTTCAAAGTTAGGTGGAATTTGGTAGCTTATTTGACT-AAAATAAAATAAAATA
1 GATAAGACAATTTTCAAAGTTAGGTGGAATTTGGTAGCTCATTTGACTAAAAATAAAATAAAATA
** *
84999950 AA-AGGGGAATGATATCATCTTCTTCTCATCTCTTTCTCCACCGAAAAGAACAGTAAAGAGGGGG
66 AAGA-GGGAATGATATCATCTTCTTCTCATCTCTTTCTCCACAAAAAAGAACAGAAAAGAGGGGG
*
85000014 GTTTTGAAGCTTTAA
130 GTTTTAAAGCTTTAA
85000029 AATTTCAGCT
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
142 1 0.01
143 84 0.65
144 45 0.35
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (144 bp):
GATAAGACAATTTTCAAAGTTAGGTGGAATTTGGTAGCTCATTTGACTAAAAATAAAATAAAATA
AAGAGGGAATGATATCATCTTCTTCTCATCTCTTTCTCCACAAAAAAGAACAGAAAAGAGGGGGG
TTTTAAAGCTTTAA
Found at i:85000323 original size:20 final size:21
Alignment explanation
Indices: 85000284--85000323 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
85000274 AAGGGCTATT
*
85000284 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTCTGTAAAATAAG
*
85000305 TTGTAAA-TCTGTGAAATAA
1 TTGTAAAGTCTGTAAAATAA
85000324 TTGAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTCTGTAAAATAAG
Found at i:85001218 original size:49 final size:47
Alignment explanation
Indices: 85001124--85001254 Score: 136
Period size: 49 Copynumber: 2.7 Consensus size: 47
85001114 TGAAATGTAT
* * *
85001124 CAGTGTAAGACCTGTCTGAGACATGGCATCAACACCGATAGGTGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGT--GAGC
* * ** *
85001173 CAGTGTCAGACCTGTTTGGGACATGGCATCTACTTAGATATGTGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGTGAGC
* * *
85001220 CAATGTAAGACCATATTTGGAACATGGCATCAACA
1 CAGTGTAAGACC-TGTTTGGGACATGGCATCAACA
85001255 TCTTTCCTAT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 14 0.21
48 18 0.27
49 35 0.52
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGTGAGC
Found at i:85009145 original size:23 final size:22
Alignment explanation
Indices: 85009103--85009146 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
85009093 AATAATAATT
*
85009103 TAATTCAATTAATTACTTCAAA
1 TAATTCAATTAATTAATTCAAA
85009125 TAATCTCAATT-ATTCAATTCAA
1 TAAT-TCAATTAATT-AATTCAA
85009147 GTCTATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATTCAATTAATTAATTCAAA
Found at i:85013955 original size:15 final size:16
Alignment explanation
Indices: 85013935--85013970 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
85013925 AATTGGAAAG
85013935 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
*
85013950 ATGAAAATTTAATTAA
1 ATGAAAAGTTAATTAA
85013966 ATGAA
1 ATGAA
85013971 TCAAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:85020302 original size:16 final size:17
Alignment explanation
Indices: 85020281--85020314 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
85020271 ATCCGTTTGA
85020281 AATACAAG-AAAATGAT
1 AATACAAGAAAAATGAT
85020297 AATACAAGAAAAATGAT
1 AATACAAGAAAAATGAT
85020314 A
1 A
85020315 TACGAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
AATACAAGAAAAATGAT
Found at i:85022170 original size:44 final size:46
Alignment explanation
Indices: 85022115--85022373 Score: 131
Period size: 47 Copynumber: 5.6 Consensus size: 46
85022105 TATGCGTGCT
*
85022115 GATGAATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTATCAGGCC
* * * * * *
85022159 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTATCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTATC-AGGCC
* * **
85022206 GATGCATGTCCCAGACATGTCTTACTCT-GGC-ACTCATAAT-ATGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTC-T-ATCA-GGCC
* * * ** ** * *
85022252 GAAGCATGTCCCAGATATGACTTACACTAGCCTTCATCT-GGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAAC-TCTATCAGGCC
* * **
85022298 GATGCCATGTCCCAGACATGGTCTTACACT-GGC-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCAACTC-T-ATCAGGCC
* *
85022346 AAAGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
85022374 GGCGCACAAA
Statistics
Matches: 166, Mismatches: 33, Indels: 30
0.72 0.14 0.13
Matches are distributed among these distances:
43 5 0.03
44 28 0.17
45 6 0.04
46 48 0.29
47 61 0.37
48 16 0.10
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTATCAGGCC
Found at i:85022219 original size:47 final size:44
Alignment explanation
Indices: 85022112--85022238 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 44
85022102 ATATATGCGT
* *
85022112 GCTGATGAATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTA
* * * * *
85022156 GCCGATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTATCGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCT-T--A
*
85022202 GGCTGATGCATGTCCCAGACATGTCTTACTCTGGCAC
1 -GCTGATGCATGTCCCAGACATGTCTTACACTGGCAC
85022239 TCATAATATG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 5 0.08
44 30 0.45
46 1 0.02
47 30 0.45
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTA
Found at i:85022354 original size:47 final size:45
Alignment explanation
Indices: 85022209--85022376 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
85022199 CGAGGCTGAT
* * *
85022209 GCATGTCCCAGACATGTCTTACTCTGGCACTCATAATATGGTTGAA
1 GCATGTCCCAGACATGTCTTACACTGGC-CTCATAATGTGGTCGAA
* * * * *
85022255 GCATGTCCCAGATATGACTTACACTAGCCTTCAT-CTG-GATGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCC-TCATAATGTG--GTCGAA
* *
85022301 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAAA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-CTCATAATGTGGTCGAA
85022349 GCATGTCCCAGACATGTCTTACACTGGC
1 GCATGTCCCAGACATGTCTTACACTGGC
85022377 GCACAAATCA
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 46 0.46
47 27 0.27
48 19 0.19
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTGGCCTCATAATGTGGTCGAA
Found at i:85023946 original size:13 final size:13
Alignment explanation
Indices: 85023928--85023958 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
85023918 GGTACATGGG
85023928 CGTGTAGTTAGGC
1 CGTGTAGTTAGGC
85023941 CGTGTAGTTAGGC
1 CGTGTAGTTAGGC
85023954 CGTGT
1 CGTGT
85023959 GTCCCCTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.32
Consensus pattern (13 bp):
CGTGTAGTTAGGC
Found at i:85027542 original size:14 final size:14
Alignment explanation
Indices: 85027523--85027563 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
85027513 AAGTTTATAT
85027523 ATTTAAATAAAATA
1 ATTTAAATAAAATA
*
85027537 ATTTAAATATAATA
1 ATTTAAATAAAATA
*
85027551 ATTAAAATAAAAT
1 ATTTAAATAAAAT
85027564 TACATCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:85028465 original size:11 final size:12
Alignment explanation
Indices: 85028444--85028468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85028434 CTATTATGAA
85028444 TTTGTTTTTTTT
1 TTTGTTTTTTTT
85028456 TTTGTTTTTTTT
1 TTTGTTTTTTTT
85028468 T
1 T
85028469 CTTACATTTT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:85030907 original size:20 final size:20
Alignment explanation
Indices: 85030869--85030912 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
85030859 AATAGGGATA
*
85030869 ATTTGTATATATATATATGT
1 ATTTGTAAATATATATATGT
* *
85030889 ATTTGTAAATGTATGTATGT
1 ATTTGTAAATATATATATGT
85030909 -TTTG
1 ATTTG
85030913 GTGCTTGCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (20 bp):
ATTTGTAAATATATATATGT
Found at i:85030970 original size:22 final size:19
Alignment explanation
Indices: 85030913--85030957 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
85030903 GTATGTTTTG
85030913 GTGCTTGCACAAATGATGT
1 GTGCTTGCACAAATGATGT
85030932 GTGCTTGCACAAATGATGT
1 GTGCTTGCACAAATGATGT
85030951 GTGCTTG
1 GTGCTTG
85030958 ATAGCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (19 bp):
GTGCTTGCACAAATGATGT
Done.