Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 202 of 356
Found at i:65915304 original size:22 final size:22
Alignment explanation
Indices: 65915276--65915330 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
65915266 TACTAAGTCA
65915276 ACAGGACAGCTCAACACCATAG
1 ACAGGACAGCTCAACACCATAG
*
65915298 ACAGGAC-GACTCAACACCGTAG
1 ACAGGACAG-CTCAACACCATAG
65915320 ACAGGACAGCT
1 ACAGGACAGCT
65915331 AAAGGCCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.38, C:0.31, G:0.22, T:0.09
Consensus pattern (22 bp):
ACAGGACAGCTCAACACCATAG
Found at i:65921628 original size:42 final size:42
Alignment explanation
Indices: 65921582--65921818 Score: 321
Period size: 42 Copynumber: 5.6 Consensus size: 42
65921572 AATGCCTCTA
* * *
65921582 TCCCAAACAGGGTCTTACACGAAATCAGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
* *
65921624 TCCCATACATGGTCTTACACAAAATCAGATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
* * * * * *
65921666 TCCTAGACATGGTCTTTCAAGAAATCAGATACAATACTGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
* * *
65921708 TCCTAGACATGGTCTTACACGAAATCAGATACAATGCTGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
* *
65921750 TCCCAGACATGATCTTACACGAAATCAGATATGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
65921792 TCCCAGACATGGTCTTACACGTAAATC
1 TCCCAGACATGGTCTTACACG-AAATC
65921819 TTGAATCGAG
Statistics
Matches: 173, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
42 168 0.97
43 5 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
Found at i:65926360 original size:40 final size:40
Alignment explanation
Indices: 65926288--65926363 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
65926278 GCTAAAAAAA
* * *
65926288 TGGCACTTAGTGTGTGGTTCGAAATAGTTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTAAATG
* * *
65926328 TGGCACTTGGTGTGCGATTGGAGATAGCTTCGGCTA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTA
65926364 TATATGTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTAAATG
Found at i:65930474 original size:40 final size:39
Alignment explanation
Indices: 65930393--65930526 Score: 180
Period size: 40 Copynumber: 3.4 Consensus size: 39
65930383 TCTGTGGAAC
* * *
65930393 TTTAAGCCCGGATATA-ATACCAGCACCAACCCTGCGAGA
1 TTTAA-CCCGGATATACATACCAGCACGAAGCCTGCGGGA
*
65930432 TTTAACCCGGATATACATTACCAGCACGAAGCCTGTGGGA
1 TTTAACCCGGATATACA-TACCAGCACGAAGCCTGCGGGA
*
65930472 TTTGACCCGGATATACAATACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATAC-ATACCAGCACGAAGCCTGCGGGA
*
65930512 TTTGACCCGGATATA
1 TTTAACCCGGATATA
65930527 TATAATATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
38 10 0.12
39 6 0.07
40 69 0.80
41 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
TTTAACCCGGATATACATACCAGCACGAAGCCTGCGGGA
Found at i:65945600 original size:42 final size:42
Alignment explanation
Indices: 65945530--65945795 Score: 281
Period size: 42 Copynumber: 6.4 Consensus size: 42
65945520 TTCTAGATGA
* * ** *
65945530 GGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
* *
65945573 GGTCTTATACGAAATTAGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
* * * *
65945615 GGTCTTACACG----CAGAAACAATGTCGATTTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
* * * *
65945653 CGTCTTACACGAAATTAGATATGATGCCGATGTCCTAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
*
65945695 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
* * * *
65945737 GGTCTTACATGAAATCAAATATGATGCCGATGTCCTAGACAT
1 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
*
65945779 GGTCATACACGTAAATC
1 GGTCTTACACG-AAATC
65945796 TCAAATTGGG
Statistics
Matches: 186, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
38 32 0.17
42 138 0.74
43 16 0.09
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACAT
Found at i:65951463 original size:27 final size:27
Alignment explanation
Indices: 65951433--65951610 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
65951423 ATATTGAGCC
* *
65951433 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
65951460 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65951487 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** * **
65951515 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65951542 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65951569 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
65951596 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65951611 GTACAGTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65951572 original size:82 final size:81
Alignment explanation
Indices: 65951459--65951609 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
65951449 TATAATCAAC
* *
65951459 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAGA-TCGCACACTT
65951524 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* ** *
65951541 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAGATCGCACACTT
65951605 AGTGC
65 AGTGC
65951610 TGTACAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAGATCGCACACTTA
GTGCCGCATGATCATT
Found at i:65957374 original size:37 final size:37
Alignment explanation
Indices: 65957314--65957389 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
65957304 TATTACGAAA
* * *
65957314 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
65957351 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
65957388 TC
1 TC
65957390 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:65957588 original size:47 final size:47
Alignment explanation
Indices: 65957510--65958189 Score: 1000
Period size: 47 Copynumber: 14.2 Consensus size: 47
65957500 CCCTTCGGGA
* * * * * *
65957510 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65957557 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
65957604 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65957651 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65957700 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65957747 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65957796 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65957843 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65957892 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65957939 CTTATCACATATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65957988 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65958035 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65958084 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65958132 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65958181 CTTATCACA
1 CTTATCACA
65958190 ATTTAGAATT
Statistics
Matches: 574, Mismatches: 46, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
47 269 0.47
48 41 0.07
49 260 0.45
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65957705 original size:96 final size:96
Alignment explanation
Indices: 65957510--65958189 Score: 1175
Period size: 96 Copynumber: 7.1 Consensus size: 96
65957500 CCCTTCGGGA
** * * * * ** * *
65957510 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* *
65957573 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
65957604 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65957669 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65957700 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65957765 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65957796 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65957861 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
65957892 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65957957 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65957988 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65958053 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
65958084 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
*
65958149 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCTATTAGGC
65958181 CTTATCACA
1 CTTATCACA
65958190 ATTTAGAATT
Statistics
Matches: 562, Mismatches: 21, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
94 44 0.08
96 426 0.76
97 92 0.16
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:65959873 original size:39 final size:39
Alignment explanation
Indices: 65959819--65959896 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
65959809 CTCTCCCTAA
*
65959819 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
65959858 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
65959897 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:65961991 original size:40 final size:40
Alignment explanation
Indices: 65961947--65962067 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
65961937 GAATACATGT
* * * *
65961947 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* ***
65961987 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* *
65962027 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
65962067 C
1 C
65962068 CACAAGCTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
Found at i:65962100 original size:40 final size:40
Alignment explanation
Indices: 65961963--65962280 Score: 302
Period size: 40 Copynumber: 8.0 Consensus size: 40
65961953 CATGATTGCT
* * * *
65961963 CTTCGGGACCTAGCCCGGATATAAC-AC-CAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-GCACAAATGC
** * ** * *
65962002 TCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAATGC
1 -CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
* * * ** * *
65962042 TCTTCGGAAT-TTAGCCCGGATATAACCACAAGCTCAATTGC
1 -CTTCGG-GTCTTAGCCCGGATATATCAACTCGCACAAATGC
* * * *
65962083 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
* * * *
65962123 CTTTGGGTCTTAGCCCGGATGTATCAACTTGCACAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
*
65962163 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
*
65962203 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
* *
65962243 CTTCGGGTCTTATCCCGGATATATCAATTCGCACAAAT
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAT
65962281 AGTGCTTAAT
Statistics
Matches: 234, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.00
40 222 0.95
41 11 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
Found at i:65962334 original size:29 final size:29
Alignment explanation
Indices: 65962295--65962373 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
65962285 CTTAATAATC
*
65962295 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
65962325 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
65962354 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65962374 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:65962416 original size:43 final size:43
Alignment explanation
Indices: 65962355--65962614 Score: 457
Period size: 43 Copynumber: 6.0 Consensus size: 43
65962345 TGCATTTCAA
* * *
65962355 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
65962398 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
*
65962441 GCCCGCACACTTGGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
65962484 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
*
65962527 GCCCGCACACTTAGTGCCAATCTCGCAACCATGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
* *
65962570 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
65962613 GC
1 GC
65962615 TGAAAACCAA
Statistics
Matches: 208, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 208 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
Found at i:65964541 original size:37 final size:37
Alignment explanation
Indices: 65964481--65964556 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
65964471 TATTACGAAA
* * *
65964481 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
65964518 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
65964555 TC
1 TC
65964557 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:65964755 original size:47 final size:47
Alignment explanation
Indices: 65964677--65965455 Score: 1135
Period size: 47 Copynumber: 16.2 Consensus size: 47
65964667 CCCTTCGGGA
* * * * * *
65964677 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65964724 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
65964771 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65964818 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65964867 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65964914 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65964963 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965010 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965059 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965107 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
65965158 CTTATCACCCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965205 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65965254 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965301 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65965350 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65965398 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65965447 CTTATCACA
1 CTTATCACA
65965456 ATTTAGAATT
Statistics
Matches: 664, Mismatches: 50, Indels: 36
0.89 0.07 0.05
Matches are distributed among these distances:
47 273 0.41
48 82 0.12
49 255 0.38
50 8 0.01
51 46 0.07
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65964872 original size:96 final size:96
Alignment explanation
Indices: 65964677--65965455 Score: 1319
Period size: 96 Copynumber: 8.1 Consensus size: 96
65964667 CCCTTCGGGA
** * * * * ** * *
65964677 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* *
65964740 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
65964771 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65964836 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65964867 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65964932 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65964963 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965028 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
65965059 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATA
65965124 TACACTTTCACATTCATCACATCGGCTATTAGGC
63 TACACTTTCACATTCATCACATCGGCTATTAGGC
*
65965158 CTTATCACCCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965223 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
65965254 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965319 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
65965350 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
*
65965415 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCTATTAGGC
65965447 CTTATCACA
1 CTTATCACA
65965456 ATTTAGAATT
Statistics
Matches: 652, Mismatches: 27, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
94 44 0.07
96 375 0.58
97 141 0.22
98 48 0.07
99 44 0.07
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:65965196 original size:291 final size:289
Alignment explanation
Indices: 65964677--65965455 Score: 1357
Period size: 291 Copynumber: 2.7 Consensus size: 289
65964667 CCCTTCGGGA
** * * * * ** * *
65964677 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * * **
65964740 ACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACGCATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
65964804 ATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
65964869 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
196 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
65964934 TTTCACATTCATCACATCGGCTATTAGGC
261 TTTCACATTCATCACATCGGCTATTAGGC
65964963 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965028 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
65965093 ATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 ATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
65965158 CTTATCACCCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
194 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965223 ACTTTCACATTCATCACATCGGCTATTAGGC
259 ACTTTCACATTCATCACATCGGCTATTAGGC
65965254 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
65965319 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
65965384 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
65965449 TATCACA
196 TATCACA
65965456 ATTTAGAATT
Statistics
Matches: 469, Mismatches: 19, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
286 45 0.10
288 40 0.09
289 96 0.20
291 288 0.61
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (289 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:65967140 original size:39 final size:39
Alignment explanation
Indices: 65967086--65967163 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
65967076 CTCTCCCTAA
*
65967086 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
65967125 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
65967164 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:65972321 original size:35 final size:35
Alignment explanation
Indices: 65972282--65972349 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
65972272 GGAAACACCA
* *
65972282 TGTAAATGGTATATAGGTCCTTTGA-GGTGACACAG
1 TGTAAACGGTATATAGGT-CTTTCAGGGTGACACAG
65972317 TGTAAACGGTATATAGGTCTTTCAGGGTGACAC
1 TGTAAACGGTATATAGGTCTTTCAGGGTGACAC
65972350 CTTGAAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (35 bp):
TGTAAACGGTATATAGGTCTTTCAGGGTGACACAG
Found at i:65975240 original size:12 final size:13
Alignment explanation
Indices: 65975218--65975247 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
65975208 CACTCAAGTA
65975218 TTCTATTTTCTTT
1 TTCTATTTTCTTT
65975231 TTCT-TTTTCTTT
1 TTCTATTTTCTTT
65975243 TTCTA
1 TTCTA
65975248 GTGTTCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTATTTTCTTT
Found at i:65976467 original size:28 final size:27
Alignment explanation
Indices: 65976392--65976496 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
65976382 AAGACCTCAG
* * *
65976392 TTTGTAAAATTACTAAAATACCCCCGG
1 TTTGTAAAATTACCAAAATACCCCTGA
* * *
65976419 TTTGTAAAGTTACCGAAATACCTCTGA
1 TTTGTAAAATTACCAAAATACCCCTGA
* *
65976446 TTTGTAAAAATTACCGAAATACCCCTAA
1 TTTGT-AAAATTACCAAAATACCCCTGA
65976474 TTTGTAAAATTACCAAAATACCC
1 TTTGTAAAATTACCAAAATACCC
65976497 TTGTAGGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 43 0.64
28 24 0.36
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTGA
Found at i:65976467 original size:55 final size:54
Alignment explanation
Indices: 65976392--65976495 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 54
65976382 AAGACCTCAG
* ** * *
65976392 TTTGTAAAATTACTAAAATACCCCCGGTTTGTAAAGTTACCGAAATACCTCTGA
1 TTTGTAAAATTACCAAAATACCCCCAATTTGTAAAATTACCAAAATACCTCTGA
* *
65976446 TTTGTAAAAATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACC
1 TTTGT-AAAATTACCAAAATACCCCCAATTTGTAAAATTACCAAAATACC
65976496 CTTGTAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 5 0.12
55 37 0.88
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCCAATTTGTAAAATTACCAAAATACCTCTGA
Found at i:65977004 original size:27 final size:26
Alignment explanation
Indices: 65976912--65977005 Score: 64
Period size: 27 Copynumber: 3.5 Consensus size: 26
65976902 GCTATCTTGA
* *
65976912 CTATGGCTTTGTGCAATCGTATTTAC
1 CTATGGCTATGTGCAATCATATTTAC
* * *
65976938 CTGTGGCTATATGCCTATCATATTTA-
1 CTATGGCTATGTG-CAATCATATTTAC
* * * *
65976964 TTATTGACTCTGTGTCGATCATATTTAC
1 CTA-TGGCTATGTG-CAATCATATTTAC
*
65976992 CTATGGCTGTGTGC
1 CTATGGCTATGTGC
65977006 TGATTAAATT
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
26 12 0.24
27 36 0.72
28 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (26 bp):
CTATGGCTATGTGCAATCATATTTAC
Found at i:65980925 original size:39 final size:40
Alignment explanation
Indices: 65980841--65980925 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
65980831 ACTTAATTCA
* * *
65980841 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
65980881 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
65980920 TCAGCA
1 CCAGCA
65980926 CAATACATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:65981101 original size:47 final size:45
Alignment explanation
Indices: 65980996--65981104 Score: 130
Period size: 47 Copynumber: 2.4 Consensus size: 45
65980986 TGCTCACTTT
* * * *
65980996 TCACAATTGGTCATTCAGCCTTATCACATATTCAGTTACACATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACTTACACATATA
*
65981042 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACATAT--ACACTTACACATAT-A
65981089 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
65981105 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 26 0.47
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (45 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACTTACACATATA
Found at i:65983691 original size:22 final size:20
Alignment explanation
Indices: 65983651--65983691 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
65983641 AGTCCTATTA
*
65983651 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
65983671 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
65983692 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:65987084 original size:7 final size:7
Alignment explanation
Indices: 65987072--65987098 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65987062 AATATTATTG
65987072 AAATTTA
1 AAATTTA
65987079 AAATTTA
1 AAATTTA
65987086 AAATTTA
1 AAATTTA
65987093 AAATTT
1 AAATTT
65987099 GTTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:65988224 original size:15 final size:15
Alignment explanation
Indices: 65988204--65988255 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
65988194 ACCACAAAAC
65988204 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
65988219 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
65988238 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
65988253 ATT
1 ATT
65988256 AATATTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
17 11 0.37
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:65992024 original size:29 final size:30
Alignment explanation
Indices: 65991955--65992063 Score: 102
Period size: 29 Copynumber: 3.8 Consensus size: 30
65991945 ACCCCTAGAT
* *
65991955 ACATGCATATGACCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
** * *
65991983 TTATTCAAATGGCCCATCT-GGCCCAGTTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
* * *
65992012 ATATTCTTATGGCCCA-CTAGGCTCAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATTC
65992041 ACATTCATATGGCCCAT-TAGGCC
1 ACATTCATATGGCCCATCTAGGCC
65992064 TAAATCATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATTC
Found at i:65992072 original size:58 final size:57
Alignment explanation
Indices: 65991962--65992074 Score: 129
Period size: 58 Copynumber: 2.0 Consensus size: 57
65991952 GATACATGCA
** **
65991962 TATGACCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGACCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* * * *
65992019 TATGGCCCACTAGGCTCAATTCACATTCATATGGCCCAT-TAGGCCTAAATCATATT
1 TATGACCCACTAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
65992075 ATATTCATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 18 0.39
58 28 0.61
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (57 bp):
TATGACCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:65992180 original size:19 final size:19
Alignment explanation
Indices: 65992147--65992193 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
65992137 TGGGCCCAAC
*
65992147 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
65992165 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
65992184 GGCCAATTCT
1 AGCCCATTCT
65992194 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:65993554 original size:16 final size:16
Alignment explanation
Indices: 65993533--65993565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65993523 AAAAATTCAA
*
65993533 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
65993549 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
65993565 G
1 G
65993566 GGTGTTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:66001350 original size:22 final size:22
Alignment explanation
Indices: 66001323--66001368 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
66001313 AAATTATTAA
* *
66001323 TATAATGAATTTTAAATAATTT
1 TATAATAAATATTAAATAATTT
* *
66001345 TATAATAAATATTGATTAATTT
1 TATAATAAATATTAAATAATTT
66001367 TA
1 TA
66001369 ATCATTTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TATAATAAATATTAAATAATTT
Found at i:66004705 original size:42 final size:42
Alignment explanation
Indices: 66004658--66004813 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 42
66004648 CTAAGACTAT
* * *
66004658 GTGTAAGAACATATCTGGGATATGGCATCTATATGAGGCTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
*
66004700 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
* * ** * *
66004742 GTGTAAGACCATAACTGGGTTATTGGTGTTCGATACGAGA-TCCC
1 GTGTAAGACCATATCTGGGATA-TGG-CATCGATATGAGACT-TC
* *
66004786 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
66004814 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 59 0.62
43 7 0.07
44 29 0.31
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
Found at i:66009743 original size:47 final size:47
Alignment explanation
Indices: 66009680--66010045 Score: 256
Period size: 48 Copynumber: 7.7 Consensus size: 47
66009670 TTTGTATGCT
*
66009680 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGAGAGCC
* ** * * *
66009726 AATGTAAGACCATGTCTGGGACATGGCATTAG--TATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT---ATGAGAGCC
* * * *
66009774 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTAC--GA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATTATGA-GAGCC
* * * *
66009818 AGTGTAAGACCATGTCTAGGACATGGCATCGGGAC-TTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTAT-GA-GAGCC
* * *
66009866 AATGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--AT-TATGAGAGCC
* * * * *
66009916 AGTGTAAGACCATGTCAGGGACATGGCGTCGGCCTCGATT-TCGACAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATTAT-GAGAGCC
* *
66009965 AGTGTAAGACCATGTCTAGAACATGGCATC-G-AC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-AT-GA-GAGCC
66010012 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
66010046 TTACACCCTA
Statistics
Matches: 252, Mismatches: 43, Indels: 47
0.74 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 18 0.07
46 25 0.10
47 59 0.23
48 61 0.24
49 32 0.13
50 34 0.13
51 5 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGAGAGCC
Found at i:66014622 original size:45 final size:45
Alignment explanation
Indices: 66014572--66014657 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
66014562 CAAAACATGG
66014572 GTCACATATATCACGAACTT-AGACCACAACTCAATGAGTTCGGAT
1 GTCACATATATCACGAA-TTCAGACCACAACTCAATGAGTTCGGAT
*
66014617 GTCACATATATCATGAATTCAGACCACAACTCAATGAGTTC
1 GTCACATATATCACGAATTCAGACCACAACTCAATGAGTTC
66014658 AAATTACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
GTCACATATATCACGAATTCAGACCACAACTCAATGAGTTCGGAT
Found at i:66024521 original size:46 final size:46
Alignment explanation
Indices: 66024468--66025200 Score: 1040
Period size: 46 Copynumber: 16.0 Consensus size: 46
66024458 GCTTTCTGAA
*
66024468 ATGAAATGTGTAACACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024514 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024560 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024606 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024652 ATCAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
66024698 ATCAAATGTGTAAGACCATGGTTGAAATACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024744 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
66024790 ATGAAATGTGTAAGACCATGGCTGAAAGAGACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024836 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
66024882 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
66024928 ATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
66024974 ATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATG--
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** ** * *
66025018 ACGAGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGA-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** ** * *
66025065 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
66025111 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
66025157 A-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
66025201 TCAAAGATTA
Statistics
Matches: 636, Mismatches: 47, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
44 2 0.00
45 35 0.06
46 596 0.94
47 3 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:66025500 original size:16 final size:17
Alignment explanation
Indices: 66025481--66025513 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66025471 ATGATGGAGC
66025481 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
66025497 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
66025514 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:66028286 original size:30 final size:30
Alignment explanation
Indices: 66028250--66028378 Score: 231
Period size: 30 Copynumber: 4.3 Consensus size: 30
66028240 CTAGCCTTTG
66028250 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66028280 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
66028310 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
66028340 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66028370 CCACCACCA
1 CCACCACCA
66028379 CTTGTACCTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:66028912 original size:24 final size:24
Alignment explanation
Indices: 66028864--66028993 Score: 83
Period size: 25 Copynumber: 5.6 Consensus size: 24
66028854 TTTTTTTTGT
*
66028864 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATTTCTTAATAATA
*
66028887 TATTATGTATATATTCTT-TTAATA
1 TATTATGTATAT-TTCTTAATAATA
* * **
66028911 TATTAGGTATA-TTCTAAATTCTA
1 TATTATGTATATTTCTTAATAATA
* * *
66028934 TATTACGTATA--TATT-ATACTA
1 TATTATGTATATTTCTTAATAATA
* * *
66028955 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATTTC-TTAATAATA
*
66028980 TATTATTTATATTT
1 TATTATGTATATTT
66028994 TTTTTTCTAC
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
21 14 0.17
22 6 0.07
23 20 0.24
24 21 0.25
25 22 0.27
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTATGTATATTTCTTAATAATA
Found at i:66029032 original size:22 final size:22
Alignment explanation
Indices: 66029007--66029048 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66028997 TTTCTACATG
*
66029007 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
66029029 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
66029049 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:66029059 original size:26 final size:25
Alignment explanation
Indices: 66029013--66029077 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
66029003 CATGTTATCT
* *
66029013 TATGTATATATTTTAATTATATTATG
1 TATGTAT-TTTTTTAACTATATTATG
66029039 TATGTATTTTTTTACACTATATTATG
1 TATGTATTTTTTTA-ACTATATTATG
**
66029065 TACATATTTTTTT
1 TATGTATTTTTTT
66029078 TTATATCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (25 bp):
TATGTATTTTTTTAACTATATTATG
Found at i:66031759 original size:40 final size:40
Alignment explanation
Indices: 66031704--66031971 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
66031694 GAGCATTGGA
66031704 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
66031744 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
66031784 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
66031824 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
66031864 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
66031904 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
66031944 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
66031972 AGGTGTTTGT
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:66040169 original size:40 final size:40
Alignment explanation
Indices: 66040100--66040404 Score: 482
Period size: 40 Copynumber: 7.8 Consensus size: 40
66040090 TGTTATGACA
66040100 TTGATTATATCC-GGCT-AGACCCGAAGGCAATTATGCGAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
66040139 ATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
66040179 TTGATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
66040218 TTGATGTATCCGGGCTAAGA-CCGAAGGCAA-TATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
**
66040256 TTGATATATCCGGGCTGTGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
66040296 ATGATATATCCGGGCT-AGA-CCGAA-GCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
66040333 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
* *
66040373 TTGATATATCCGGGTTATGACCCGAAGGCAAT
1 TTGATATATCCGGGCTAAGACCCGAAGGCAAT
66040405 GTGTTTGTGG
Statistics
Matches: 248, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
37 28 0.11
38 40 0.16
39 72 0.29
40 108 0.44
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
Found at i:66040301 original size:117 final size:117
Alignment explanation
Indices: 66040100--66040404 Score: 501
Period size: 117 Copynumber: 2.6 Consensus size: 117
66040090 TGTTATGACA
* *
66040100 TTGATTATATCC-GGCT-AGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCG
*
66040163 AAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCGAAGGCAATTATGCGAG
65 AAGGCAATTATGCGAGATGATATATCCGGGCT-AGACCGAA-GCAATTATGCGAG
* *
66040218 TTGATGTATCCGGGCTAAGA-CCGAAGGCAA-TATGCGAGTTGATATATCCGGGCTGTGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGA
66040281 AGGCAATTATGCGAGATGATATATCCGGGCTAGACCGAAGCAATTATGCGAG
66 AGGCAATTATGCGAGATGATATATCCGGGCTAGACCGAAGCAATTATGCGAG
*
66040333 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGTTATGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGA
66040398 AGGCAAT
66 AGGCAAT
66040405 GTGTTTGTGG
Statistics
Matches: 175, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
115 32 0.18
116 18 0.10
117 104 0.59
118 18 0.10
119 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (117 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGA
AGGCAATTATGCGAGATGATATATCCGGGCTAGACCGAAGCAATTATGCGAG
Found at i:66040316 original size:77 final size:80
Alignment explanation
Indices: 66040100--66040404 Score: 482
Period size: 77 Copynumber: 3.9 Consensus size: 80
66040090 TGTTATGACA
66040100 TTGATTATATCC-GGCT-AGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCG
66040163 AAGGCAATTATGCGAG
65 AAGGCAATTATGCGAG
* *
66040179 TTGATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTTGATGTATCCGGGCTAAGA-CCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGA
66040242 AGGCAA-TATGCGAG
66 AGGCAATTATGCGAG
**
66040256 TTGATATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCT-AGA-CCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGA
66040319 A-GCAATTATGCGAG
66 AGGCAATTATGCGAG
* * *
66040333 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGTTATGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGA
66040398 AGGCAAT
66 AGGCAAT
66040405 GTGTTTGTGG
Statistics
Matches: 208, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
76 4 0.02
77 94 0.45
78 52 0.25
79 50 0.24
80 8 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (80 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGA
AGGCAATTATGCGAG
Found at i:66042650 original size:18 final size:18
Alignment explanation
Indices: 66042618--66042652 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66042608 CATAGCACTT
66042618 AGGCACTTTAGCAACTAG
1 AGGCACTTTAGCAACTAG
66042636 AGGCAACTTTA-CAACTA
1 AGGC-ACTTTAGCAACTA
66042653 CGCGATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (18 bp):
AGGCACTTTAGCAACTAG
Found at i:66058971 original size:3 final size:3
Alignment explanation
Indices: 66058963--66059004 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
66058953 AAGCATAAAC
*
66058963 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66059005 CATTGGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66059127 original size:23 final size:22
Alignment explanation
Indices: 66059101--66059148 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
66059091 TGTATACACG
66059101 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
66059124 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
66059146 TAC
1 TAC
66059149 TAACAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:66059135 original size:3 final size:3
Alignment explanation
Indices: 66059104--66059169 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
66059094 ATACACGTAC
* * * *
66059104 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
66059151 ACA ATA CTA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA A
66059170 CAAGGATACT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:66059804 original size:18 final size:17
Alignment explanation
Indices: 66059773--66059806 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66059763 TTTTTTTTTA
66059773 TTTTTTTATGTTTATAC
1 TTTTTTTATGTTTATAC
*
66059790 TTTTTTGTATTTTTATA
1 TTTTTT-TATGTTTATA
66059807 TATATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTTTTATGTTTATAC
Found at i:66060942 original size:47 final size:47
Alignment explanation
Indices: 66060873--66061028 Score: 183
Period size: 47 Copynumber: 3.3 Consensus size: 47
66060863 TGCTTAAGAT
66060873 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*** *
66060920 CGAATGGCCAATGTGATGAATGTGAAAGTACATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
66060967 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
* *
66061012 TGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
66061029 AAAGTGTGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
45 20 0.22
46 6 0.07
47 65 0.71
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:66061154 original size:39 final size:40
Alignment explanation
Indices: 66061099--66061183 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
66061089 AAATAAATTG
* * * *
66061099 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
66061138 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
66061178 TGCTGG
1 TGCTGG
66061184 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:66073122 original size:99 final size:98
Alignment explanation
Indices: 66072941--66073322 Score: 394
Period size: 99 Copynumber: 3.9 Consensus size: 98
66072931 AATTTCCGTT
* * *
66072941 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACG
1 TTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
66073006 CCGAGGTATTTTTAATTTTTTTTTTCAAATTCTGC
65 CTGAGGTATTTTCAATTTTTTTTTTCAAATT-TGC
* *
66073041 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
66073106 TAAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCC
66 TGAGGTATTTTCAATTT-TTTTTTTCAA-ATTTG-C
** * **
66073142 TTACAAATTCTGCTTTTC--AAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
66073205 TGAGGTATTTTCAA------TTTTC--GTTT--
66 TGAGGTATTTTCAATTTTTTTTTTCAAATTTGC
* * * * *
66073228 TGTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCACAGGACAC
1 TTTTAATTTCTGCTTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
66073292 GCTGAGGTAATTTCAATTTTTGTTTGTCAAA
64 GCTGAGGTATTTTCAATTTTT-TTTTTCAAA
66073323 ACTCAACTCA
Statistics
Matches: 236, Mismatches: 30, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
85 3 0.01
86 8 0.03
89 57 0.24
92 5 0.02
96 4 0.02
99 127 0.54
100 15 0.06
101 17 0.07
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (98 bp):
TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTTTTTTTTCAAATTTGC
Found at i:66073428 original size:75 final size:73
Alignment explanation
Indices: 66073232--66073835 Score: 717
Period size: 75 Copynumber: 8.2 Consensus size: 73
66073222 TCGTTTTGTT
* * * * *
66073232 AATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCACAGGACACGCTG
1 AATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
66073296 AGGTAATTTC
65 AGGT-ATTTC
* * *
66073306 AATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
*
66073369 ATGTATTTCC
65 AGGTATTT-C
* * *
66073379 AATTTCTGTTTTACAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGATG
1 AATTTCTGTTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
66073444 AGGTAATTTC
65 AGGT-ATTTC
*
66073454 AATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGA
1 AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
66073517 GGTATTTTC
66 GGTA-TTTC
* * * *
66073526 AATTTGTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
1 AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
66073591 AGGTATTTTC
65 AGGTA-TTTC
* * *
66073601 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTG
1 AATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
66073664 AGGTAATTTC
65 AGGT-ATTTC
* * *
66073674 AATTTTTATTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTG
1 AATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
66073737 AGGTATTTTC
65 AGGTA-TTTC
* * * * *
66073747 AATTTCTGTCTTTCAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTAAACCTCAAG--ACGCTG
1 AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
*
66073810 AGGTGTTTTC
65 AGGT-ATTTC
*
66073820 CATTTCTGTTCTTCAA
1 AATTTCTGTT-TTCAA
66073836 TTTCTGTGTT
Statistics
Matches: 463, Mismatches: 45, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
71 40 0.09
72 71 0.15
73 128 0.28
74 11 0.02
75 206 0.44
76 7 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (73 bp):
AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTATTTC
Found at i:66073522 original size:147 final size:147
Alignment explanation
Indices: 66073245--66073829 Score: 724
Period size: 147 Copynumber: 4.0 Consensus size: 147
66073235 TTATGTTTCT
* * * *
66073245 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCACAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATT
* * * * *
66073310 TTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGATGT-
66 TCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC--TGAGGTA
66073373 ATTTCCAATTTCTGTTTTAC
128 ATTTCCAATTTCTGTTTTAC
* *
66073393 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATT
*
66073458 TCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGT-A
66 TCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC--TGAGGTAA
* *
66073521 TTTTCAATTTGTGTCTTTA-
129 TTTCCAATTTCTGT-TTTAC
* * * *
66073540 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATT
* *
66073605 TCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAA
66 TCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTAA
* *
66073670 TTT-CAATTTTTATTTGT-C
129 TTTCCAATTTCTGTTT-TAC
*
66073688 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC-ATTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGA-TGAGGTAATTTCAAT
* * * * *
66073750 TTCTGTCTTTCAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTAAACCTCAAGACGCTGAGGTG
65 TTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTA
*
66073815 TTTTCC-ATTTCTGTT
128 ATTTCCAATTTCTGTT
66073830 CTTCAATTTC
Statistics
Matches: 394, Mismatches: 33, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
145 1 0.00
146 126 0.32
147 130 0.33
148 91 0.23
149 4 0.01
150 42 0.11
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (147 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATT
TCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTAATT
TCCAATTTCTGTTTTAC
Found at i:66073942 original size:15 final size:14
Alignment explanation
Indices: 66073906--66073938 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
66073896 CGCTGAGGTA
66073906 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
66073920 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
66073934 TTTTC
1 TTTTC
66073939 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:66074012 original size:89 final size:89
Alignment explanation
Indices: 66073742--66074282 Score: 474
Period size: 87 Copynumber: 6.0 Consensus size: 89
66073732 CATTGAGGTA
* * * * * *
66073742 TTTTCAATTTCTGTCTTTCAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTAAACCTCA--AGA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
* *
66073805 CGCTGAGGTGTTTTCCATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
* * * * * *
66073829 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCAT-TTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GC
*
66073893 ACACGCTGAGGTATTTTCAAATTCTGT
63 ACACGCTGAGGTATTTTCAATTTCTGT
* * *
66073920 TTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTTC-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCAC
* *
66073984 ACGCTGAGATATTTTCAATTTCTTT
65 ACGCTGAGGTATTTTCAATTTCTGT
* * *
66074009 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CA
* * *
66074074 CACGCCGAGGTATTTTCAATTGATTTTT
64 CACGCTGAGGTATTTTCAATT--TCTGT
* * * * * * *
66074102 ATTTTTATTTTATGTTTTGC--AAAAATCAACTCATATTACGACAGGTGAGTTGAGCCTCGGGTC
1 -TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-C
** * **
66074165 ACATACCGAGGTATTTTCAAAATCTGT
63 ACACGCTGAGGTATTTTCAATTTCTGT
* * ** *
66074192 TTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTC-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCAC
* *
66074252 ACGTGCTGAGCTATTTTCAATTTTTGT
65 AC--GCTGAGGTATTTTCAATTTCTGT
66074279 TTTT
1 TTTT
66074283 AATGTTTAGT
Statistics
Matches: 375, Mismatches: 62, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 89 0.24
88 25 0.07
89 80 0.21
90 23 0.06
91 73 0.19
92 60 0.16
93 5 0.01
94 15 0.04
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (89 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:66074060 original size:180 final size:177
Alignment explanation
Indices: 66073742--66074337 Score: 538
Period size: 179 Copynumber: 3.4 Consensus size: 177
66073732 CATTGAGGTA
* * * * * *
66073742 TTTTCAATTTCTGTCTTTCAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTAAACCTCA--AGA
1 TTTTCAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACA
* * * *
66073805 CGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCAT-TTGC
65 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGC
*
66073869 GAG-TGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
127 GAGAT-GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTATGT
*
66073920 TTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTC-AATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACA
* *
66073985 CGCTGAGATATTTTCAATTTCTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
65 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCG
* * *
66074050 AGATGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTC-AATTGATTTT
128 AGATGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAAATT-A-TGT
** * * * * * *
66074101 TATTTTTATTTTATGTTTTGC-AAAAATCAACTCATATTACGACAGGTGAGTTGAGCCTCGGGTC
1 T-TTTCAATTTTGT-TTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG--
** * ** *
66074165 ACATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTG
62 ACACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTG
* * ** * * *
66074227 CGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGT
126 CGAGATGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTATGT
* * * **
66074279 TTTT-AATGTTTAG-TTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTTCAAT-TTT-GTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGA
66074338 TCACATGCCG
Statistics
Matches: 344, Mismatches: 55, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
172 1 0.00
174 5 0.01
175 26 0.08
176 6 0.02
177 6 0.02
178 52 0.15
179 78 0.23
180 78 0.23
181 49 0.14
182 9 0.03
183 29 0.08
184 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (177 bp):
TTTTCAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGA
TGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTATGT
Found at i:66074244 original size:87 final size:88
Alignment explanation
Indices: 66073763--66074349 Score: 418
Period size: 87 Copynumber: 6.6 Consensus size: 88
66073753 TGTCTTTCAA
* * * * * * * * *
66073763 AAAAATTAGCTCATATTGCGAGAGGTGAGTTAAACCTC--A--AGACGCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAAAT
*
66073824 TCTGTTCTTC-AATTTCTGTGTTTC
66 TCTGTTTTTCAAATTT-TGT-TTTC
* * * *
66073848 AAAAAAAATCAGCTCAT-TTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-TCACACGCCGAGGTATTTTC
66073911 AAATTCTGTTTTTCAAATTTTGTTTTTCC
62 AAATTCTGTTTTTCAAATTTTG-TTTT-C
* * *
66073940 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGCTGAGATATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAGGTATTTTCAA
* *
66074002 TTTCTTTTTTTC-AATTTATGTTTGTC
64 ATTCTGTTTTTCAAATTT-TGTTT-TC
* *
66074028 AAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAA
** *
66074093 TTGATT-T-TTATTTTTATTTTATGTTTTGC
64 ---ATTCTGTT-TTTCAAATTT-TGTTTT-C
* * * ** *
66074122 AAAAATCAACTCATATTACGACAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAAAT
*
66074187 TCTGTTTTACAAATTTTGTTTT-
66 TCTGTTTTTCAAATTTTGTTTTC
* * * ** * * *
66074209 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAAAT
*
66074274 TTTGTTTTT--AATGTTTAGTTTT-
66 TCTGTTTTTCAAAT-TTT-GTTTTC
* * ** * *
66074296 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAG
66074350 TAAAGAATAA
Statistics
Matches: 413, Mismatches: 57, Indels: 58
0.78 0.11 0.11
Matches are distributed among these distances:
85 3 0.01
86 3 0.01
87 90 0.22
88 63 0.15
89 77 0.19
90 21 0.05
91 72 0.17
92 65 0.16
93 6 0.01
94 13 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAAAT
TCTGTTTTTCAAATTTTGTTTTC
Found at i:66076329 original size:46 final size:46
Alignment explanation
Indices: 66076262--66076390 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
66076252 TGTAACCCGC
* * *
66076262 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
66076308 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
* *
66076354 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA
66076391 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:66077713 original size:30 final size:30
Alignment explanation
Indices: 66077678--66077806 Score: 213
Period size: 30 Copynumber: 4.3 Consensus size: 30
66077668 TTACACTTTG
*
66077678 CCACCACCAACTCCACCAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
66077708 CCACCACCAACTCTACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
66077738 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
66077768 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66077798 CCACCACCA
1 CCACCACCA
66077807 CTTGTACCTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:66077771 original size:18 final size:18
Alignment explanation
Indices: 66077688--66077743 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
66077678 CCACCACCAA
66077688 CTCCACCAGCCACACTTG
1 CTCCACCAGCCACACTTG
66077706 CTCCACCA-CCA-AC-T-
1 CTCCACCAGCCACACTTG
*
66077720 CT--ACTAGCCACACTTG
1 CTCCACCAGCCACACTTG
66077736 CTCCACCA
1 CTCCACCA
66077744 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 4 0.13
15 2 0.07
16 4 0.13
17 3 0.10
18 11 0.37
ACGTcount: A:0.25, C:0.50, G:0.07, T:0.18
Consensus pattern (18 bp):
CTCCACCAGCCACACTTG
Found at i:66078382 original size:23 final size:24
Alignment explanation
Indices: 66078289--66078422 Score: 87
Period size: 23 Copynumber: 5.7 Consensus size: 24
66078279 TTTTTTTTGT
* * *
66078289 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATATATTAATACTA
** *
66078312 TATTATGTATATAT-TCTTTTAATA
1 TATTATGTATATATAT-TAATACTA
* * * *
66078336 TATTAGGTATAT-TCTAAATTCTA
1 TATTATGTATATATATTAATACTA
*
66078359 TATTACGTATATATATT-ATACTA
1 TATTATGTATATATATTAATACTA
* * *
66078382 TTTTATGTATATATCTTTAATACTT
1 TATTATGTATATAT-ATTAATACTA
*
66078407 TATTATTTATATATAT
1 TATTATGTATATATAT
66078423 ATTTTTTACA
Statistics
Matches: 84, Mismatches: 21, Indels: 11
0.72 0.18 0.09
Matches are distributed among these distances:
23 39 0.46
24 28 0.33
25 17 0.20
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTATGTATATATATTAATACTA
Found at i:66078394 original size:25 final size:26
Alignment explanation
Indices: 66078366--66078425 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
66078356 CTATATTACG
66078366 TATATATATT-ATACTATT-TTATGTA
1 TATATATATTAATACT-TTATTATGTA
* *
66078391 TATATCT-TTAATACTTTATTATTTA
1 TATATATATTAATACTTTATTATGTA
66078416 TATATATATT
1 TATATATATT
66078426 TTTTACATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.14
25 23 0.79
26 2 0.07
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATATTAATACTTTATTATGTA
Found at i:66078416 original size:29 final size:28
Alignment explanation
Indices: 66078383--66078491 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 28
66078373 ATTATACTAT
*
66078383 TTTATGTATATATCTTTAATACTTTATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * *
66078412 TTTATATATATATTTT-TTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
66078438 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
66078465 TGTATGTAT-TATTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
66078491 T
1 T
66078492 GTACATATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 1 0.02
25 6 0.09
26 20 0.30
27 23 0.35
28 4 0.06
29 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:66078465 original size:22 final size:23
Alignment explanation
Indices: 66078420--66078502 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 23
66078410 TATTTATATA
* *
66078420 TATATTTTTTACATGTTATCTTATG
1 TATATATTTTACA--TTATATTATG
66078445 TATATATTTTA-ATTATATTATG
1 TATATATTTTACATTATATTATG
*
66078467 TATGTATTATTTTACACTATATTATG
1 TA--TA-TATTTTACATTATATTATG
*
66078493 TACATATTTT
1 TATATATTTT
66078503 TTTTATATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
22 11 0.22
23 6 0.12
24 4 0.08
25 17 0.34
26 12 0.24
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TATATATTTTACATTATATTATG
Found at i:66078465 original size:27 final size:26
Alignment explanation
Indices: 66078373--66078491 Score: 91
Period size: 26 Copynumber: 4.4 Consensus size: 26
66078363 ACGTATATAT
*
66078373 ATTATACTATTTTATGTATATATCTTTA
1 ATTATATTA-TTTATGTATATAT-TTTA
* *
66078401 ATACTTTATTATTTATATATATATTTT-
1 AT--TATATTATTTATGTATATATTTTA
*
66078428 -TTACATGTTATCTTATGTATATATTTTA
1 ATT--ATATTAT-TTATGTATATATTTTA
*
66078456 ATTATATTATGTATGTAT-TATTTTA
1 ATTATATTATTTATGTATATATTTTA
*
66078481 CACTATATTAT
1 -ATTATATTAT
66078492 GTACATATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
24 1 0.01
25 7 0.09
26 22 0.30
27 20 0.27
28 5 0.07
29 14 0.19
30 5 0.07
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTATATTATTTATGTATATATTTTA
Found at i:66078594 original size:25 final size:24
Alignment explanation
Indices: 66078566--66078621 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
66078556 GTTATATTTT
*
66078566 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
66078591 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
66078614 CACTATTA
1 CACTATTA
66078622 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:66079585 original size:39 final size:39
Alignment explanation
Indices: 66079485--66079588 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 39
66079475 GTTTATAAAA
* * * **
66079485 TAATTATATGAGGATTGGGAAATATGCTTGAATGTTATG
1 TAATTATATGAGTATTGCGATATATGCTTGAACATTATG
* * *
66079524 TGATCATATGAGTATTGCGATATGTGCTTGAACATTATG
1 TAATTATATGAGTATTGCGATATATGCTTGAACATTATG
**
66079563 TAATTATATGAGTATTATGATATATG
1 TAATTATATGAGTATTGCGATATATG
66079589 TTTAAATGTT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (39 bp):
TAATTATATGAGTATTGCGATATATGCTTGAACATTATG
Found at i:66083665 original size:3 final size:3
Alignment explanation
Indices: 66083657--66083714 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
66083647 AATTTGATTC
66083657 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66083705 TAT TAT TAT T
1 TAT TAT TAT T
66083715 TGTGAAATTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66088548 original size:29 final size:29
Alignment explanation
Indices: 66088506--66088569 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
66088496 ATTTATTTCT
*
66088506 ATATAAAAGATAAAAATACCTTCAAAATA
1 ATATAAAAGATAAAAACACCTTCAAAATA
* *
66088535 ATATAAAAGATAAAAACACTTTTAAAATA
1 ATATAAAAGATAAAAACACCTTCAAAATA
66088564 ATATAA
1 ATATAA
66088570 TTACCTACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (29 bp):
ATATAAAAGATAAAAACACCTTCAAAATA
Found at i:66104246 original size:28 final size:28
Alignment explanation
Indices: 66104214--66104297 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
66104204 AACTGTGATC
66104214 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
66104242 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
66104264 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
66104292 ACGTGT
1 ACGTGT
66104298 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:66104337 original size:49 final size:49
Alignment explanation
Indices: 66104166--66104403 Score: 314
Period size: 49 Copynumber: 4.8 Consensus size: 49
66104156 TGAGGTTGCA
* * * * *
66104166 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
66104217 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
66104267 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
66104316 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
66104365 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66104404 GCTTTGGCTA
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 89 0.53
50 45 0.27
51 33 0.20
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:66104342 original size:99 final size:100
Alignment explanation
Indices: 66104164--66104403 Score: 331
Period size: 99 Copynumber: 2.4 Consensus size: 100
66104154 TGTGAGGTTG
* * *
66104164 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTGTGATCACGTGTGTAGTACTA
* **
66104229 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * * *
66104265 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTGTGATCACGTGTGTAGTACTA
* * *
66104328 AGTGTAGGCTACTACGTGTACCGGATAATTGGTCG
66 AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
*
66104363 CATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
66104404 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 41 0.33
99 44 0.36
100 1 0.01
101 37 0.30
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTGTGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:66115108 original size:42 final size:41
Alignment explanation
Indices: 66114990--66115108 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 41
66114980 GTACTAAGGC
* * **
66114990 CATATCCCAAATATGGTCTTACATGTAATCTTGTATCGATGG
1 CATATCCC-AATATGGTCTTACACGTAGTCTCATATCGATGG
* ** * * *
66115032 CAATAGCCCAACTATGGTCTTACACAAAGCCTCATATTGATGT
1 C-ATATCCCAA-TATGGTCTTACACGTAGTCTCATATCGATGG
66115075 CATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 CATATCCCA-ATATGGTCTTACACGTAGTCTCAT
66115109 TAACCCTAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (41 bp):
CATATCCCAATATGGTCTTACACGTAGTCTCATATCGATGG
Found at i:66121543 original size:21 final size:22
Alignment explanation
Indices: 66121508--66121551 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
66121498 TTCATCAAAC
*
66121508 GGAAACAACATCAAGTCGGCCA
1 GGAAACAACATCAAGTCAGCCA
66121530 GGAAACAA-ATCAAGTCAGCCA
1 GGAAACAACATCAAGTCAGCCA
66121551 G
1 G
66121552 AAAATAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.43, C:0.25, G:0.23, T:0.09
Consensus pattern (22 bp):
GGAAACAACATCAAGTCAGCCA
Found at i:66140429 original size:40 final size:40
Alignment explanation
Indices: 66140372--66140563 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
66140362 CGGATGATAA
* *
66140372 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
66140412 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
66140452 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
66140492 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * * * *
66140532 CCGGGATATGCCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
66140564 AGCTATATCC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
40 136 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:66147361 original size:27 final size:26
Alignment explanation
Indices: 66147344--66147413 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
66147334 ATATTAAGTC
66147344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
66147371 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
66147399 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
66147414 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:66147407 original size:28 final size:28
Alignment explanation
Indices: 66147344--66147441 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
66147334 ATATTAAGTC
*
66147344 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66147371 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66147399 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66147428 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66147442 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66147905 original size:12 final size:12
Alignment explanation
Indices: 66147888--66147913 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66147878 TGGGCATACT
66147888 TATGTATATATA
1 TATGTATATATA
66147900 TATGTATATATA
1 TATGTATATATA
66147912 TA
1 TA
66147914 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:66151998 original size:40 final size:40
Alignment explanation
Indices: 66151943--66152125 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
66151933 CGGATGATAA
* * * *
66151943 CCGGGCCATGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
66151983 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
66152023 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
66152063 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * *
66152103 CCAGGCTATGCCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
66152126 CGAGTGAGTA
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:66157599 original size:28 final size:28
Alignment explanation
Indices: 66157568--66157667 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
66157558 TCGATATTTT
*
66157568 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
66157596 GCACACTACGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * * * * * *
66157624 GTACACTGAGTGCCATATTTGATTACCCC
1 GCACACTAAGTGCCAT-TCTCAATATCTC
66157653 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
66157668 CATTTAGTCG
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 38 0.67
29 19 0.33
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:66165979 original size:57 final size:58
Alignment explanation
Indices: 66165900--66166022 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 58
66165890 CAAGTCTAGA
* * * *
66165900 CTAAATCCTTTTCGTAATATATGTTCAAAAGAG-CTAAATTAGGATTACCAGTCCAAG
1 CTAAATCCTATTCGTAACATATGCTCAAAAGAGACTAAATCAGGATTACCAGTCCAAG
* * * * * *
66165957 CTAAATCCTAATT-GTAACATATGCTCGAGAGGGATTATATCAGGATTACCAGTCCAGG
1 CTAAATCCT-ATTCGTAACATATGCTCAAAAGAGACTAAATCAGGATTACCAGTCCAAG
66166015 CTAAATCC
1 CTAAATCC
66166023 CATCAGCAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
57 24 0.44
58 30 0.56
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (58 bp):
CTAAATCCTATTCGTAACATATGCTCAAAAGAGACTAAATCAGGATTACCAGTCCAAG
Found at i:66170328 original size:40 final size:40
Alignment explanation
Indices: 66170273--66170529 Score: 387
Period size: 40 Copynumber: 6.5 Consensus size: 40
66170263 CGGATGATAA
* *
66170273 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
66170313 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66170353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66170393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66170432 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66170472 CCGGGCTAAGTCCCGAAGGCATCTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
66170512 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66170530 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
39 56 0.28
40 145 0.72
41 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66170469 original size:79 final size:80
Alignment explanation
Indices: 66170273--66170529 Score: 387
Period size: 79 Copynumber: 3.2 Consensus size: 80
66170263 CGGATGATAA
* * *
66170273 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
66170337 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
66170353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
66170418 TGCGAGTTACTAT-T
66 TGCGAGTTACTATAT
* * *
66170432 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATCTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
66170497 AGCGAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
66170512 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66170530 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
78 2 0.01
79 87 0.53
80 74 0.45
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:66179590 original size:27 final size:27
Alignment explanation
Indices: 66179534--66179645 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
66179524 AGGAAGCGTC
* *
66179534 CTGGTGGCTATGCTACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
66179561 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
* *
66179588 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
66179616 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
66179642 CTGG
1 CTGG
66179646 CAGACATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.12
27 45 0.62
28 17 0.24
29 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:66185306 original size:47 final size:47
Alignment explanation
Indices: 66185221--66185583 Score: 550
Period size: 47 Copynumber: 7.6 Consensus size: 47
66185211 GTATATTTGA
* *
66185221 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
66185270 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
66185317 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
66185364 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
* *
66185413 ATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
66185460 ATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
66185507 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
66185554 ATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
66185584 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 233 0.79
49 60 0.20
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:66185384 original size:143 final size:143
Alignment explanation
Indices: 66185221--66185583 Score: 572
Period size: 143 Copynumber: 2.6 Consensus size: 143
66185211 GTATATTTGA
* *
66185221 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
* * * *
66185286 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCC
66 ATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCC
66185350 GAATGGCCAATGTG
130 GAATGGCCAATGTG
66185364 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
* * *
66185428 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCC
65 TATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCC
66185493 GAATGGCCAATGTG
130 GAATGGCCAATGTG
* *
66185507 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
*
66185570 ATAAATGTGATAAG
66 ATATATGTGATAAG
66185584 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
140 1 0.00
141 55 0.27
143 145 0.71
144 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
AATGGCCAATGTG
Found at i:66189851 original size:27 final size:27
Alignment explanation
Indices: 66189827--66190012 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
66189817 CTCAATTTGT
* *
66189827 AGAATTACCATTTTACCTTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
66189854 AGAATTACCGTTTCACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
66189881 AAAATTACCGTTTTATCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
66189908 AGAATTACCATTTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
66189935 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
66189962 AAAATTACCATTTTACCCTC-AGTTTAA
1 AGAATTACCATTTTACCCTCGA-TTTAC
* *
66189989 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
66190013 GTGAAATTAC
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:66189932 original size:81 final size:80
Alignment explanation
Indices: 66189815--66190012 Score: 263
Period size: 81 Copynumber: 2.4 Consensus size: 80
66189805 TACTGAAATG
* * *
66189815 CCCTCAATTTGTAGAATTACCATTTTA-CCTTCGATTTATAGAATTACCGTTTCACCCTCGATTT
1 CCCTC-ATTTATAGAATTACCATTTTACCCTT-GATTTACAGAATTACCATTTCACCCTCGATTT
*
66189879 ACAAAATTACCGTTTTA
64 ACAAAATTACCATTTTA
* *
66189896 TCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
66189961 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
* * * *
66189977 CCCTCAGTTTAAAAAATTACCGTTTTACCCTCGATT
1 CCCTCA-TTTATAGAATTACCATTTTACCCTTGATT
66190013 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 98 0.95
82 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (80 bp):
CCCTCATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:66190061 original size:27 final size:26
Alignment explanation
Indices: 66190044--66190141 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 26
66190034 TGTAGGATAG
66190044 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
66190071 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
* **
66190098 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTAG-TTTGTAA
66190125 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
66190142 TGACTTTCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
26 7 0.11
27 58 0.89
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:66190088 original size:54 final size:54
Alignment explanation
Indices: 66190002--66190140 Score: 124
Period size: 54 Copynumber: 2.6 Consensus size: 54
66189992 ATTACCGTTT
* * ** * *
66190002 TACCCTCGA-TTGTGAAATTACTGAAATCCCCCT-GTAGGATAGAATTACCAAAA
1 TACCCTAGATTTGTAAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAA
**
66190055 TATCCCTAG-TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCTAGATTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
* **
66190109 TACCCTTGATTTACAAAATTA-CAGAAATACCC
1 TACCCTAGATTTGTAAAATTACCA-AAATACCC
66190141 TTGACTTTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
53 9 0.13
54 58 0.83
55 3 0.04
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
TACCCTAGATTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
Found at i:66190164 original size:29 final size:27
Alignment explanation
Indices: 66190096--66190198 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 27
66190086 CCTAGTTTGT
66190096 AAAATTACCA-AAATACCCTTGATTTAC
1 AAAATTA-CAGAAATACCCTTGATTTAC
66190123 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTTGA-TTTAC
* * *
66190150 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAGAAATACCCTTGATTTAC
* *
66190179 -AAGTTACTGAAATACCCTTG
1 AAAATTACAGAAATACCCTTG
66190199 GTTTGTAGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
26 18 0.28
27 20 0.31
28 6 0.09
29 20 0.31
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGATTTAC
Found at i:66190199 original size:26 final size:26
Alignment explanation
Indices: 66190097--66190202 Score: 88
Period size: 26 Copynumber: 3.9 Consensus size: 26
66190087 CTAGTTTGTA
** *
66190097 AAATTACCAAAATACCCTTGATTTAC
1 AAATTACTGAAATACCCTTGGTTTAC
* * *
66190123 AAAATTACAGAAATACCCTTGACTTTCTAA
1 -AAATTACTGAAATACCCTTG--GTT-TAC
*
66190153 AAATTA-TAGAAATACCATTGGTTTAC
1 AAATTACT-GAAATACCCTTGGTTTAC
*
66190179 AAGTTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
66190203 GTAGATTTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
26 22 0.34
27 21 0.33
29 19 0.30
30 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTACTGAAATACCCTTGGTTTAC
Found at i:66190320 original size:27 final size:26
Alignment explanation
Indices: 66190243--66190320 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
66190233 AAATGACTAA
* *
66190243 AATACCCCTAATAGGTAAAAAGACCGT
1 AATACCCCTTAT-GGTAAAATGACCGT
* *
66190270 AA-AGCCCCTATAGGGTAAATTGACCGT
1 AATA-CCCCT-TATGGTAAAATGACCGT
66190297 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCT-TATGGTAAAATGAC
66190321 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
AATACCCCTTATGGTAAAATGACCGT
Found at i:66191163 original size:25 final size:24
Alignment explanation
Indices: 66191125--66191194 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
66191115 AGGAAGTGCT
* *
66191125 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
66191149 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
66191174 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
66191195 ATTGAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:66191401 original size:42 final size:42
Alignment explanation
Indices: 66191342--66191475 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
66191332 TAGTCTCCCC
* *
66191342 AAATGGGCTTGCATACATTCATTGACATTACATTTGATACTG
1 AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
*
66191384 AAATGGGCTTGCATACATTCATTGGCATTACATATGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
* * *
66191426 AAATGAGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
66191468 AAATGGGC
1 AAATGGGC
66191476 CTAAGGGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
Found at i:66191537 original size:31 final size:31
Alignment explanation
Indices: 66191499--66191582 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
66191489 CGTTTACAGT
66191499 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
* * *
66191530 AAAGGCTTCGGCCCAGTGATATGATTTTTGG
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
66191561 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
66191583 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:66199394 original size:27 final size:27
Alignment explanation
Indices: 66199353--66199533 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
66199343 CCTTAATCAA
* * * * *
66199353 TAAAATGATTATTTTGTCGTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
66199380 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
66199407 TAAAATGACTATTTTGCCTTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * * *
66199434 TAAGATGACCGTTTTGCCATTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
66199461 TAAAATGACTGTTTTG-CCTTATTATGG
1 TAAAATGACTGTTTTGCCCTTA-TATGG
*
66199488 TAAAATGACTGTTTTACCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
66199515 TAAAATGATTGTTTTGCCC
1 TAAAATGACTGTTTTGCCC
66199534 CTATGTGATG
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.03
27 124 0.93
28 5 0.04
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:66199540 original size:81 final size:81
Alignment explanation
Indices: 66199353--66199532 Score: 263
Period size: 81 Copynumber: 2.2 Consensus size: 81
66199343 CCTTAATCAA
* * *
66199353 TAAAATGATTATTTTGTCGTTATGTGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTA
1 TAAAATGATTGTTTTGCCATTATGTGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTA
* *
66199418 TTTTGCCTTTATATGG
66 TTTTACCCTTATATGG
* **
66199434 TAAGATGACCGTTTTGCCATTATGTGGTAAAATGACTGTTTTG-CCTTATTATGGTAAAATGACT
1 TAAAATGATTGTTTTGCCATTATGTGGTAAAATGACTGTTTTGCCCTTA-TATGGTAAAATGACT
*
66199498 GTTTTACCCTTATATGG
65 ATTTTACCCTTATATGG
66199515 TAAAATGATTGTTTTGCC
1 TAAAATGATTGTTTTGCC
66199533 CCTATGTGAT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 5 0.06
81 81 0.94
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (81 bp):
TAAAATGATTGTTTTGCCATTATGTGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTA
TTTTACCCTTATATGG
Found at i:66201708 original size:28 final size:28
Alignment explanation
Indices: 66201668--66201748 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
66201658 TGGGAAGTAG
* * *
66201668 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* * *
66201696 TTGGGCCTAATGGGCCATGTCAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
66201724 TTGGGCCTAAATTGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
66201749 AAGTGTGTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 30 0.73
29 11 0.27
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGAGA
Found at i:66202077 original size:27 final size:27
Alignment explanation
Indices: 66202047--66202410 Score: 393
Period size: 27 Copynumber: 13.6 Consensus size: 27
66202037 TAATAAAGAG
66202047 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
66202074 AAATTACCGAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
66202100 AAATTACTAAAATACCCTCGATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
66202127 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
66202153 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
66202180 AAATTA-TGAAAATACCCTCGATTATG--
1 AAATTACTG-AAATACCCTCGATT-TGTA
* * *
66202206 AAATTACTAAAATACCCTTGATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
* ** *
66202233 AAATTACTAAAATACCCTTAAATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
66202260 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
66202287 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
66202314 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
66202341 GAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
66202368 AAATTACCAAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
66202395 AAATTATTGAAATACC
1 AAATTACTGAAATACC
66202411 TTGTAGTGTA
Statistics
Matches: 287, Mismatches: 39, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
25 1 0.00
26 67 0.23
27 217 0.76
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:66202129 original size:53 final size:53
Alignment explanation
Indices: 66202047--66202427 Score: 408
Period size: 53 Copynumber: 7.1 Consensus size: 53
66202037 TAATAAAGAG
*
66202047 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* * *
66202100 AAATTACTAAAATACCCTCGATTTTTAAAATTATCGAAATACCCTCGATTGTG
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* * * * *
66202153 AAATTATTAAAATACCCTCGACTTGTAAAATTA-TGAAAATACCCTCGATTATG
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCG-AAATACCCTCGATTGTA
* * ** **
66202206 AAATTACTAAAATACCCTTGATTTTTAAAATTACTAAAATACCCTTAAATTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCC-TCGATTGTA
* * * *
66202260 AAATTA-TCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTA
** * * *
66202314 AAATTACCGAAATACCCTTGATTTGTAGAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTA
* * * ** * *
66202368 AAATTACCAAAACACCCCCGATTTGTAAAATTATTGAAATA-CCTTGTAGTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCG-ATTGTA
66202421 AAATTAC
1 AAATTAC
66202428 CGAAATGCCC
Statistics
Matches: 280, Mismatches: 41, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.00
53 150 0.54
54 129 0.46
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (53 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
Found at i:66202447 original size:27 final size:26
Alignment explanation
Indices: 66202283--66202451 Score: 90
Period size: 27 Copynumber: 6.3 Consensus size: 26
66202273 ACCCTCGATT
* * ** *
66202283 TGTAAAATTATCGAAATACCCTCAATT
1 TGTAAAATTACCGAAATACCTTGTA-G
*
66202310 TGTAAAATTACCGAAATACCCTTG-ATT
1 TGTAAAATTACCGAAATA-CCTTGTA-G
* * ** *
66202337 TGTAGAATTACCGAAATACCCTCAATT
1 TGTAAAATTACCGAAATACCTTGTA-G
* * ** *
66202364 TGTAAAATTACCAAAACACCCCCG-ATT
1 TGTAAAATTACCGAAATA-CCTTGTA-G
**
66202391 TGTAAAATTATTGAAATACCTTGTAG
1 TGTAAAATTACCGAAATACCTTGTAG
*
66202417 TGTAAAATTACCGAAATGCCCTTGTAG
1 TGTAAAATTACCGAAAT-ACCTTGTAG
66202444 TGTAAAAT
1 TGTAAAAT
66202452 GACTGGCACA
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 21 0.18
27 89 0.77
28 6 0.05
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (26 bp):
TGTAAAATTACCGAAATACCTTGTAG
Found at i:66206051 original size:27 final size:27
Alignment explanation
Indices: 66206021--66206281 Score: 342
Period size: 27 Copynumber: 9.7 Consensus size: 27
66206011 CCTTAATCGA
* **
66206021 TAAAATGACTATTTTGCCCTTATGCGG
1 TAAAATGACTGTTTTGCCCTTATATGG
66206048 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
66206075 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * *
66206102 TAAGATGACTGTTTTGCCCTTATGTCG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
66206129 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
66206156 TAAAATGACTATTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * * *
66206183 TAAGATGACTGTTTTTCCCTTATGTCG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
66206210 TAAAATAACTGTTTTGCCTTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
66206237 TAAAATGACTATTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
66206264 TAAGATGACTGTTTTGCC
1 TAAAATGACTGTTTTGCC
66206282 TCTATGTGAT
Statistics
Matches: 202, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:66206288 original size:81 final size:81
Alignment explanation
Indices: 66206025--66206281 Score: 435
Period size: 81 Copynumber: 3.2 Consensus size: 81
66206015 AATCGATAAA
*
66206025 ATGACTATTTTGCCCTTATG-CGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTT
1 ATGACTGTTTTGCCCTTATGTC-GTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTT
*
66206089 TGCCCTTATATGGTAAG
65 TTCCCTTATATGGTAAG
* *
66206106 ATGACTGTTTTGCCCTTATGTCGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTT
1 ATGACTGTTTTGCCCTTATGTCGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTT
66206171 TCCCTTATATGGTAAG
66 TCCCTTATATGGTAAG
* * *
66206187 ATGACTGTTTTTCCCTTATGTCGTAAAATAACTGTTTTGCCTTTATATGGTAAAATGACTATTTT
1 ATGACTGTTTTGCCCTTATGTCGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTT
66206252 TCCCTTATATGGTAAG
66 TCCCTTATATGGTAAG
66206268 ATGACTGTTTTGCC
1 ATGACTGTTTTGCC
66206282 TCTATGTGAT
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
81 164 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (81 bp):
ATGACTGTTTTGCCCTTATGTCGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTT
TCCCTTATATGGTAAG
Found at i:66215350 original size:46 final size:46
Alignment explanation
Indices: 66215251--66215363 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 46
66215241 ATGAGAGCTT
* * *
66215251 GTGTAAGACCATGTCTGGGACATGGCATTGGCTTTGAGAGAAGTGCTA
1 GTGTAAGA-CATGTCTGGGACATGGCATTGGCCTCGAGAGAAG-GCCA
*
66215299 GTGTAAGACATGTCTGGGACAT-GTATTGGCCTCGAGACGTAA-GCCA
1 GTGTAAGACATGTCTGGGACATGGCATTGGCCTCGAGA-G-AAGGCCA
66215345 GTGTAAGACATGTCTGGGA
1 GTGTAAGACATGTCTGGGA
66215364 TAAGCATCGA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
46 34 0.58
47 15 0.25
48 10 0.17
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGGCATTGGCCTCGAGAGAAGGCCA
Found at i:66222502 original size:18 final size:19
Alignment explanation
Indices: 66222479--66222515 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
66222469 ATAAACTTGG
*
66222479 TACCATAA-TCATTTAATT
1 TACCATAATTCAATTAATT
66222497 TACCATAATTCAATTAATT
1 TACCATAATTCAATTAATT
66222516 CACTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (19 bp):
TACCATAATTCAATTAATT
Found at i:66222847 original size:30 final size:30
Alignment explanation
Indices: 66222813--66222873 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66222803 TCCTTAACTC
66222813 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66222843 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66222873 A
1 A
66222874 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66229365 original size:71 final size:67
Alignment explanation
Indices: 66229272--66229413 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
66229262 TCACCAGATA
* * *
66229272 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
66229337 GGCTGC
62 GGCTGC
* *
66229343 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
66229408 GC
66 GC
66229410 CAGA
1 CAGA
66229414 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:66229391 original size:27 final size:26
Alignment explanation
Indices: 66229343--66229394 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
66229333 GCGAGGCTGC
*
66229343 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
66229369 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
66229395 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:66230105 original size:27 final size:27
Alignment explanation
Indices: 66230075--66230190 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
66230065 GGGATCTCGA
**
66230075 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * **
66230102 TAATTCTACCTTACAGGGATATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
66230129 TAATTCTACCTTATAGGGG-ATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
66230155 TAATTCTGA-CCTATAGGGGTATTTCAG
1 TAATTCT-ACCCTACAGGGGTATTTCAG
66230182 TAATTCTAC
1 TAATTCTAC
66230191 AACTTATCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
26 22 0.28
27 57 0.72
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:66230185 original size:53 final size:54
Alignment explanation
Indices: 66230075--66230190 Score: 137
Period size: 53 Copynumber: 2.2 Consensus size: 54
66230065 GGGATCTCGA
** **
66230075 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCTTACAGGGATATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGATATTTCAG
* * * *
66230129 TAATTCTACCTTATAGGGG-ATTTCAGTAATTCTGACC-TATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCT-ACCTTACAGGGATATTTCAG
66230182 TAATTCTAC
1 TAATTCTAC
66230191 AACTTATCCG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 33 0.62
54 20 0.38
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGATATTTCAG
Found at i:66233915 original size:20 final size:20
Alignment explanation
Indices: 66233867--66233924 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
66233857 TTTTTATCAG
66233867 ATTTTTTTCGAAATTTTTTTT
1 ATTTTTTT-GAAATTTTTTTT
* ** *
66233888 CTAATTTTGAAGTTTTTTTT
1 ATTTTTTTGAAATTTTTTTT
66233908 ATTTTTTT-AAATTTTTT
1 ATTTTTTTGAAATTTTTT
66233925 CGAAACCTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (20 bp):
ATTTTTTTGAAATTTTTTTT
Found at i:66235667 original size:24 final size:24
Alignment explanation
Indices: 66235635--66235711 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
66235625 AAGTCTGTTA
66235635 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
66235659 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
66235683 GGAAAGGATTTAGAAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
66235707 GGAGA
1 GGAGA
66235712 ACAGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.36, C:0.04, G:0.39, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:66237146 original size:27 final size:26
Alignment explanation
Indices: 66237106--66237191 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
66237096 AGGAAGCGTC
* *
66237106 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
66237133 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
66237160 CTAGTGGCTCTGCCACGATTATCT-ATT
1 CTGGTGGCTCTGCCAC-ATTATCTGA-T
66237187 CTGGT
1 CTGGT
66237192 AACTTTTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:66243467 original size:24 final size:24
Alignment explanation
Indices: 66243435--66243511 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
66243425 AAGTCTGTTA
66243435 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
66243459 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
66243483 GGAAAGGATTTAGGATCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
66243507 GGAGA
1 GGAGA
66243512 ACAGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Done.