Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 258 of 297
Found at i:88102403 original size:39 final size:39
Alignment explanation
Indices: 88102282--88102413 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 39
88102272 GGTACTCATT
* *
88102282 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TTGCCCGGATT-TAGTAACTCGCA
*
88102322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-GCCCGGATTTAGTAACTCGCA
* * *
88102362 CAAATGCCTTCGGGACTTGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTGCCCGGATTTAGTAACTCGCA
88102401 CAAATGCCTTCGG
1 CAAATGCCTTCGG
88102414 ATCTTATTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
39 31 0.37
40 50 0.60
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTGCCCGGATTTAGTAACTCGCA
Found at i:88102766 original size:213 final size:213
Alignment explanation
Indices: 88102394--88102819 Score: 825
Period size: 213 Copynumber: 2.0 Consensus size: 213
88102384 GGAATTAGTA
* *
88102394 TCTCACACAAATGCCTTCGGATCTTATTCTGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
1 TCTCACACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
88102459 AGCCCGGACATCATTCGAATAACCATGCACATTTAACAATAAATCATGACACATTCGTATTTCAT
66 AGCCCGGACATCATTCGAATAACCATGCACATTTAACAATAAATCATGACACATTCGTATTTCAT
88102524 TGTCATTAGCAAAACTCAAACTCAAGACACTTATCACTCTTGCAATTTCGGCTCAATAGCCACAC
131 TGTCATTAGCAAAACTCAAACTCAAGACACTTATCACTCTTGCAATTTCGGCTCAATAGCCACAC
88102589 ACAAGGAGCATGATTTTG
196 ACAAGGAGCATGATTTTG
*
88102607 TCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
1 TCTCACACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
88102672 AGCCCGGACATCATTCGAATAACCATGCACATTTAACAATAAATCATGACACATTCGTATTTCAT
66 AGCCCGGACATCATTCGAATAACCATGCACATTTAACAATAAATCATGACACATTCGTATTTCAT
88102737 TGTCATTAGCAAAACTCAAACTCAAGACACTTATCACTCTTGCAATTTCGGCTCAATAGCCACAC
131 TGTCATTAGCAAAACTCAAACTCAAGACACTTATCACTCTTGCAATTTCGGCTCAATAGCCACAC
88102802 ACAAGGAGCATGATTTTG
196 ACAAGGAGCATGATTTTG
88102820 ATTTGCTTAA
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 210 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (213 bp):
TCTCACACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGACATCATTCGAATAACCATGCACATTTAACAATAAATCATGACACATTCGTATTTCAT
TGTCATTAGCAAAACTCAAACTCAAGACACTTATCACTCTTGCAATTTCGGCTCAATAGCCACAC
ACAAGGAGCATGATTTTG
Found at i:88105323 original size:43 final size:42
Alignment explanation
Indices: 88105261--88105345 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
88105251 AAGAGAACCA
*
88105261 CATCTAAAACACGCACCGCTCTTTATTCGGCCACTCTCCGAAG
1 CATCTAAAACACGCACCGCTCTTCATTCGG-CACTCTCCGAAG
* * *
88105304 CATCTAAAACTCGCCCCGCTCTTCATTCGGCACTTTCCGAAG
1 CATCTAAAACACGCACCGCTCTTCATTCGGCACTCTCCGAAG
88105346 TGAAATTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 11 0.29
43 27 0.71
ACGTcount: A:0.24, C:0.38, G:0.14, T:0.25
Consensus pattern (42 bp):
CATCTAAAACACGCACCGCTCTTCATTCGGCACTCTCCGAAG
Found at i:88108422 original size:40 final size:39
Alignment explanation
Indices: 88108373--88108555 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
88108363 GCTACTAGTT
* *
88108373 CAAAGGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCA
*
88108413 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-TTATAGTAACTCGCA
* ** *
88108453 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGTTA-TAGTAACTCGCA
* * * * *
88108492 CAAATGCCTTC-GGATCTTAGTTCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGTTATAGTAAC-TCGCA
*
88108533 CAAA-GCCTTTGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
88108556 GACATCATTC
Statistics
Matches: 115, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
38 3 0.03
39 30 0.26
40 67 0.58
41 15 0.13
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGTTATAGTAACTCGCA
Found at i:88108487 original size:39 final size:40
Alignment explanation
Indices: 88108401--88108504 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
88108391 AGCCCAGTTA
*
88108401 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
88108441 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
88108480 TAGTAACTCTCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
88108505 ATCTTAGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:88108518 original size:79 final size:80
Alignment explanation
Indices: 88108340--88108557 Score: 198
Period size: 79 Copynumber: 2.8 Consensus size: 80
88108330 GAATCACGTA
* * ** * * *
88108340 CCTTCGGAATTTAA-CCGGATATAGCT-AC-TAGTTCAAAGGCCTTCGGGACATAGCCCAG-TTA
1 CCTTCGGGACTTAACCCGGATATAG-TAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAAT-
88108401 TAGTAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
* * *
88108419 CCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTA
1 CCTTCGGGACTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTA
*
88108482 GTAACTCTCACAAATG
65 GTAACTCGCACAAATG
*** * *
88108498 CCTTC-GGATCTTAGTTCGGATATAGTCACTTAGCACAAAGCCTTTGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
88108558 CATCATTCGA
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
78 3 0.03
79 69 0.61
80 38 0.34
81 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:88112923 original size:29 final size:29
Alignment explanation
Indices: 88112870--88112934 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
88112860 CAAAGTTGTC
88112870 CACACGGGTAGACACACAGGCGTGTGTGA
1 CACACGGGTAGACACACAGGCGTGTGTGA
* * *
88112899 CGCACGGGTAGACGCAC-GAGTGTGTGTGA
1 CACACGGGTAGACACACAG-GCGTGTGTGA
88112928 CACACGG
1 CACACGG
88112935 CCAGCCCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.25, C:0.25, G:0.37, T:0.14
Consensus pattern (29 bp):
CACACGGGTAGACACACAGGCGTGTGTGA
Found at i:88119413 original size:47 final size:47
Alignment explanation
Indices: 88119343--88120018 Score: 965
Period size: 47 Copynumber: 14.4 Consensus size: 47
88119333 CCCTTTGGGA
* *
88119343 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
88119390 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119437 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88119484 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119531 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88119578 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * ** *
88119625 CTTATCCCATATATGCACTTTCGCATTCATCACAGCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
88119672 CTTATCACATATACATACTTTCACATTCATCACGTTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119719 CTTATCACATATATCCACTTTCACATTCATCACGTTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119766 CTTATCACATATATCCACTTTCACATTCATCACGTTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119813 CTTATCACATATATCCACTTTCACATTCATCACGTTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119860 CTTATCACATATATCCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88119907 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88119954 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88120001 CTTATCACATATACACAC
1 CTTATCACATATATACAC
88120019 CTTGTACATC
Statistics
Matches: 574, Mismatches: 55, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 574 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88135070 original size:47 final size:47
Alignment explanation
Indices: 88135007--88135652 Score: 826
Period size: 47 Copynumber: 13.5 Consensus size: 47
88134997 CCCTTCGGGA
* * *
88135007 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88135054 CTTATCACATATATACACTTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135101 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
88135148 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
88135195 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
88135242 TTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
88135289 CTTATCACACATACACA-TGTTCACATTCATCACATT----ATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
88135332 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135383 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135430 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135479 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135528 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88135577 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88135626 CTTATCACATATATATACACTTTCACA
1 CTTATCAC--ATATATACACTTTCACA
88135653 CATTTATATT
Statistics
Matches: 561, Mismatches: 24, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
43 15 0.03
46 2 0.00
47 315 0.56
48 1 0.00
49 213 0.38
51 15 0.03
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88138246 original size:40 final size:40
Alignment explanation
Indices: 88138157--88138340 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 40
88138147 TTGAATGATG
*
88138157 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
88138195 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
88138236 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
88138275 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
88138314 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88138341 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
39 58 0.45
40 59 0.46
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:88138371 original size:79 final size:79
Alignment explanation
Indices: 88138208--88138373 Score: 189
Period size: 79 Copynumber: 2.1 Consensus size: 79
88138198 CGGACTAAGA
* **
88138208 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTA
*
88138273 ATTCCGGGTTAAGT
66 ATTCCGGGTTAAAT
* *
88138287 CCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-
1 TCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GAT
*
88138349 GCT-ATATCC-GGTTAAAT
62 ACTAAT-TCCGGGTTAAAT
88138366 TCCGAAGG
1 TCCGAAGG
88138374 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.04
79 47 0.64
80 22 0.30
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTA
ATTCCGGGTTAAAT
Found at i:88143253 original size:37 final size:37
Alignment explanation
Indices: 88143203--88143281 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
88143193 TTATTACGAA
* * * *
88143203 GTCTTACCCGGACATAATCTCCACGCGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
88143240 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
88143277 GTCTT
1 GTCTT
88143282 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:88143533 original size:115 final size:115
Alignment explanation
Indices: 88143331--88143559 Score: 431
Period size: 115 Copynumber: 2.0 Consensus size: 115
88143321 TTAATCAGTG
88143331 ATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTAATGACACAAATGCCCTTC
1 ATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTAATGACACAAATGCCCTTC
* *
88143396 GGGACTTATGACATTTATACACTTTCACATCCATCACGTTGGCCACTCGA
66 GAGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGA
*
88143446 ATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACACAAATGCCCTTC
1 ATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTAATGACACAAATGCCCTTC
88143511 GAGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCG
66 GAGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCG
88143560 GCCCTGTCAC
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (115 bp):
ATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTAATGACACAAATGCCCTTC
GAGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGA
Found at i:88143593 original size:47 final size:47
Alignment explanation
Indices: 88143515--88143974 Score: 704
Period size: 47 Copynumber: 9.7 Consensus size: 47
88143505 CCCTTCGAGA
* * * * * *
88143515 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143562 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143609 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143656 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143703 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88143750 CTTATCACATATATATACTTTCATATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88143797 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143844 CTTATCACATATATATACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88143891 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88143938 CTTATCACATATATATACATGTTCACATCCATCACAT
1 CTTATCACATATATACAC-T-TTCACATTCATCACAT
88143975 AGAATCCTAA
Statistics
Matches: 383, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 367 0.96
48 1 0.00
49 15 0.04
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88148625 original size:26 final size:26
Alignment explanation
Indices: 88148594--88148718 Score: 69
Period size: 26 Copynumber: 4.9 Consensus size: 26
88148584 AATTTTCTTG
88148594 AAATTTTTCTAGGGGTAAAATTGTCA
1 AAATTTTTCTAGGGGTAAAATTGTCA
** *
88148620 AAATTTTAT-TTTGGATAAAATTGTCA
1 AAATTTT-TCTAGGGGTAAAATTGTCA
* * **
88148646 AAATCTTATCGA-ACGTAAAATTGTCA
1 AAAT-TTTTCTAGGGGTAAAATTGTCA
* * * ** *
88148672 AAAATTATC-GGGGGTAAAATCATTA
1 AAATTTTTCTAGGGGTAAAATTGTCA
* *
88148697 AAATTTTACT-GGAGTAAAATTG
1 AAATTTTTCTAGGGGTAAAATTG
88148719 GGATGAAAAA
Statistics
Matches: 72, Mismatches: 22, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
25 29 0.40
26 40 0.56
27 3 0.04
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (26 bp):
AAATTTTTCTAGGGGTAAAATTGTCA
Found at i:88153541 original size:15 final size:16
Alignment explanation
Indices: 88153521--88153550 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88153511 ATAATACATG
88153521 CAAATAA-AAATATGT
1 CAAATAATAAATATGT
88153536 CAAATAATAAATATG
1 CAAATAATAAATATG
88153551 ATAAACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
CAAATAATAAATATGT
Found at i:88153918 original size:11 final size:11
Alignment explanation
Indices: 88153902--88153948 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
88153892 ACTAAACTAA
88153902 TTTCATTAAGT
1 TTTCATTAAGT
88153913 TTTCATTAAGTTT
1 TTTCATTAAG--T
*
88153926 TTTCATTAATT
1 TTTCATTAAGT
88153937 TTTC-TTAAGT
1 TTTCATTAAGT
88153947 TT
1 TT
88153949 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 7 0.22
11 15 0.47
13 10 0.31
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (11 bp):
TTTCATTAAGT
Found at i:88153944 original size:23 final size:24
Alignment explanation
Indices: 88153902--88153948 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
88153892 ACTAAACTAA
88153902 TTTCATTAAGTTTTCATTAAGTTT
1 TTTCATTAAGTTTTCATTAAGTTT
*
88153926 TTTCATTAATTTTTC-TTAAGTTT
1 TTTCATTAAGTTTTCATTAAGTTT
88153949 CTTTTTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTCATTAAGTTTTCATTAAGTTT
Found at i:88163044 original size:67 final size:66
Alignment explanation
Indices: 88162926--88163369 Score: 399
Period size: 67 Copynumber: 6.7 Consensus size: 66
88162916 ATTTCTTGGC
* ** * *
88162926 AGACTCTATATGTTATCATAGCCAAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
88162991 GT
65 AT
* * * * *
88162993 GGATTCTCTATGTTGCCATAATCGAGCTATGGTTTTACATATCATATCCCATGTTTAATGT-C--
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
88163055 AT
65 AT
* * ** * * *
88163057 GGACTCTTTACATTGCCATAGTCGAGCTATGGTCTTACATATCATATCCCATATTAAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
88163122 CT
65 AT
* * * * * * * ** *
88163124 ATACTCTTTATGTTGCCATAGCCGAGCTAGGGTTTTACACATTATACCTCATGATTAATGTATTG
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATGTCCTA
**
88163189 GC
65 AT
* * * * * * *
88163191 AAACTCTCTATGTTTCCATAGTCGAGCTATGGTGTTACACATTATACCTCATGTTTAATATACTG
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATGTCCTA
*
88163256 AC
65 AT
* *
88163258 ATACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTA
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATGTCCTA
*
88163323 AC
65 AT
* * * *
88163325 AGACTTTTTATGTTGCCATAGTCGAGCTATGGTATTATACATCAT
1 AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCAT
88163370 TTCCCCATTA
Statistics
Matches: 312, Mismatches: 60, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
64 54 0.17
65 1 0.00
66 3 0.01
67 252 0.81
68 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (66 bp):
AGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACCCATGTTTAATGTCCTAA
T
Found at i:88163264 original size:134 final size:131
Alignment explanation
Indices: 88162921--88163369 Score: 458
Period size: 134 Copynumber: 3.4 Consensus size: 131
88162911 CATTTATTTC
* ** * *
88162921 TTGGCAGACTCTATATGTTATCATAGCCAAGCTATGGTCTTACACATCATACCCCATGTTTAATG
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATG
* * * * *
88162986 TCCTA-GTGGATTCTCTATGTTGCCATAATCGAGCTATGGTTTTACATATCATATCCCATGTTTA
65 TCCTACAT--ACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATA-CCCATGTTTA
88163050 ATGTCA
127 ATGT-A
** * * *
88163056 -T-G--GACTCTTTACATTGCCATAGTCGAGCTATGGTCTTACATATCATATCCCATATTAAATG
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATA-CCCATGTTTAATG
* * * *
88163117 TCCTACTATACTCTTTATGTTGCCATAGCCGAGCTAGGGTTTTACACATTATACCTCATGATTAA
65 TCCTAC-ATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATACC-CATGTTTAA
88163182 TGTA
128 TGTA
* * * * * *
88163186 TTGGCAAACTCTCTATGTTTCCATAGTCGAGCTATGGTGTTACACATTATACCTCATGTTTAATA
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACC-CATGTTTAATG
* *
88163251 TACTGACATACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAA
65 TCCT-ACATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATA-CCCATGTTTAA
*
88163316 TGTC
128 TGTA
* ** * * *
88163320 CTAACAGACTTTTTATGTTGCCATAGTCGAGCTATGGTATTATACATCAT
1 TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCAT
88163370 TTCCCCATTA
Statistics
Matches: 256, Mismatches: 48, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
130 3 0.01
131 102 0.40
132 1 0.00
133 4 0.02
134 142 0.55
135 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (131 bp):
TTGGCAGACTCTTTATGTTGCCATAGTCGAGCTATGGTCTTACACATCATACCCATGTTTAATGT
CCTACATACTCTCTATGTTGCCATAGTCGAGCTATGGTTTTACACATTATACCCATGTTTAATGT
A
Found at i:88166268 original size:5 final size:5
Alignment explanation
Indices: 88166258--88166325 Score: 127
Period size: 5 Copynumber: 13.6 Consensus size: 5
88166248 TTCTGATATT
88166258 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
*
88166308 TATGA TATGA TGTGA TAT
1 TATGA TATGA TATGA TAT
88166326 ATGGTGATGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 61 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:88169388 original size:27 final size:27
Alignment explanation
Indices: 88169358--88169535 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88169348 ATATTGAGTC
* * * *
88169358 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
88169385 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88169412 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** *
88169440 CGCACACTTAGTGCCGCATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* ***
88169467 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88169494 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88169521 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88169536 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88181092 original size:20 final size:20
Alignment explanation
Indices: 88181064--88181105 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
88181054 CATTTTACCA
88181064 CTTTAATACTCCACAACCTT
1 CTTTAATACTCCACAACCTT
* *
88181084 CTTTGATACTCCTCAACCTT
1 CTTTAATACTCCACAACCTT
88181104 CT
1 CT
88181106 CTTTTACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (20 bp):
CTTTAATACTCCACAACCTT
Found at i:88185204 original size:35 final size:35
Alignment explanation
Indices: 88185158--88185228 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
88185148 CTTGTATAAG
*
88185158 TTCATTGATAATATTTGTGTTCCTCGTAGCTATAT
1 TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
*
88185193 TTCATTGATAATATTTGTGTTCCTTGTAACTATAT
1 TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
88185228 T
1 T
88185229 CTTGTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (35 bp):
TTCATTGATAATATTTGTGTTCCTCGTAACTATAT
Found at i:88195575 original size:76 final size:76
Alignment explanation
Indices: 88195468--88195618 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
88195458 TTAATCTTTA
88195468 AAGTGGCGTGTATATATAATAGAAATAATATATATATATTATGAGAAGAAGAATGAATTTTTGTG
1 AAGTGGCGTGTATATATAATAGAAATAATATATATATATTATGAGAAGAAGAATGAATTTTTGTG
88195533 GAGTTTTTAGC
66 GAGTTTTTAGC
88195544 AAGTGGCGTGTATATATAATAGAAATAATATATATATATTATGAGAAGAAGAATGAATTTTTGTG
1 AAGTGGCGTGTATATATAATAGAAATAATATATATATATTATGAGAAGAAGAATGAATTTTTGTG
*
88195609 TAGTTTTTAG
66 GAGTTTTTAG
88195619 AATTAATAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (76 bp):
AAGTGGCGTGTATATATAATAGAAATAATATATATATATTATGAGAAGAAGAATGAATTTTTGTG
GAGTTTTTAGC
Found at i:88199987 original size:79 final size:81
Alignment explanation
Indices: 88199851--88200035 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
88199841 TTGAATGATG
* *
88199851 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
88199915 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88199930 TTCCGGGCTAAG-CCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88199992 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
88200010 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCCTTTG
88200036 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:88200049 original size:40 final size:40
Alignment explanation
Indices: 88199852--88200035 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
88199842 TGAATGATGT
* * * *
88199852 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88199892 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
88199932 CCGGGCTAAG-CCCGAAGGCCTTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
88199970 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88200011 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88200036 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88200057 original size:79 final size:79
Alignment explanation
Indices: 88199904--88200068 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
88199894 GGACTAAGAT
* * * **
88199904 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCCTTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
88199969 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88199983 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
88200046 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88200062 CCGAAGG
1 CCGAAGG
88200069 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88204058 original size:79 final size:81
Alignment explanation
Indices: 88203922--88204106 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
88203912 TTGAATGATG
* *
88203922 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
88203986 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88204001 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88204063 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
88204081 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88204107 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:88204120 original size:40 final size:40
Alignment explanation
Indices: 88203923--88204106 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
88203913 TGAATGATGT
* * * *
88203923 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88203963 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
88204003 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
88204041 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88204082 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88204107 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88204128 original size:79 final size:79
Alignment explanation
Indices: 88203923--88204139 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
88203913 TGAATGATGT
** * * * ** *
88203923 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
88203986 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
88204003 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
88204068 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
88204082 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
88204140 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:88207875 original size:16 final size:16
Alignment explanation
Indices: 88207854--88207897 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
88207844 CGTACAAAAA
88207854 AATAAAAATAAAATAG
1 AATAAAAATAAAATAG
* *
88207870 AATAAAAGTAAAATGG
1 AATAAAAATAAAATAG
88207886 AAT-AAAATAAAA
1 AATAAAAATAAAA
88207898 AGTACAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AATAAAAATAAAATAG
Found at i:88209319 original size:38 final size:38
Alignment explanation
Indices: 88209165--88209309 Score: 218
Period size: 38 Copynumber: 3.8 Consensus size: 38
88209155 TGAATTATAT
* * *
88209165 TGTTATTCGGGCTTTGTGCCTAGTAGGCTTATTGCTGG
1 TGTTATTCAGGCTTCGTGCCTAGCAGGCTTATTGCTGG
*
88209203 TGTTATTCAGGCTTCATGCCTAGCAGGCTTATTGCTGG
1 TGTTATTCAGGCTTCGTGCCTAGCAGGCTTATTGCTGG
*
88209241 TGTTATTCAGGCTTCGCGCCTAGCAGGCTTATTGCTGG
1 TGTTATTCAGGCTTCGTGCCTAGCAGGCTTATTGCTGG
* * *
88209279 TGTTTTTCAGGCTTGGTGCCTAGCAAGCTTA
1 TGTTATTCAGGCTTCGTGCCTAGCAGGCTTA
88209310 GTATCGGTGT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (38 bp):
TGTTATTCAGGCTTCGTGCCTAGCAGGCTTATTGCTGG
Found at i:88209347 original size:28 final size:28
Alignment explanation
Indices: 88209307--88209362 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
88209297 CCTAGCAAGC
*
88209307 TTAGTATCGGTGTATTAAAAGTTAACAT
1 TTAGTATCAGTGTATTAAAAGTTAACAT
88209335 TTAGTATCAGTGTATTAAAAGTTAACAT
1 TTAGTATCAGTGTATTAAAAGTTAACAT
88209363 CCTTTGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (28 bp):
TTAGTATCAGTGTATTAAAAGTTAACAT
Found at i:88226122 original size:21 final size:21
Alignment explanation
Indices: 88226098--88226151 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
88226088 AACAGGTGTC
88226098 ACACGCCCGTGTGGATTTTGG
1 ACACGCCCGTGTGGATTTTGG
88226119 ACACGCCCGTGTGGATTTTGG
1 ACACGCCCGTGTGGATTTTGG
*
88226140 ACACGCCTGTGT
1 ACACGCCCGTGT
88226152 CCCGACCCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (21 bp):
ACACGCCCGTGTGGATTTTGG
Found at i:88229494 original size:30 final size:30
Alignment explanation
Indices: 88229450--88229538 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
88229440 CAAAGATAAC
88229450 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
88229479 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
88229509 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
88229539 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:88229498 original size:15 final size:15
Alignment explanation
Indices: 88229450--88229529 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
88229440 CAAAGATAAC
*
88229450 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
88229464 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
88229479 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
88229494 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
88229509 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
88229524 AAGAAA
1 AAGAAA
88229530 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:88229538 original size:15 final size:15
Alignment explanation
Indices: 88229461--88229538 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
88229451 AGAAAACCGA
88229461 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
88229476 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
88229490 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
88229505 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88229521 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88229536 ATA
1 ATA
88229539 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88235071 original size:46 final size:46
Alignment explanation
Indices: 88235004--88235176 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
88234994 TGTAACCCGC
*
88235004 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
88235050 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
88235100 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
88235143 CCATAGGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
88235177 TGATGCTCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 61 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:88235124 original size:93 final size:93
Alignment explanation
Indices: 88235012--88235182 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
88235002 GCCCATAAGT
* *
88235012 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88235077 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
88235105 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88235170 CGAGTTCTGATGC
66 CGAGTTCGGATGC
88235183 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88239538 original size:47 final size:47
Alignment explanation
Indices: 88239440--88239567 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
88239430 AATCGATAAG
* * * ** *
88239440 TACCTATGCCATGGCCCGTAGTCAAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
* * * *
88239487 TACCTATACCATAGCCCGTAGCCAAATCAAGGTAGCTCCTCTCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
* * *
88239534 TACCTATATCATGGCTCGAAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
88239568 TTATTCACAC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:88244212 original size:18 final size:18
Alignment explanation
Indices: 88244189--88244227 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
88244179 TGGAGGTAGG
*
88244189 CTTCCCTAGCCCCTCCGC
1 CTTCCCTAACCCCTCCGC
88244207 CTTCCCTAACCCCTCCGC
1 CTTCCCTAACCCCTCCGC
88244225 CTT
1 CTT
88244228 GGCCCATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.59, G:0.08, T:0.26
Consensus pattern (18 bp):
CTTCCCTAACCCCTCCGC
Found at i:88245857 original size:47 final size:44
Alignment explanation
Indices: 88245740--88245910 Score: 148
Period size: 46 Copynumber: 3.8 Consensus size: 44
88245730 ATGTATGCCT
*
88245740 GCTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
* ** * * *
88245784 GCCGATGCATGTCCCAGACACATCTTACACTGGC-TATCTCTGTCGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T--A
* * * * *
88245830 GGCTGATGCATGCCCCAGACATGTCTTACTCTAGCACTCATAAT-ATG
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTA
*
88245877 GCTGAAGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
88245911 CCTCGTCTGA
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
43 5 0.05
44 30 0.31
46 32 0.33
47 28 0.29
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
Found at i:88253153 original size:7 final size:7
Alignment explanation
Indices: 88253134--88253163 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
88253124 TAGCTGAAGC
88253134 TATCTCA
1 TATCTCA
88253141 -ATCTCA
1 TATCTCA
88253147 TATCTCA
1 TATCTCA
88253154 TATCTCA
1 TATCTCA
88253161 TAT
1 TAT
88253164 AATGCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (7 bp):
TATCTCA
Found at i:88257394 original size:29 final size:29
Alignment explanation
Indices: 88257352--88257410 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88257342 AATAGTCAAG
88257352 ATAGTTTGCTTATATTTTTTTAACCTTTT
1 ATAGTTTGCTTATATTTTTTTAACCTTTT
88257381 ATAGTTTGCTTATATTTTTTTAACCTTTT
1 ATAGTTTGCTTATATTTTTTTAACCTTTT
88257410 A
1 A
88257411 AATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (29 bp):
ATAGTTTGCTTATATTTTTTTAACCTTTT
Found at i:88259105 original size:18 final size:17
Alignment explanation
Indices: 88259071--88259105 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88259061 GACTTAGGTC
*
88259071 GTGTGGGCCACATGGGT
1 GTGTGGGCCACACGGGT
88259088 GTGTGGGCCCACACGGGT
1 GTGTGGG-CCACACGGGT
88259106 AGTCCACACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (17 bp):
GTGTGGGCCACACGGGT
Found at i:88260911 original size:22 final size:24
Alignment explanation
Indices: 88260886--88260937 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
88260876 CAAAATATAT
*
88260886 TTTATTTCTA-AA-AGATTTAGTA
1 TTTATTTCTATAATAGATTTAGCA
* *
88260908 TTTATTTGTATAATATATTTAGCA
1 TTTATTTCTATAATAGATTTAGCA
88260932 TTTATT
1 TTTATT
88260938 AGTATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTATTTCTATAATAGATTTAGCA
Found at i:88260934 original size:24 final size:24
Alignment explanation
Indices: 88260900--88260951 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
88260890 TTTCTAAAAG
* *
88260900 ATTTAGTATTTATTTGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
88260924 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
88260948 ATTT
1 ATTT
88260952 TACCTAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:88266062 original size:41 final size:40
Alignment explanation
Indices: 88265998--88266076 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 40
88265988 TAATAGTAAC
88265998 AATAAACTAAAAAATTAAACTAAACCTAAACCTACTCCAT
1 AATAAACTAAAAAATTAAACTAAACCTAAACCTACTCCAT
*
88266038 AATAAACTAAAAGAATTAAACTAAACCTAAATCTACTCC
1 AATAAACTAAAA-AATTAAACTAAACCTAAACCTACTCC
88266077 TAAGTTCATG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 12 0.32
41 25 0.68
ACGTcount: A:0.54, C:0.22, G:0.01, T:0.23
Consensus pattern (40 bp):
AATAAACTAAAAAATTAAACTAAACCTAAACCTACTCCAT
Found at i:88270355 original size:28 final size:28
Alignment explanation
Indices: 88270295--88270462 Score: 198
Period size: 29 Copynumber: 6.0 Consensus size: 28
88270285 CGGCCGTGTG
* *
88270295 TTCCCTCTTTTTTAGATTTTACAATTTT
1 TTCCCTATTTTTTAGATTTTATAATTTT
88270323 GTTCCCTATTTTTTAGATTTTATAATTTT
1 -TTCCCTATTTTTTAGATTTTATAATTTT
88270352 TTCCTCTATTTTTTAGATTTTATAATTTT
1 TTCC-CTATTTTTTAGATTTTATAATTTT
* **
88270381 TCCCCTA-TTTTTAGATTTTA-CGTTTT
1 TTCCCTATTTTTTAGATTTTATAATTTT
* *
88270407 TTCCCTATTTTTCAGATTTTAT-AGTTT
1 TTCCCTATTTTTTAGATTTTATAATTTT
* * *
88270434 TGCCTCTATCTTTTAGATTTTACAATTTT
1 TTCC-CTATTTTTTAGATTTTATAATTTT
88270463 GCCCAAAATT
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.08
27 31 0.26
28 22 0.18
29 57 0.47
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (28 bp):
TTCCCTATTTTTTAGATTTTATAATTTT
Found at i:88271131 original size:85 final size:85
Alignment explanation
Indices: 88270988--88271146 Score: 264
Period size: 85 Copynumber: 1.9 Consensus size: 85
88270978 TACTTTGATT
* * * * *
88270988 ATGAACCATGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGGCAGTAAT
1 ATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACAAGTGGCAATAAC
88271053 TGCAAATATGTGGTTCGATC
66 TGCAAATATGTGGTTCGATC
88271073 ATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACAAGTGGCAATAAC
1 ATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACAAGTGGCAATAAC
*
88271138 TGTAAATAT
66 TGCAAATAT
88271147 AACAGCCCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (85 bp):
ATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACAAGTGGCAATAAC
TGCAAATATGTGGTTCGATC
Found at i:88271132 original size:45 final size:45
Alignment explanation
Indices: 88270997--88271134 Score: 148
Period size: 38 Copynumber: 3.2 Consensus size: 45
88270987 TATGAACCAT
*
88270997 GTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAA
1 GTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAA
* * *
88271042 GTGGC-A---G--TAAT-TGCAAATATGTGGTTCGA-TCATGAACCAA
1 GTGGCAATTTGTTTAATCTGCAAATATGTTGTGC-ACTCA-CAA-CAA
*
88271082 GTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACAA
1 GTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAA
88271127 GTGGCAAT
1 GTGGCAAT
88271135 AACTGTAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
38 17 0.23
39 7 0.09
40 8 0.11
41 2 0.03
44 1 0.01
45 16 0.22
46 7 0.09
47 16 0.22
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
GTGGCAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAA
Found at i:88272293 original size:16 final size:16
Alignment explanation
Indices: 88272270--88272338 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
88272260 TTTGGTTCGC
88272270 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
88272286 TATATTGGATTAGAGG
1 TGTATTGGATTAGAGG
88272302 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
88272319 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
88272335 TGTA
1 TGTA
88272339 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:88272316 original size:33 final size:32
Alignment explanation
Indices: 88272270--88272338 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
88272260 TTTGGTTCGC
88272270 TGTATTGGATTAGAGGTATATTGGATTAGAGG
1 TGTATTGGATTAGAGGTATATTGGATTAGAGG
*
88272302 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTATATTGGATTAGAGG
88272335 TGTA
1 TGTA
88272339 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTATATTGGATTAGAGG
Found at i:88272403 original size:44 final size:45
Alignment explanation
Indices: 88272319--88272409 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
88272309 GGATTAGAGG
* * *
88272319 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
88272364 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
88272408 TG
1 TG
88272410 GAATAGAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:88272591 original size:16 final size:16
Alignment explanation
Indices: 88272554--88272608 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
88272544 TTAATCATAT
*
88272554 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
88272570 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
88272585 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
88272603 -TAAAAT
1 TTAAAAT
88272609 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:88272601 original size:18 final size:18
Alignment explanation
Indices: 88272560--88272608 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
88272550 ATATTTAAAC
88272560 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
88272578 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
88272594 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
88272609 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:88272745 original size:156 final size:157
Alignment explanation
Indices: 88272461--88272776 Score: 589
Period size: 156 Copynumber: 2.0 Consensus size: 157
88272451 TAGAATACCC
* * *
88272461 TTAGCATAAAATTGTTTTGGTAATTGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
88272526 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
88272591 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
88272617 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
88272682 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
88272747 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
88272774 TTA
1 TTA
88272777 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 148 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:88272751 original size:18 final size:17
Alignment explanation
Indices: 88272730--88272764 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88272720 TTATTATTAA
*
88272730 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
88272748 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
88272765 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:88275295 original size:13 final size:13
Alignment explanation
Indices: 88275277--88275308 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88275267 AGTTTTGTTA
88275277 AAATGGTTATACG
1 AAATGGTTATACG
*
88275290 AAATGGTTATATG
1 AAATGGTTATACG
88275303 AAATGG
1 AAATGG
88275309 CTACATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (13 bp):
AAATGGTTATACG
Found at i:88276263 original size:21 final size:21
Alignment explanation
Indices: 88276237--88276285 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
88276227 GGACTCAAAG
*
88276237 AATTTTTTGCAAAATTTTAAA
1 AATTTTCTGCAAAATTTTAAA
88276258 AATTTTCTGCAAAATTTTAAA
1 AATTTTCTGCAAAATTTTAAA
88276279 AATTTTC
1 AATTTTC
88276286 CAAGATACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTTTCTGCAAAATTTTAAA
Found at i:88280878 original size:25 final size:26
Alignment explanation
Indices: 88280844--88280913 Score: 106
Period size: 25 Copynumber: 2.7 Consensus size: 26
88280834 CTTTACAATG
*
88280844 ATGCTCACATGAGCTGTGGAA-GGGT
1 ATGCTCACATGAGCTGTGGAATGGGC
88280869 ATGCTCACATGAGCTGTGGAATGGGC
1 ATGCTCACATGAGCTGTGGAATGGGC
* *
88280895 CTACTCACATGAGCTGTGG
1 ATGCTCACATGAGCTGTGG
88280914 GTTGAAATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (26 bp):
ATGCTCACATGAGCTGTGGAATGGGC
Found at i:88280908 original size:26 final size:25
Alignment explanation
Indices: 88280847--88280913 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
88280837 TACAATGATG
* *
88280847 CTCACATGAGCTGTGGAAGGGTATG
1 CTCACATGAGCTGTGGAAGGGCATA
*
88280872 CTCACATGAGCTGTGGAATGGGCCTA
1 CTCACATGAGCTGTGGAA-GGGCATA
88280898 CTCACATGAGCTGTGG
1 CTCACATGAGCTGTGG
88280914 GTTGAAATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (25 bp):
CTCACATGAGCTGTGGAAGGGCATA
Found at i:88283114 original size:30 final size:30
Alignment explanation
Indices: 88283080--88283139 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
88283070 ACTTAACAAG
*
88283080 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
88283110 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
88283140 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:88299228 original size:30 final size:30
Alignment explanation
Indices: 88299192--88299251 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88299182 TTCTTCTTAC
88299192 GGTTGAAAATTAAAAGTTTGTAGATTTATT
1 GGTTGAAAATTAAAAGTTTGTAGATTTATT
88299222 GGTTGAAAATTAAAAGTTTGTAGATTTATT
1 GGTTGAAAATTAAAAGTTTGTAGATTTATT
88299252 TTTGTTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (30 bp):
GGTTGAAAATTAAAAGTTTGTAGATTTATT
Found at i:88301087 original size:63 final size:63
Alignment explanation
Indices: 88301006--88301185 Score: 243
Period size: 63 Copynumber: 2.9 Consensus size: 63
88300996 CTAGAGATTT
* * * * *
88301006 TGTTGATGTAGGGAATGATTGCGCATGTTGTGGTGCTTGTGTAAAATAAACTGGTGCTGAATA
1 TGTTGATGTAAGGAATGATTGCGCGTGTTGTGGTGCTTGTGTAAAATAAACTAGAGCTGAAGA
* * * * *
88301069 TGTTGATGCATGGAATGATTGTGCGTGTTGTGGTGTTTGTGTAAAATAAACTAGAGCTGAAGG
1 TGTTGATGTAAGGAATGATTGCGCGTGTTGTGGTGCTTGTGTAAAATAAACTAGAGCTGAAGA
* * *
88301132 TGTTGATGTAAGGAATGATTGCGCGTGATGTGATGCTTGTGTCAAATAAACTAG
1 TGTTGATGTAAGGAATGATTGCGCGTGTTGTGGTGCTTGTGTAAAATAAACTAG
88301186 GTAAGAACAA
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (63 bp):
TGTTGATGTAAGGAATGATTGCGCGTGTTGTGGTGCTTGTGTAAAATAAACTAGAGCTGAAGA
Found at i:88301642 original size:20 final size:21
Alignment explanation
Indices: 88301617--88301660 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
88301607 TGCAATTTAT
88301617 AAATTATAA-AGAATAAAA-TA
1 AAATTA-AAGAGAATAAAATTA
88301637 AAATTAAAGAGAATAAAATTA
1 AAATTAAAGAGAATAAAATTA
88301658 AAA
1 AAA
88301661 AAAAGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AAATTAAAGAGAATAAAATTA
Found at i:88301665 original size:20 final size:20
Alignment explanation
Indices: 88301626--88301666 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
88301616 TAAATTATAA
*
88301626 AGAATAAAATAAAATTAAAG
1 AGAATAAAATAAAATAAAAG
88301646 AGAATAAAATTAAAA-AAAAG
1 AGAATAAAA-TAAAATAAAAG
88301666 A
1 A
88301667 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (20 bp):
AGAATAAAATAAAATAAAAG
Found at i:88301729 original size:21 final size:21
Alignment explanation
Indices: 88301705--88301752 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
88301695 GGAAATTGGA
*
88301705 AATTGAAAATTGAGGATTGAG
1 AATTGAAAATTGAGGATTAAG
* **
88301726 AATTTATGATTGAGGATTAAG
1 AATTGAAAATTGAGGATTAAG
*
88301747 TATTGA
1 AATTGA
88301753 GTATTTGATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (21 bp):
AATTGAAAATTGAGGATTAAG
Found at i:88306574 original size:17 final size:17
Alignment explanation
Indices: 88306546--88306589 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
88306536 TTTATTTACT
88306546 TTTTATAATTTTT-TTGAA
1 TTTTA-AATTTTTATT-AA
88306564 TTTTAAATTTTTATTAA
1 TTTTAAATTTTTATTAA
88306581 TTTTAAATT
1 TTTTAAATT
88306590 ATTTGTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTAAATTTTTATTAA
Found at i:88306975 original size:83 final size:78
Alignment explanation
Indices: 88306871--88307029 Score: 205
Period size: 83 Copynumber: 2.0 Consensus size: 78
88306861 TGACAGAATG
* *
88306871 TTTTTTTAACCTTTGGTATTATTCAGTGATGTTTCAAAGATTTTTTTTTATTATTAGAATTTTT-
1 TTTTTTTAACCTTTGGGATTATTCAGTAATGTTTCAAAG----TTTTTTATTATT-GAATTTTTG
88306935 TTGACAGAATGAATTTTAT
61 TTGACAGAATG-ATTTTAT
* *
88306954 TTTTTTTAA-CTTTGGAGATTATTTAGTAATGTTTCAAAGTTTTTTATTATTGGATTTTTGTTGA
1 TTTTTTTAACCTTTGG-GATTATTCAGTAATGTTTCAAAGTTTTTTATTATTGAATTTTTGTTGA
88307018 CAGAATGATTTT
65 CAGAATGATTTT
88307030 CTTGTTTGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
78 12 0.17
79 23 0.33
82 6 0.09
83 29 0.41
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (78 bp):
TTTTTTTAACCTTTGGGATTATTCAGTAATGTTTCAAAGTTTTTTATTATTGAATTTTTGTTGAC
AGAATGATTTTAT
Found at i:88307138 original size:18 final size:19
Alignment explanation
Indices: 88307115--88307150 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
88307105 GAAAATATTT
88307115 TTATA-TTAATATTTTAAG
1 TTATATTTAATATTTTAAG
*
88307133 TTATATTTATTATTTTAA
1 TTATATTTAATATTTTAA
88307151 ATATAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATATTTAATATTTTAAG
Found at i:88310208 original size:51 final size:53
Alignment explanation
Indices: 88310110--88310208 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 53
88310100 TGAGGCGACA
* * * **
88310110 TAATAATGACAGTATATGGCGTAAAACCATAGGTGAAAAACGTTATGGTAGTC
1 TAATAATGACAGTACATAGCGTAAAACCATAGATGAAAAACACTATGGTAGTC
* *
88310163 TAAT-ATGA-AGTACATAGCGTAAGACCATAGATGAAAGACACTATGG
1 TAATAATGACAGTACATAGCGTAAAACCATAGATGAAAAACACTATGG
88310209 CATAATGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 31 0.79
52 4 0.10
53 4 0.10
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (53 bp):
TAATAATGACAGTACATAGCGTAAAACCATAGATGAAAAACACTATGGTAGTC
Found at i:88310384 original size:28 final size:28
Alignment explanation
Indices: 88310333--88310396 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
88310323 TAAAGTCCAC
* *
88310333 TAGGACAATAAACACAGATAAAGTTTGT
1 TAGGATAATAAACACAGATAAAGTTCGT
* *
88310361 TGGGATAATAAACACAGGGT-AAGTTCGT
1 TAGGATAATAAACACA-GATAAAGTTCGT
88310389 TAGGATAA
1 TAGGATAA
88310397 GAGAAACTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGGATAATAAACACAGATAAAGTTCGT
Found at i:88313634 original size:9 final size:9
Alignment explanation
Indices: 88313620--88313649 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
88313610 ATTTTTTCAG
88313620 TTAAAATTT
1 TTAAAATTT
*
88313629 TTAAAAATT
1 TTAAAATTT
88313638 TTAAAATTT
1 TTAAAATTT
88313647 TTA
1 TTA
88313650 GTAAAGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTAAAATTT
Found at i:88317017 original size:46 final size:46
Alignment explanation
Indices: 88316873--88317089 Score: 210
Period size: 46 Copynumber: 4.7 Consensus size: 46
88316863 TGTGTGAGCT
* * * *
88316873 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGTGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
* * * * *
88316919 AGTGTAAAACCATGTTTGGGACATGGCATCGGCATTGAGATG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
*
88316967 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* * *
88317013 AGTGTAAGACATGTCTGAGACATGCATCGG-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
*
88317057 AGTATAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
88317090 ACAGATATGC
Statistics
Matches: 145, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 68 0.47
47 28 0.19
48 23 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:88330756 original size:57 final size:58
Alignment explanation
Indices: 88330663--88330819 Score: 228
Period size: 57 Copynumber: 2.7 Consensus size: 58
88330653 GATCTCATTT
* * *
88330663 CACACACTTAGTGCCCCAACAACCGATCTTGTACACACAGTGCTT-GGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTCGGTTACGGAACTCG
88330722 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTG-TTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTCGGTTACGGAACTCG
* * *
88330779 TACACACAATGCCTCAACAACTGATCTCGCACACACAGTGC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
88330820 CTCAACAACC
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 81 0.90
59 7 0.08
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.19
Consensus pattern (58 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTCGGTTACGGAACTCG
Found at i:88330757 original size:29 final size:29
Alignment explanation
Indices: 88330718--88330848 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
88330708 GGTTACGGAA
88330718 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
88330747 CTCGCACACACAGTG-TTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* * *
88330775 CTCGTACACACAATGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
88330804 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
88330833 CTCGCACATACAGTGC
1 CTCGCACACACAGTGC
88330849 TCGGTTACGG
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.23
29 62 0.77
ACGTcount: A:0.30, C:0.37, G:0.16, T:0.18
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:88330808 original size:86 final size:86
Alignment explanation
Indices: 88330718--88330878 Score: 277
Period size: 86 Copynumber: 1.9 Consensus size: 86
88330708 GGTTACGGAA
* **
88330718 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGTTCGGTTACGGAACTCGTACA
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACA
88330783 CACAATGCCTCAACAACTGAT
66 CACAATGCCTCAACAACTGAT
*
88330804 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACATACAGTGCTCGGTTACGGAACTCACACA
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACA
*
88330869 CACAGTGCCT
66 CACAATGCCT
88330879 ATGTTCACTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (86 bp):
CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACA
CACAATGCCTCAACAACTGAT
Found at i:88332829 original size:26 final size:26
Alignment explanation
Indices: 88332800--88332859 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
88332790 TCCCTTTGAA
* * *
88332800 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
88332826 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
88332854 CCATTC
1 TCATTC
88332860 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:88332845 original size:28 final size:28
Alignment explanation
Indices: 88332814--88332876 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
88332804 TCGATATTTT
*
88332814 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
88332842 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
88332870 GTACACT
1 GCACACT
88332877 GAGTACTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:88337837 original size:18 final size:18
Alignment explanation
Indices: 88337814--88337854 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
88337804 GTGGTTTGTG
88337814 CAAGTGTACACAATCATT
1 CAAGTGTACACAATCATT
* *
88337832 CAAGTGTACACAGTCGTT
1 CAAGTGTACACAATCATT
88337850 CAAGT
1 CAAGT
88337855 ACTAAGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (18 bp):
CAAGTGTACACAATCATT
Found at i:88340003 original size:46 final size:42
Alignment explanation
Indices: 88339904--88340010 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
88339894 ACTAATTATG
* * *
88339904 GGCACTTAATGTGCGAAATCGAGATAGTTTCGATTATATCTT
1 GGCACTTAGTGTGCGAGATCGAGATAGTTTCGATTATATATT
* *
88339946 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCTATATATATATT
1 GGCACTTAGTGTGCGAGATCGAGATAG-TTT--CGAT-TATATATT
*
88339992 GGCACTTAGTGTGTGAGAT
1 GGCACTTAGTGTGCGAGAT
88340011 TGATACAGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.44
43 3 0.06
45 3 0.06
46 24 0.44
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (42 bp):
GGCACTTAGTGTGCGAGATCGAGATAGTTTCGATTATATATT
Found at i:88344996 original size:40 final size:40
Alignment explanation
Indices: 88344913--88345175 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
88344903 TTGAATGCTG
* * * * * *
88344913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
88344953 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
88344993 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
88345033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
88345073 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
88345113 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
88345152 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
88345176 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:88345195 original size:79 final size:80
Alignment explanation
Indices: 88344952--88345210 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
88344942 AAGTGAATAT
* * * * * *
88344952 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
88345016 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
88345032 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
88345097 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
88345112 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
88345176 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
88345191 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
88345211 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:88352949 original size:40 final size:40
Alignment explanation
Indices: 88352866--88353128 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
88352856 TTGAATGCTG
* * * * * *
88352866 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
88352906 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
88352946 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
88352986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
88353026 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
88353066 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
88353105 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
88353129 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:88353148 original size:79 final size:80
Alignment explanation
Indices: 88352905--88353163 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
88352895 AAGTGAATAT
* * * * * *
88352905 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
88352969 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
88352985 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
88353050 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
88353065 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
88353129 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
88353144 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
88353164 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:88360457 original size:41 final size:41
Alignment explanation
Indices: 88360399--88360476 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
88360389 GACGTCATCG
88360399 CACTATCGATAAACTATTTTGGTACTTTTGAAGTTATGTAC
1 CACTATCGATAAACTATTTTGGTACTTTTGAAGTTATGTAC
*
88360440 CACTATCGATAATCTATTTTGGTACTTTTGAAGTTAT
1 CACTATCGATAAACTATTTTGGTACTTTTGAAGTTAT
88360477 ATATATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (41 bp):
CACTATCGATAAACTATTTTGGTACTTTTGAAGTTATGTAC
Found at i:88363540 original size:56 final size:56
Alignment explanation
Indices: 88363410--88363676 Score: 383
Period size: 56 Copynumber: 4.8 Consensus size: 56
88363400 TCTTACATGT
*** * * * *
88363410 AATCACATATCGATGCC-ACTGTCCCAGACAGGGTCTTACTCTGCACACATAAATCGG
1 AATCACATATCGATGCCAAC-GTATTAAACATGGTCTTACTC-GCACACATATATCAG
* *
88363467 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGTACACATATATCAA
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCAG
* * *
88363523 AATCACATATCGATGCCAAAGTATTAAATATGGTCTTACTCGCACATATATATCAG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCAG
*
88363579 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCAG
*
88363635 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCG
88363677 TAGACATCTA
Statistics
Matches: 191, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
56 156 0.82
57 33 0.17
58 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCAG
Found at i:88365812 original size:28 final size:28
Alignment explanation
Indices: 88365780--88365844 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
88365770 ATTTACTAGA
*
88365780 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
88365808 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
88365836 ATACCCCTA
1 ATACCCCTA
88365845 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:88366051 original size:29 final size:28
Alignment explanation
Indices: 88365950--88366040 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
88365940 AGGAAGCGTC
88365950 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
88365978 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
88366006 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
88366035 CTGGTG
1 CTGGTG
88366041 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:88366065 original size:56 final size:55
Alignment explanation
Indices: 88365950--88366065 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
88365940 AGGAAGCGTC
* *
88365950 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
88366006 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
88366062 CTGG
1 CTGG
88366066 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:88367158 original size:11 final size:10
Alignment explanation
Indices: 88367130--88367163 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88367120 AGCCTGTAAG
88367130 TATTCTGAAT
1 TATTCTGAAT
*
88367140 TTTTCTGAAT
1 TATTCTGAAT
88367150 ATATTCTGAAT
1 -TATTCTGAAT
88367161 TAT
1 TAT
88367164 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:88376206 original size:28 final size:28
Alignment explanation
Indices: 88376174--88376238 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
88376164 ATTTACTAGA
*
88376174 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
88376202 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
88376230 ATACCCCTA
1 ATACCCCTA
88376239 GGGTTAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:88376398 original size:27 final size:27
Alignment explanation
Indices: 88376364--88376453 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
88376354 TGCCACAAAT
88376364 TATCTGTTCTGGTGGCCCTGCTACATA
1 TATCTGTTCTGGTGGCCCTGCTACATA
* * *
88376391 TATCTGTTCTGGTGGCACTGCCACAAAA
1 TATCTGTTCTGGTGGCCCTGCTAC-ATA
** *
88376419 TATCTGTATCTGGCAGCCATGCTACATA
1 TATCTGT-TCTGGTGGCCCTGCTACATA
*
88376447 TTTCTGT
1 TATCTGT
88376454 GGCGTGTAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 17 0.33
29 12 0.24
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TATCTGTTCTGGTGGCCCTGCTACATA
Found at i:88378102 original size:12 final size:12
Alignment explanation
Indices: 88378085--88378115 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
88378075 TTCCATGGTG
88378085 AGACTTTCAAAA
1 AGACTTTCAAAA
88378097 AGACTTTCAAAA
1 AGACTTTCAAAA
88378109 AGACTTT
1 AGACTTT
88378116 GTCCCCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (12 bp):
AGACTTTCAAAA
Found at i:88379966 original size:13 final size:13
Alignment explanation
Indices: 88379948--88379974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88379938 GGGGTTCGAT
88379948 ATTCTAATCACAA
1 ATTCTAATCACAA
88379961 ATTCTAATCACAA
1 ATTCTAATCACAA
88379974 A
1 A
88379975 CTCAACAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
ATTCTAATCACAA
Found at i:88382967 original size:56 final size:56
Alignment explanation
Indices: 88382907--88383152 Score: 341
Period size: 56 Copynumber: 4.4 Consensus size: 56
88382897 TCCCAAATAG
*
88382907 GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
** * * * * *
88382963 GGTCTTACTCGCACGGATATATCGAAATCACATATCAATGTCAACATATTAAACAT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
88383019 GGTCTTACTCGCACACATATATC-GAATTTACATATTGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGGAA-TCACATATCGATGCCAACGTATTAAACGT
* * *
88383075 GGTCTTAATCGCACACATATATCGGAATCACATACCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
88383131 GATCTTACTCGCACACATATAT
1 GGTCTTACTCGCACACATATAT
88383153 AGATGCCATG
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
55 2 0.01
56 157 0.97
57 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:88389872 original size:17 final size:19
Alignment explanation
Indices: 88389845--88389879 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88389835 TTGTTCTAGT
88389845 TGATAGAGCTT-GCAAAGC
1 TGATAGAGCTTAGCAAAGC
88389863 TGAT-GAGCTTAGCAAAG
1 TGATAGAGCTTAGCAAAG
88389880 AAAAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (19 bp):
TGATAGAGCTTAGCAAAGC
Found at i:88395885 original size:20 final size:20
Alignment explanation
Indices: 88395844--88395885 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
88395834 AGCACATGTA
*
88395844 TTCATAAAATTTTAAAATTT
1 TTCATAAAATTTTAAAACTT
* *
88395864 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTAAAACTT
88395884 TT
1 TT
88395886 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:88396229 original size:16 final size:17
Alignment explanation
Indices: 88396193--88396230 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
88396183 AAATTGTTTT
88396193 CTTTTTCATTTAATTAA
1 CTTTTTCATTTAATTAA
88396210 -TTTTTCATTTAA-TAA
1 CTTTTTCATTTAATTAA
88396225 CTTTTT
1 CTTTTT
88396231 ATCTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTTTTCATTTAATTAA
Found at i:88412315 original size:11 final size:11
Alignment explanation
Indices: 88412299--88412324 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88412289 CGAAGCCCAC
88412299 ATCACAATAAT
1 ATCACAATAAT
88412310 ATCACAATAAT
1 ATCACAATAAT
88412321 ATCA
1 ATCA
88412325 TACACGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:88412874 original size:41 final size:41
Alignment explanation
Indices: 88412815--88412935 Score: 206
Period size: 41 Copynumber: 3.0 Consensus size: 41
88412805 AAAGCCACCA
* *
88412815 GTGGATCCACGGTTGTCAAGCAACCATGCAATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCG
*
88412856 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCG
*
88412897 GTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
88412936 TTCTTCCTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCG
Found at i:88413243 original size:27 final size:26
Alignment explanation
Indices: 88413173--88413496 Score: 234
Period size: 27 Copynumber: 12.0 Consensus size: 26
88413163 TTTCACACTA
* * * *
88413173 CAAGGGTGTTTTGGTAAATCTACAAAA
1 CAAGGGTATTTT-GTAATTTTACAAAT
*
88413200 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTT-GTAATTTTACAAAT
* **
88413227 CAATGGTATTTCTGTAATTTTTGAAAGT
1 CAAGGGTATTT-TGTAATTTTACAAA-T
* * **
88413255 TAAGAGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGTAATTTTACAAAT
* *
88413282 CAGGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTA-TTTTGTAATTTTACAAAT
* *
88413309 CAAGGGTATTTCGGTAATTTTTCAAAT
1 CAAGGGTATTT-TGTAATTTTACAAAT
* * *
88413336 TAGGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTT-GTAATTTTACAAAT
*
88413363 CGAGGGTATTTTGATAATTTTACAAAT
1 CAAGGGTATTTTG-TAATTTTACAAAT
* *
88413390 CAGGGGTATTTTGGTAACTTTACAAAT
1 CAAGGGTATTTT-GTAATTTTACAAAT
* ** **
88413417 CGAGGGTATCTCGGTAATTTTACAGCT
1 CAAGGGTAT-TTTGTAATTTTACAAAT
* * * *
88413444 CGAGGGTATTTCGATAATTTCAAAAAT
1 CAAGGGTATTTTG-TAATTTTACAAAT
* *
88413471 TAGGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTT-GTAATTTTACAAA
88413497 CTAGAGGTAT
Statistics
Matches: 235, Mismatches: 52, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
26 6 0.03
27 201 0.86
28 28 0.12
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
CAAGGGTATTTTGTAATTTTACAAAT
Found at i:88413341 original size:54 final size:54
Alignment explanation
Indices: 88413176--88413496 Score: 286
Period size: 54 Copynumber: 5.9 Consensus size: 54
88413166 CACACTACAA
* * * * * * *
88413176 GGGTGTTTTGGTAAATCTACAAAACAAGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAG
* ** * * * **
88413230 TGGTATTTCT-GTAATTTTTGAAAGTTAAGAGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAATCAG
* * * *
88413285 GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCGGTAATTTTTCAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAG
* * * *
88413339 GGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTGATAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAG
* * * **
88413393 GGGTATTTTGGTAACTTTACAAATCGAGGGTATCTCGGTAATTTTACAGCTC-G
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAG
* * * * * * *
88413446 AGGGTATTTCGATAATTTCAAAAATTAGGGGTATTTTGGTAATTTTACAAA
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAA
88413497 CTAGAGGTAT
Statistics
Matches: 212, Mismatches: 51, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.00
54 170 0.80
55 41 0.19
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAG
Found at i:88413381 original size:81 final size:81
Alignment explanation
Indices: 88413202--88413508 Score: 282
Period size: 81 Copynumber: 3.8 Consensus size: 81
88413192 CTACAAAACA
* * * * ** * *
88413202 AGGGTATTTTGGTAATTTTACAAACCAATGGTATTTCTGTAATTTTTGAAAGTTAAGAGTATTTC
1 AGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAA-TTAGGGGTATTT-
** *
88413267 T-GTAATTTTGTAAATC-
64 TGGTAATTTTACAAGTCG
* *
88413283 AGGGGTATTTTTG-TAATTTTCCAAATCAAGGGTATTTCGGTAATTTTTCAAATTAGGGGTATTT
1 A-GGGTA-TTTTGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTT
88413347 TGGTAATTTTACAAGTCG
64 TGGTAATTTTACAAGTCG
* * * * * *
88413365 AGGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAACTTTACAAA-TCGAGGGTATCTC
1 AGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATTAG-GGGTATTTT
88413429 GGTAATTTTAC-AGCTCG
65 GGTAATTTTACAAG-TCG
* * * * * * * *
88413446 AGGGTATTTCGATAATTTCAAAAATTAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTT
1 AGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTT
88413509 CAGTAATTCT
Statistics
Matches: 192, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
80 10 0.05
81 135 0.70
82 42 0.22
83 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTG
GTAATTTTACAAGTCG
Found at i:88413543 original size:81 final size:81
Alignment explanation
Indices: 88413305--88413536 Score: 191
Period size: 81 Copynumber: 2.9 Consensus size: 81
88413295 GTAATTTTCC
* * * * * ** * ** *
88413305 AAATCAAGGGTATTTCGGTAATTTTTCAAATTAG-GGGTATTTTGGTAATTTTACAAGTCGAGGG
1 AAATCAGGGGTATTTTGGTAACTTTACAAA-TAGAGGGTATCTCAGTAATTCTACACCTAGAGGG
* * * *
88413369 TATTTTGATAATTTTAC
65 CATTTCGATAATTTCAA
* * * * * *
88413386 AAATCAGGGGTATTTTGGTAACTTTACAAATCGAGGGTATCTCGGTAATTTTACAGCTCGAGGGT
1 AAATCAGGGGTATTTTGGTAACTTTACAAATAGAGGGTATCTCAGTAATTCTACACCTAGAGGGC
88413451 ATTTCGATAATTTCAA
66 ATTTCGATAATTTCAA
* * * *
88413467 AAATTAGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTCAGTAATTCTAC-CCTATAGGG
1 AAATCAGGGGTATTTTGGTAACTTTACAAA-TAGAGGGTATCTCAGTAATTCTACACCTAGA-GG
88413530 GCATTTC
64 GCATTTC
88413537 AGTAATTCTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 5 0.04
81 118 0.94
82 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAACTTTACAAATAGAGGGTATCTCAGTAATTCTACACCTAGAGGGC
ATTTCGATAATTTCAA
Found at i:88416228 original size:11 final size:11
Alignment explanation
Indices: 88416212--88416237 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88416202 CGAAGCCCAC
88416212 ATCACAATAAT
1 ATCACAATAAT
88416223 ATCACAATAAT
1 ATCACAATAAT
88416234 ATCA
1 ATCA
88416238 TACATGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:88416771 original size:41 final size:41
Alignment explanation
Indices: 88416726--88416808 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
88416716 TAAAAGCCAC
*
88416726 TGGTGAATCCACGATCATCAAGCAACCATGCGATCCTCAAT
1 TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
* * *
88416767 TGGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
1 TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
88416808 T
1 T
88416809 TCTTCCTCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TGGTGAATCCACGATCATCAAGCAACCATACGATCCTCAAT
Found at i:88417075 original size:27 final size:27
Alignment explanation
Indices: 88417045--88417340 Score: 310
Period size: 27 Copynumber: 11.0 Consensus size: 27
88417035 TTTCACCCTA
* * *
88417045 CAAGGGTGTTTTGGTAAATTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
88417072 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
88417098 CCAGTGGTATTTCT-ATAATTTTCCAAAT
1 CAAG-GGTATTT-TGGTAATTTTACAAAT
* *
88417126 CAAGGGTATTTTAGTAATTTTTCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
88417153 C-AGAGGTATTTTGGTAATTTTATAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * *
88417180 CTAGGGTATTTTGGTTATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
88417207 CGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
88417234 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
88417261 TGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
88417288 CAAGGATATTTTGGTAATTTCATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
88417315 TAGGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
88417341 CTAGGGATAT
Statistics
Matches: 223, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 6 0.03
27 211 0.95
28 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:88420048 original size:41 final size:41
Alignment explanation
Indices: 88420003--88420080 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
88419993 TAGGTGGGAG
88420003 TAAGAATGGCGTCAAAAAGTATGACTAAATCCTTTTTTATC
1 TAAGAATGGCGTCAAAAAGTATGACTAAATCCTTTTTTATC
88420044 TAAGAATGGCGTCAAAAAGTATGACTAAATCCTTTTT
1 TAAGAATGGCGTCAAAAAGTATGACTAAATCCTTTTT
88420081 AGAGATCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (41 bp):
TAAGAATGGCGTCAAAAAGTATGACTAAATCCTTTTTTATC
Found at i:88433815 original size:3 final size:3
Alignment explanation
Indices: 88433807--88433844 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
88433797 ATCACATGTT
88433807 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
88433845 TGGCTGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88438110 original size:3 final size:3
Alignment explanation
Indices: 88438102--88438139 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
88438092 ATCACATGTT
88438102 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
88438140 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88438221 original size:73 final size:73
Alignment explanation
Indices: 88438140--88438336 Score: 286
Period size: 84 Copynumber: 2.5 Consensus size: 73
88438130 TATTATTATT
88438140 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
88438205 ATTTTAAG
66 ATTTTAAG
88438213 TGGATGTAATGATGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTA
1 TGGATG---T-A--ATG--ATG-T--AACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTA
88438278 GGTGGTGATTTATTTTAAG
55 GGTGGTGATTTATTTTAAG
*
88438297 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
88438337 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 22
0.83 0.01 0.16
Matches are distributed among these distances:
73 31 0.28
76 4 0.04
77 1 0.01
78 3 0.03
79 3 0.03
80 1 0.01
81 4 0.04
82 1 0.01
84 64 0.57
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:88438283 original size:84 final size:84
Alignment explanation
Indices: 88438142--88438311 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 84
88438132 TTATTATTTG
*
88438142 GATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
1 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
88438207 TTTAAGTGGATGTAATGAT
66 TTTAAGTGGATGTAATGAT
88438226 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
1 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
88438291 TTTAAGTGGATGTAATGAT
66 TTTAAGTGGATGTAATGAT
88438310 GA
1 GA
88438312 AACTTAGTTG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (84 bp):
GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
TTTAAGTGGATGTAATGAT
Found at i:88443288 original size:23 final size:23
Alignment explanation
Indices: 88443262--88443306 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
88443252 ATAATTTTTT
88443262 TAATGTACTAATCAACTATTAAA
1 TAATGTACTAATCAACTATTAAA
* *
88443285 TAATGTATTAATTAACTATTAA
1 TAATGTACTAATCAACTATTAA
88443307 TACTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATGTACTAATCAACTATTAAA
Found at i:88445158 original size:19 final size:19
Alignment explanation
Indices: 88445113--88445158 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
88445103 CATACATTTT
88445113 TATATTATTTCACTATTAG
1 TATATTATTTCACTATTAG
88445132 TATCATTATTATCA-TA-TAG
1 TAT-ATTATT-TCACTATTAG
88445151 TACTATTA
1 TA-TATTA
88445159 ATTGAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 12 0.50
20 9 0.38
21 3 0.12
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (19 bp):
TATATTATTTCACTATTAG
Found at i:88451129 original size:59 final size:59
Alignment explanation
Indices: 88451063--88451174 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
88451053 TTCTGAAACA
* * * * * *
88451063 AAATCAAAAACAATTTTGTTAAACGGCA-ATATTAAATCCTGAAACAAAATTATATCATT
1 AAATCAAAAAAAAATTTGCTAAACGG-AGAGAATAAATCCCGAAACAAAATTATATCATT
*
88451122 AAATCAAAAAAAAATTTGCTAAACGGAGAGAATAAATCCCGAAACAGAATTAT
1 AAATCAAAAAAAAATTTGCTAAACGGAGAGAATAAATCCCGAAACAAAATTAT
88451175 TTGATTACGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 44 0.98
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (59 bp):
AAATCAAAAAAAAATTTGCTAAACGGAGAGAATAAATCCCGAAACAAAATTATATCATT
Found at i:88451284 original size:83 final size:82
Alignment explanation
Indices: 88451190--88451351 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 82
88451180 TACGTATTTG
* * *
88451190 TTTGGAAACAAAA-CAATATCGAAAA-AAAA-TTGTTAAACGGTGGCAGTAAATCTTGAAACAGA
1 TTTGGAAACAAAATCAA-AT--AAAATAAAACTTGTT-AACGATGGCAATAAATCTCGAAACAGA
88451252 TTTTATTTAATTCAATTCAAA
62 TTTTATTTAATTCAATTCAAA
* *
88451273 TTTGGAAACAAAATCAAATAAAATAAAATCTTGTTAACGATGGGAATAAATCTCGAAACATATTT
1 TTTGGAAACAAAATCAAATAAAATAAAA-CTTGTTAACGATGGCAATAAATCTCGAAACAGATTT
*
88451338 TATTTAATTTAATT
65 TATTTAATTCAATT
88451352 TCTCATTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
81 4 0.06
82 4 0.06
83 53 0.77
84 8 0.12
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.33
Consensus pattern (82 bp):
TTTGGAAACAAAATCAAATAAAATAAAACTTGTTAACGATGGCAATAAATCTCGAAACAGATTTT
ATTTAATTCAATTCAAA
Found at i:88451732 original size:78 final size:79
Alignment explanation
Indices: 88451345--88451743 Score: 508
Period size: 79 Copynumber: 5.1 Consensus size: 79
88451335 TTTTATTTAA
* * * * *
88451345 TTTAATTT-CTCATTTTTGGTAACAAAATCAAAA--TGTAAT-AAATCCGTTGAAC-AGCGGGAA
1 TTTATTTTACTCATTTTTGGAAATAAAA-CAAAATTTGGAATAAAAT-CGTTAAACGA-CGGGAA
*
88451405 TCAATCTCGAAACGGAT
63 TCAATCCCGAAACGGAT
* *
88451422 TTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTGGAATGAAATCGTTAAACGACGGGAATCA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTAAACGACGGGAATCA
*
88451487 ATCTCGAAACGGAT
66 ATCCCGAAACGGAT
* **
88451501 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATTGTTAAACGACACGAATCA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTAAACGACGGGAATCA
88451566 ATCCCGAAACGGAT
66 ATCCCGAAACGGAT
* *
88451580 TTTATTTTACTCATTTTTGGAAATAAAATAAAATTTGGAATAAAATCGTTAAACGACAGGAATCA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTAAACGACGGGAATCA
*
88451645 ATCCCGAAATGGAT
66 ATCCCGAAACGGAT
* * * * *
88451659 TTTATTTTACTCGA-TTTTAGAAAT-AAATAAAATTTGGAATAAAATCATTGAAC-AGTGGGAAT
1 TTTATTTTACTC-ATTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTAAACGA-CGGGAAT
*
88451721 CAATCCCGAAATGGAT
64 CAATCCCGAAACGGAT
88451737 TTTATTT
1 TTTATTT
88451744 ACCTTTAATT
Statistics
Matches: 294, Mismatches: 21, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
77 13 0.04
78 71 0.24
79 204 0.69
80 6 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (79 bp):
TTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTAAACGACGGGAATCA
ATCCCGAAACGGAT
Done.