Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 259 of 279
Found at i:84415981 original size:30 final size:30
Alignment explanation
Indices: 84415941--84416109 Score: 320
Period size: 30 Copynumber: 5.6 Consensus size: 30
84415931 CTGTCCACAT
84415941 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
1 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
*
84415971 TTGGTATTTAAATGCTGTCTATTTTTTTGG
1 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
84416001 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
1 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
*
84416031 TTGGTATTTAAATGCTGTCTATTTTTTTGG
1 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
84416061 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
1 TTGGTGTTTAAATGCTGTCTATTTTTTTGG
84416091 TTGGTGTTTAAATGCTGTC
1 TTGGTGTTTAAATGCTGTC
84416110 CAAATCAGGG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (30 bp):
TTGGTGTTTAAATGCTGTCTATTTTTTTGG
Found at i:84418066 original size:37 final size:36
Alignment explanation
Indices: 84418016--84418099 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
84418006 TAATGTTTTT
* *
84418016 AAATTCAAGTGTATGTATATATATATCATATGTA-GCC
1 AAATT-AATTGTATGTATAGATATAT-ATATGTATGCC
*
84418053 AAATTGAATTGTATGTATGGATATATATATGTATTGCC
1 AAATT-AATTGTATGTATAGATATATATATGTA-TGCC
84418091 AAATTAATT
1 AAATTAATT
84418100 TGAGCATGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.17
37 26 0.63
38 8 0.20
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (36 bp):
AAATTAATTGTATGTATAGATATATATATGTATGCC
Found at i:84419304 original size:37 final size:36
Alignment explanation
Indices: 84419254--84419337 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
84419244 TAATGTTTTT
* *
84419254 AAATTCAAGTGTATGTATATATATATCATATGTA-GCC
1 AAATT-AATTGTATGTATAGATATAT-ATATGTATGCC
*
84419291 AAATTGAATTGTATGTATGGATATATATATGTATTGCC
1 AAATT-AATTGTATGTATAGATATATATATGTA-TGCC
84419329 AAATTAATT
1 AAATTAATT
84419338 TGAGCATGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.17
37 26 0.63
38 8 0.20
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (36 bp):
AAATTAATTGTATGTATAGATATATATATGTATGCC
Found at i:84423324 original size:48 final size:48
Alignment explanation
Indices: 84423202--84423325 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
84423192 ATTTTTTTGG
* * * * *
84423202 TTGGTGTTTAAATGCTTTTCATTTTTGAGCATATTAATGCTGTCCAAA
1 TTGGTGCTTAAATGCTATCCATTTTTTAGCAAATTAATGCTGTCCAAA
* ** * * * *
84423250 TTAGTGCTTAAATATTGTCAAATTTTTAGCAAATTAATGTTGTCCAAA
1 TTGGTGCTTAAATGCTATCCATTTTTTAGCAAATTAATGCTGTCCAAA
84423298 TTGGTGCTTAAATGCTATCCATTTTTTA
1 TTGGTGCTTAAATGCTATCCATTTTTTA
84423326 TCTATGCCTC
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (48 bp):
TTGGTGCTTAAATGCTATCCATTTTTTAGCAAATTAATGCTGTCCAAA
Found at i:84432011 original size:27 final size:27
Alignment explanation
Indices: 84431954--84432012 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
84431944 AAGTTTAGGC
* * *
84431954 TTTTGGGCCATTAGGGTTTTCTTTTTA
1 TTTTGGGCCATTAGGGCTCTCTTCTTA
* *
84431981 TTTTGGGCCATTTGGGCCTCTCTTCTTT
1 TTTTGGGCCATTAGGG-CTCTCTTCTTA
84432009 TTTT
1 TTTT
84432013 TTTTTGTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.07, C:0.17, G:0.20, T:0.56
Consensus pattern (27 bp):
TTTTGGGCCATTAGGGCTCTCTTCTTA
Found at i:84432936 original size:55 final size:55
Alignment explanation
Indices: 84432852--84433018 Score: 325
Period size: 55 Copynumber: 3.0 Consensus size: 55
84432842 TACTGGTTTC
84432852 AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
1 AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
84432907 AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
1 AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
*
84432962 AGATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
1 AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
84433017 AA
1 AA
84433019 CACATTTTAT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (55 bp):
AAATAGAGGTATTCATGAGCTAGACCAGGTTCGGATCAGACTTAAGTATGATATT
Found at i:84434033 original size:14 final size:15
Alignment explanation
Indices: 84433994--84434031 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
84433984 CTCATCCGAT
84433994 TTAAATAAATAAATCA
1 TTAAA-AAATAAATCA
84434010 TTAAAAAATAAAT-A
1 TTAAAAAATAAATCA
84434024 GTTAAAAA
1 -TTAAAAA
84434032 TATGATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
TTAAAAAATAAATCA
Found at i:84437089 original size:7 final size:7
Alignment explanation
Indices: 84437074--84437108 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
84437064 GAACTTGGCA
*
84437074 TTTAGTT
1 TTTATTT
84437081 TTTATTT
1 TTTATTT
84437088 TTTATTT
1 TTTATTT
84437095 TTTATTT
1 TTTATTT
84437102 TTTATTT
1 TTTATTT
84437109 GAAGTTCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTATTT
Found at i:84444291 original size:17 final size:17
Alignment explanation
Indices: 84444266--84444300 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
84444256 ATAAACACTA
84444266 AAAAATATTTTAAAAAT
1 AAAAATATTTTAAAAAT
*
84444283 AAAAGTATTTTAAAAAT
1 AAAAATATTTTAAAAAT
84444300 A
1 A
84444301 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATTTTAAAAAT
Found at i:84445336 original size:30 final size:30
Alignment explanation
Indices: 84445280--84445336 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
84445270 ATTTGTACAC
* *
84445280 TGAAATTGCAATTAGGTTCATTTTGATACT
1 TGAAATTGCAACTAGGTTCATCTTGATACT
*
84445310 TGAACTTGCAACTAGGTTCCA-CTTGAT
1 TGAAATTGCAACTAGGTT-CATCTTGAT
84445337 CCCTAAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (30 bp):
TGAAATTGCAACTAGGTTCATCTTGATACT
Found at i:84448078 original size:105 final size:105
Alignment explanation
Indices: 84447890--84448098 Score: 319
Period size: 105 Copynumber: 2.0 Consensus size: 105
84447880 CGTCATGCGG
* * * *
84447890 TAAATGAAAGTATGAGGAGTCAGTTGAATCACAAGTGAAGTGACAAAAGATATATGTTCGAGTTT
1 TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
* * *
84447955 TTAATTGATATTAGTCTCGAGATCGATTTCTAGACGATCT
66 TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATCT
* *
84447995 TAAATGAAAGTACGAGGAGTCGGTAGAATCATAAGTGAAATGACAAAAGATATATATTCGAGTTT
1 TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
* *
84448060 TTAGTTGACATTAATCTCGAGATTGATCTCTAGACGATC
66 TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATC
84448099 ATTTGGACTC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 93 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (105 bp):
TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATCT
Found at i:84449008 original size:34 final size:34
Alignment explanation
Indices: 84448970--84449040 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
84448960 TTATTAATAA
84448970 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
1 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
84449004 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
1 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
84449038 ATT
1 ATT
84449041 AAAACGCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (34 bp):
ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
Found at i:84450657 original size:23 final size:23
Alignment explanation
Indices: 84450631--84450683 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
84450621 TAAAATTGAC
*
84450631 AAATTCA-AAAAGTATAAAGATT
1 AAATTCATAAAAGTACAAAGATT
* *
84450653 AAAATTGATCAAAGTACAAAGATT
1 -AAATTCATAAAAGTACAAAGATT
84450677 AAATTCA
1 AAATTCA
84450684 CAACTTATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATTCATAAAAGTACAAAGATT
Found at i:84454331 original size:21 final size:21
Alignment explanation
Indices: 84454289--84454372 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 21
84454279 CTCCAATCCC
* *
84454289 AAATTTAAAATATGAAACCTCA
1 AAATTTAAATTTTGAAA-CTCA
*
84454311 AAATTTAAATTTTGAATCTC-
1 AAATTTAAATTTTGAAACTCA
84454331 AAATGTTAAA-TTT-AAACTCA
1 AAAT-TTAAATTTTGAAACTCA
* *
84454351 AACTTTAAA-TTTCAAACTCA
1 AAATTTAAATTTTGAAACTCA
84454371 AA
1 AA
84454373 CCTCAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 13 0.24
20 19 0.35
21 8 0.15
22 14 0.26
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTTAAATTTTGAAACTCA
Found at i:84454352 original size:19 final size:20
Alignment explanation
Indices: 84454307--84454373 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
84454297 AATATGAAAC
* * *
84454307 CTCAAAATTTAAATTTTGAAT
1 CTCAAACTTTAAA-TTTCAAA
84454328 CTCAAA-TGTTAAATTT-AAA
1 CTCAAACT-TTAAATTTCAAA
84454347 CTCAAACTTTAAATTTCAAA
1 CTCAAACTTTAAATTTCAAA
84454367 CTCAAAC
1 CTCAAAC
84454374 CTCAAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 16 0.38
20 15 0.36
21 11 0.26
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (20 bp):
CTCAAACTTTAAATTTCAAA
Found at i:84468468 original size:27 final size:28
Alignment explanation
Indices: 84468438--84468494 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
84468428 TTTCATGATT
*
84468438 TTGTTAATATA-ATAATTTTA-GTGTTAA
1 TTGTGAATATATATAATTTTATGT-TTAA
* *
84468465 TTGTGAATTTATTTAATTTTATGTTTAA
1 TTGTGAATATATATAATTTTATGTTTAA
84468493 TT
1 TT
84468495 TGCCAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.36
28 14 0.56
29 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (28 bp):
TTGTGAATATATATAATTTTATGTTTAA
Found at i:84469245 original size:23 final size:23
Alignment explanation
Indices: 84469217--84469260 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
84469207 GGGTTTAAGT
**
84469217 AAAAATATAAGTTCGAATTTGAA
1 AAAAATATAAGCCCGAATTTGAA
84469240 AAAAATATAAGCCCGAATTTG
1 AAAAATATAAGCCCGAATTTG
84469261 CCACCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (23 bp):
AAAAATATAAGCCCGAATTTGAA
Found at i:84469311 original size:11 final size:11
Alignment explanation
Indices: 84469296--84469334 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
84469286 TTTTTTTTAC
84469296 TATTTTGCTAT
1 TATTTTGCTAT
* *
84469307 CATTTCGCTAT
1 TATTTTGCTAT
*
84469318 TATATTGCTAT
1 TATTTTGCTAT
84469329 TATTTT
1 TATTTT
84469335 ATTGTTATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.59
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:84478813 original size:20 final size:20
Alignment explanation
Indices: 84478784--84478823 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
84478774 AATAACCATA
* *
84478784 TAAACTCAACCCAATGACCC
1 TAAACCCAACCCAATAACCC
84478804 TAAACCCAACCCAATAACCC
1 TAAACCCAACCCAATAACCC
84478824 AAGGTTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.42, G:0.03, T:0.12
Consensus pattern (20 bp):
TAAACCCAACCCAATAACCC
Found at i:84485454 original size:57 final size:57
Alignment explanation
Indices: 84485354--84485461 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 57
84485344 GACAAAATTA
* * **
84485354 AATAGTTAAATGATTATTTTGTAACTTTTCATAGTTGTGTGACCAGAAAAAAAAACT
1 AATAGTTAAATGATTATTTTGTAACTTTTCATAATCGAATGACCAGAAAAAAAAACT
** * *
84485411 AATAGTTGGATGATTATTTTGTAACTTTTTATAATCGAATGACCTGAAAAA
1 AATAGTTAAATGATTATTTTGTAACTTTTCATAATCGAATGACCAGAAAAA
84485462 CACATAGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (57 bp):
AATAGTTAAATGATTATTTTGTAACTTTTCATAATCGAATGACCAGAAAAAAAAACT
Found at i:84488935 original size:47 final size:46
Alignment explanation
Indices: 84488875--84488997 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 46
84488865 TTCTATTGAT
*
84488875 CTCATAAAATGTTTTCAATGTTCGGTTGTAGTCCATGCTTCTAGCAC
1 CTCATATAATGTTTTC-ATGTTCGGTTGTAGTCCATGCTTCTAGCAC
* * * *
84488922 CTCATATAATGTTTTCGTGGTTCAGTTGTAGTCCATGCTTCTGGTAC
1 CTCATATAATGTTTTCAT-GTTCGGTTGTAGTCCATGCTTCTAGCAC
*
84488969 CTCATATAATGTTTTCGATGTTCGTTTGT
1 CTCATATAATGTTTTC-ATGTTCGGTTGT
84488998 CCTACAAACG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 1 0.02
47 64 0.97
48 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (46 bp):
CTCATATAATGTTTTCATGTTCGGTTGTAGTCCATGCTTCTAGCAC
Found at i:84502226 original size:33 final size:33
Alignment explanation
Indices: 84502183--84502282 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 33
84502173 GGAAACTGGG
* *
84502183 ACTAAATCGGAACCTGATGATGAGTCATCTGAA
1 ACTAATTCGGAACCTGATGATCAGTCATCTGAA
* * * * **
84502216 ACTAATTCGGAGCCTGCTGACCAGTCTTCACAA
1 ACTAATTCGGAACCTGATGATCAGTCATCTGAA
* * * *
84502249 GCTAATTCGAAACCTGTTGATCAGTCGTCTGAA
1 ACTAATTCGGAACCTGATGATCAGTCATCTGAA
84502282 A
1 A
84502283 ACTCTAAGGG
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (33 bp):
ACTAATTCGGAACCTGATGATCAGTCATCTGAA
Found at i:84504796 original size:333 final size:336
Alignment explanation
Indices: 84503689--84505183 Score: 1588
Period size: 333 Copynumber: 4.5 Consensus size: 336
84503679 TGAGAAATTA
*** * * * * *
84503689 TATATAGTGTTGATGCTACACCCAAGCCCA-GTCCAACACATAGATACCTCTA-ACCTGAACATG
1 TATATAGTGTTGATGCTACACATGAGCCTAGGTCCAACTCATAGACACCTC-AGACCCGAACACG
* * * * *
84503752 AGTACAGGAATATGATCTTTCAAAGATCCTTTTAATACATAGAAAATACCCTTTTCGAACACACC
65 AATATAGGAATATGATCTTCCAAAGATCCTCTTAATACATAGAAAATACCCTTTTTGAACACACC
*
84503817 TGTGTGCACACTCACACCTGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTTCCC
130 -GTGTGCACACTCACACCCGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTTCCC
* * * *
84503882 TTGCTTTTCTTGAAGTAATCGTGTAC-AACACATACTTGAACTAGACTTGTCCAAGGACCTATGT
194 CTGCTTTTCTTCAAGTAATCGTGT-CTGACACATACTTGAACTAGACTTGTCCAAGGACCCATG-
* *
84503946 A-CAAAGCCCCACC-GGTATTTGGGAAGGTTTAGACAAAAATATTAGGCCTGATAATGAACTTGG
257 AGCAAAGCCCCACCTGGTATTTGGGAAGGTTTAGACAAAAATATTAAGCCTGAGAATGAACTTGG
84504009 CCAAAATATGAGACC
322 CCAAAATATGAGACC
* * * * ** ***
84504024 TATATAGTGTTGATGCTACATATGAG-CTTGGTCTAACTCATAGATACCTTTGATTTGAACACAG
1 TATATAGTGTTGATGCTACACATGAGCCTAGGTCCAACTCATAGACACCTCAGACCCGAACAC-G
* * *
84504088 AGTATAGGAATATGATC-T--AAAAATCCTCTTAATACATAGAAAATACCC-TTTCGAACACACC
65 AATATAGGAATATGATCTTCCAAAGATCCTCTTAATACATAGAAAATACCCTTTTTGAACACA-C
* * * *
84504149 CGTGTGCACACTGACACCCGAATCCAAGCACCATAACACTCGAAGCGAAAAAGCTAACACTTACC
129 CGTGTGCACACTCACACCCGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTT-CC
** * * *
84504214 TTTGCTTTTCTTGAAGTAATTGTGTCTGACACATACTTGAACTAGTCCTT-TCCAAGGACCCATG
193 CCTGCTTTTCTTCAAGTAATCGTGTCTGACACATACTTGAACTAG-ACTTGTCCAAGGACCCATG
* * ** * * *
84504278 ACCAAAGCCCTACCCAGTATTCGAGAAGGTTTAGACAAAAATATCAAGCCTGAGAATGAACTTGG
257 AGCAAAGCCCCACCTGGTATTTGGGAAGGTTTAGACAAAAATATTAAGCCTGAGAATGAACTTGG
*** *
84504343 TGGAAACATGAGACC
322 CCAAAATATGAGACC
* * * *
84504358 TATATAGTGTTAATGCTACAC--GAG-CTGGGTCCAACTCATAGACACCTCTGACCCAAACAC-A
1 TATATAGTGTTGATGCTACACATGAGCCTAGGTCCAACTCATAGACACCTCAGACCCGAACACGA
* * * * *
84504419 AGTATCGGAATATGATCTTCCAAAGATCTTTTTAATACATAGAAAATACCCTTTTTGACCTCACT
66 A-TATAGGAATATGATCTTCCAAAGATCCTCTTAATACATAGAAAATACCCTTTTTGAACACAC-
* * * * * *
84504484 CGTGTACACACTCACACCCGAACCCAAGCACCATATCTCCCGAAGCAAAAAAGTTAACACTTCCC
129 CGTGTGCACACTCACACCCGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTTCCC
*
84504549 CT-CTTTTCTTCAA-TAATCGTGTCTGACACATACTTGTACTAGACTTGTCCAAGGACCCATGAG
194 CTGCTTTTCTTCAAGTAATCGTGTCTGACACATACTTGAACTAGACTTGTCCAAGGACCCATGAG
* * *
84504612 CAAAGCTCCACCTGGTATTTGGGAAGGTTTAGAC-ATAATATAAAGCCTGAGAATGAACTTGGCC
259 CAAAGCCCCACCTGGTATTTGGGAAGGTTTAGACAAAAATATTAAGCCTGAGAATGAACTTGGCC
84504676 AAAATATGAGACC
324 AAAATATGAGACC
** * * * *
84504689 TATGCAGTGTTGATGCTACCCATGAGCCT-GGTCCATCTCCTAGACACCTCAGACCCGATCACGA
1 TATATAGTGTTGATGCTACACATGAGCCTAGGTCCAACTCATAGACACCTCAGACCCGAACACGA
** * * * *
84504753 ATATAACAATATGATCTTCCAGAGATCCTATTAATACATAGAAAATACACCCTTTTTTAACACGT
66 ATATAGGAATATGATCTTCCAAAGATCCTCTTAATACATAGAAAAT--ACCCTTTTTGAACAC-A
** * * * * * * * **
84504818 TTGTGTGCACACTTACACGCAAATCCAAGTACCTTAGCACCCGGAGCCAAAAAGCTATCGGTTCC
128 CCGTGTGCACACTCACACCCGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTTCC
* * * *
84504883 CCTTGCTTTTCTTTC-AGGAATCATGTCTGACACATACTTGAACTAGACCTGTCCAAGGACCTAT
193 CC-TGCTTTTC-TTCAAGTAATCGTGTCTGACACATACTTGAACTAGACTTGTCCAAGGACCCAT
* * * *
84504947 GTGCAAAGCCCCACCCT-GTATTTGGGAAGATTTATACAAAAATATTAAGCTTGAGAATGAACTT
256 GAGCAAAGCCCCA-CCTGGTATTTGGGAAGGTTTAGACAAAAATATTAAGCCTGAGAATGAACTT
*
84505011 GGCCAAAATATGAAACC
320 GGCCAAAATATGAGACC
* * * * **
84505028 TATATATTGTTGATACTACACAT--TCACTAGGTCTAACTCATAGACACCTCTA-ACTTGAACAC
1 TATATAGTGTTGATGCTACACATGAGC-CTAGGTCCAACTCATAGACACCTC-AGACCCGAACAC
* * * * *
84505090 GAGTATAGGAATACT-ATCGTCCAGAGATCCTCTT-A-ACACAGAAAATACCCTTTTTGAACTCA
64 GAATATAGGAATA-TGATCTTCCAAAGATCCTCTTAATACATAGAAAATACCCTTTTTGAACACA
*
84505152 CC-TGTGTACACTCACACCCGAATCCAAGCACC
128 CCGTGTGCACACTCACACCCGAATCCAAGCACC
84505184 CATGTGCAGA
Statistics
Matches: 968, Mismatches: 159, Indels: 68
0.81 0.13 0.06
Matches are distributed among these distances:
330 1 0.00
331 71 0.07
332 171 0.18
333 201 0.21
334 113 0.12
335 184 0.19
336 18 0.02
337 18 0.02
338 77 0.08
339 112 0.12
340 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (336 bp):
TATATAGTGTTGATGCTACACATGAGCCTAGGTCCAACTCATAGACACCTCAGACCCGAACACGA
ATATAGGAATATGATCTTCCAAAGATCCTCTTAATACATAGAAAATACCCTTTTTGAACACACCG
TGTGCACACTCACACCCGAATCCAAGCACCATAGCACCCGAAGCCAAAAAGCTAACACTTCCCCT
GCTTTTCTTCAAGTAATCGTGTCTGACACATACTTGAACTAGACTTGTCCAAGGACCCATGAGCA
AAGCCCCACCTGGTATTTGGGAAGGTTTAGACAAAAATATTAAGCCTGAGAATGAACTTGGCCAA
AATATGAGACC
Found at i:84505135 original size:670 final size:666
Alignment explanation
Indices: 84503719--84505183 Score: 1757
Period size: 670 Copynumber: 2.2 Consensus size: 666
84503709 CCCAAGCCCA
* * * * *
84503719 GTCCAACACATAGATACCTCTAACCTGAACATGAGTACAGGAATATGATCTTTCAAAGATCCTTT
1 GTCCAACTCATAGACACCTCTAACCTGAACACGAGTATAGGAATATGATCTTCCAAAGATCCTTT
* * *
84503784 TAATACATAGAAAATACCCTTTTCGAACACACCTGTGTGCACACTCACACCTGAATCCAAGCACC
66 TAATACATAGAAAATACCCTTTTTGAACTCACCTGTGT-CACACTCACACCCGAATCCAAGCACC
* * *
84503849 ATAGCACCCGAAGCCAAAAAGCTAACACTTCCCTTGCTTTTCTTGAAGTAATCGTGTACAACACA
130 ATAGCACCCGAAGCAAAAAAGCTAACACTTCCCCTGCTTTTCTTCAAGTAATCGTGTACAACACA
*
84503914 TACTTGAACTAGACTTGTCCAAGGACCTATGTACAAAGCCCCACCGGTATTTGGGAAGGTTTAGA
195 TACTTGAACTAGACTTGTCCAAGGACCCATGTACAAAGCCCCACCGGTATTTGGGAAGGTTTAGA
* * * *
84503979 CAAAAATATTAGGCCTGATAATGAACTTGGCCAAAATATGAGACCTATATAGTGTTGATGCTACA
260 CAAAAATATAAAGCCTGAGAATGAACTTGGCCAAAATATGAGACCTATACAGTGTTGATGCTACA
* * * * ** *** * **
84504044 TATGAGCTTGGTCTAACTCATAGATACCTTTGATTTGAACACAGAGTATAGGAATATGATCTAAA
325 CATGAGCCTGGTCCAACTCATAGACACCTCAGACCCGAACACAGAATATAACAATATGATCTAAA
* *
84504109 AATCCTCTTAATACATAGAAAATACCCTTTCGAACACACCCGTGTGCACACTGACACCCGAATCC
390 AATCCTATTAATACATAGAAAATACCCTTTCGAACACACCCGTGTGCACACTGACACCCAAATCC
* * * * **
84504174 AAGCACCATAACACTCGAAGCGAAAAAGCTAACACTTACCTTTGCTTTTCTTGAAGTAATTGTGT
455 AAGCACCATAACACCCGAAGCCAAAAAGCTAACACTTACCCTTGCTTTTCTTGAAGGAATCATGT
* * *
84504239 CTGACACATACTTGAACTAGTCCTTTCCAAGGACCCATGACCAAAGCCCTACCCAGTATTCGAGA
520 CTGACACATACTTGAACTAGACCTGTCCAAGGACCCATGACCAAAGCCCCACCCAGTATTCGAGA
* *** *
84504304 AGGTTTAGACAAAAATATCAAGCCTGAGAATGAACTTGGTGGAAACATGAGACCTATATAGTGTT
585 AGATTTAGACAAAAATATCAAGCCTGAGAATGAACTTGGCCAAAACATGAAACCTATATAGTGTT
* * *
84504369 AATGCTACACGAGCTGG
650 AATACTACACGAACTAG
* ** * * *
84504386 GTCCAACTCATAGACACCTCTGACCCAAACACAAGTATCGGAATATGATCTTCCAAAGATCTTTT
1 GTCCAACTCATAGACACCTCTAACCTGAACACGAGTATAGGAATATGATCTTCCAAAGATCCTTT
* *
84504451 TAATACATAGAAAATACCCTTTTTGACCTCA-CTCGTGTACACACTCACACCCGAACCCAAGCAC
66 TAATACATAGAAAATACCCTTTTTGAACTCACCT-GTGT-CACACTCACACCCGAATCCAAGCAC
* * * *
84504515 CATATCTCCCGAAGCAAAAAAGTTAACACTTCCCCT-CTTTTCTTCAA-TAATCGTGT-CTGACA
129 CATAGCACCCGAAGCAAAAAAGCTAACACTTCCCCTGCTTTTCTTCAAGTAATCGTGTAC-AACA
* *
84504577 CATACTTGTACTAGACTTGTCCAAGGACCCATG-AGCAAAGCTCCACCTGGTATTTGGGAAGGTT
193 CATACTTGAACTAGACTTGTCCAAGGACCCATGTA-CAAAGCCCCACC-GGTATTTGGGAAGGTT
* *
84504641 TAGAC-ATAATATAAAGCCTGAGAATGAACTTGGCCAAAATATGAGACCTATGCAGTGTTGATGC
256 TAGACAAAAATATAAAGCCTGAGAATGAACTTGGCCAAAATATGAGACCTATACAGTGTTGATGC
* * * *
84504705 TACCCATGAGCCTGGTCCATCTCCTAGACACCTCAGACCCGATCAC-GAATATAACAATATGATC
321 TACACATGAGCCTGGTCCAACTCATAGACACCTCAGACCCGAACACAGAATATAACAATATGATC
* * ** **** *
84504769 TTCCAGAGATCCTATTAATACATAGAAAATACACCCTTTTTTAACACGTTTGTGTGCACACTTAC
386 -T--AAAAATCCTATTAATACATAGAAAAT--ACCC-TTTCGAACACACCCGTGTGCACACTGAC
* * * * * * ** * **
84504834 ACGCAAATCCAAGTACCTTAGCACCCGGAGCCAAAAAGCTATCGGTTCCCCTTGCTTTTCTTTCA
445 ACCCAAATCCAAGCACCATAACACCCGAAGCCAAAAAGCTAACACTTACCCTTGCTTTTCTTGAA
* ** *
84504899 GGAATCATGTCTGACACATACTTGAACTAGACCTGTCCAAGGACCTATGTGCAAAGCCCCACCCT
510 GGAATCATGTCTGACACATACTTGAACTAGACCTGTCCAAGGACCCATGACCAAAGCCCCACCCA
* * * * * *
84504964 GTATTTGGGAAGATTTATACAAAAATATTAAGCTTGAGAATGAACTTGGCCAAAATATGAAACCT
575 GTATTCGAGAAGATTTAGACAAAAATATCAAGCCTGAGAATGAACTTGGCCAAAACATGAAACCT
* *
84505029 ATATATTGTTGATACTACAC-ATTCACTAG
640 ATATAGTGTTAATACTACACGA---ACTAG
* * * * *
84505058 GTCTAACTCATAGACACCTCTAACTTGAACACGAGTATAGGAATACT-ATCGTCCAGAGATCCTC
1 GTCCAACTCATAGACACCTCTAACCTGAACACGAGTATAGGAATA-TGATCTTCCAAAGATCCTT
*
84505122 TT-A-ACACAGAAAATACCCTTTTTGAACTCACCTGTGT-ACACTCACACCCGAATCCAAGCACC
65 TTAATACATAGAAAATACCCTTTTTGAACTCACCTGTGTCACACTCACACCCGAATCCAAGCACC
84505184 CATGTGCAGA
Statistics
Matches: 669, Mismatches: 114, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
664 17 0.03
665 141 0.21
666 33 0.05
667 163 0.24
668 24 0.04
669 5 0.01
670 226 0.34
671 3 0.00
672 56 0.08
673 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (666 bp):
GTCCAACTCATAGACACCTCTAACCTGAACACGAGTATAGGAATATGATCTTCCAAAGATCCTTT
TAATACATAGAAAATACCCTTTTTGAACTCACCTGTGTCACACTCACACCCGAATCCAAGCACCA
TAGCACCCGAAGCAAAAAAGCTAACACTTCCCCTGCTTTTCTTCAAGTAATCGTGTACAACACAT
ACTTGAACTAGACTTGTCCAAGGACCCATGTACAAAGCCCCACCGGTATTTGGGAAGGTTTAGAC
AAAAATATAAAGCCTGAGAATGAACTTGGCCAAAATATGAGACCTATACAGTGTTGATGCTACAC
ATGAGCCTGGTCCAACTCATAGACACCTCAGACCCGAACACAGAATATAACAATATGATCTAAAA
ATCCTATTAATACATAGAAAATACCCTTTCGAACACACCCGTGTGCACACTGACACCCAAATCCA
AGCACCATAACACCCGAAGCCAAAAAGCTAACACTTACCCTTGCTTTTCTTGAAGGAATCATGTC
TGACACATACTTGAACTAGACCTGTCCAAGGACCCATGACCAAAGCCCCACCCAGTATTCGAGAA
GATTTAGACAAAAATATCAAGCCTGAGAATGAACTTGGCCAAAACATGAAACCTATATAGTGTTA
ATACTACACGAACTAG
Found at i:84506188 original size:186 final size:186
Alignment explanation
Indices: 84505924--84506484 Score: 915
Period size: 186 Copynumber: 3.0 Consensus size: 186
84505914 ACGGTTGTCT
84505924 AATTGCTTTTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
1 AATTGCTTTTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
* * * **
84505989 GTCCCTGATGCTTTTTACAGTGAGTAAAATTATTTCTCTATATGTTAGAAATTTGACCAAAATTG
66 GTCCCTAATGCTTTTTACAGTGAGTAAAATGATTTCTCTATATGTTAGAAATTCGATTAAAATTG
* * * * *
84506054 TAACGACTTAATTTTCAATGGTTTCGGAACTTTATTTTCTTAAATCGAGTTTGTAA
131 TAATGACTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAATCGAGTCTGTAA
*
84506110 AATTGCTTTTGTCACTTACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
1 AATTGCTTTTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
* * * *
84506175 GTCCCTAATGCTTTTTATAGTGAGTAAAATGATTTTTCTCTATTTTAGAAATTCGATTAAAATTG
66 GTCCCTAATGCTTTTTACAGTGAGTAAAATGATTTCTCTATATGTTAGAAATTCGATTAAAATTG
*
84506240 TAATGGCTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAATCGAGTCTGTAA
131 TAATGACTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAATCGAGTCTGTAA
** * *
84506296 AATTGCCATTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCATCTCATGTATTATATGTTG
1 AATTGCTTTTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
* *
84506361 GTCCCTAATGCTTTTTACTGTGAGTAAAATGATTTCTCTGTATGTTAGAAATTCGATTAAAATTG
66 GTCCCTAATGCTTTTTACAGTGAGTAAAATGATTTCTCTATATGTTAGAAATTCGATTAAAATTG
*
84506426 TAATGACTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAACCGAGTCTGTAA
131 TAATGACTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAATCGAGTCTGTAA
84506482 AAT
1 AAT
84506485 AGAAATATTT
Statistics
Matches: 347, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
186 347 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (186 bp):
AATTGCTTTTGTCACTCACTTTCTCCTATTCTTATTATTGTACCCGTCTCATGTATTATATTTTG
GTCCCTAATGCTTTTTACAGTGAGTAAAATGATTTCTCTATATGTTAGAAATTCGATTAAAATTG
TAATGACTCAATTTTTAATGGTTTCGGAACTTTATTTTCGTAAATCGAGTCTGTAA
Found at i:84506957 original size:10 final size:9
Alignment explanation
Indices: 84506944--84507035 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
84506934 TTTCTATATA
84506944 TTTTATAAT
1 TTTTATAAT
84506953 TTTT-TACGAT
1 TTTTATA--AT
84506963 TTTTATAACTTT
1 TTTTATAA---T
*
84506975 TTTTCTAAT
1 TTTTATAAT
* *
84506984 TTTAATAAC
1 TTTTATAAT
84506993 TTTTA-AAT
1 TTTTATAAT
* *
84507001 ATTTTTTAAAA
1 -TTTTAT-AAT
*
84507012 TTTAATAAT
1 TTTTATAAT
84507021 TTTTATAAT
1 TTTTATAAT
84507030 TTTTAT
1 TTTTAT
84507036 TGATTATTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
8 4 0.06
9 36 0.58
10 10 0.16
11 4 0.06
12 8 0.13
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:84506978 original size:21 final size:21
Alignment explanation
Indices: 84506934--84506996 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
84506924 TTTTTCTATA
84506934 TTTCTATATATTTTATAA-TTTT
1 TTTCTA-AT-TTTTATAACTTTT
* *
84506956 TTAC-GATTTTTATAACTTTT
1 TTTCTAATTTTTATAACTTTT
*
84506976 TTTCTAATTTTAATAACTTTT
1 TTTCTAATTTTTATAACTTTT
84506997 AAATATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.24
20 9 0.26
21 14 0.41
22 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTCTAATTTTTATAACTTTT
Found at i:84507023 original size:17 final size:17
Alignment explanation
Indices: 84506998--84507031 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84506988 ATAACTTTTA
*
84506998 AATATTTTTTAAAATTT
1 AATAATTTTTAAAATTT
*
84507015 AATAATTTTTATAATTT
1 AATAATTTTTAAAATTT
84507032 TTATTGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATAATTTTTAAAATTT
Found at i:84507034 original size:19 final size:19
Alignment explanation
Indices: 84506944--84507034 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 19
84506934 TTTCTATATA
* **
84506944 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTAATAAT
**
84506963 TTTTATAACTTTTTTTCTAAT
1 TTTTATAA--TTTTTAATAAT
* *
84506984 TTTAATAACTTTTAA-ATAT
1 TTTTATAATTTTTAATA-AT
**
84507003 TTTT-TAAAATTTAATAAT
1 TTTTATAATTTTTAATAAT
84507021 TTTTATAATTTTTA
1 TTTTATAATTTTTA
84507035 TTGATTATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
18 15 0.27
19 25 0.45
21 15 0.27
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAT
Found at i:84509918 original size:22 final size:24
Alignment explanation
Indices: 84509893--84509947 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
84509883 TTTTTTATGG
*
84509893 ATTTTGAA-TATTATTTGATAAA-
1 ATTTTAAAGTATTATTTGATAAAT
* *
84509915 ATTTTAAAGTATTTTTTTATAAAT
1 ATTTTAAAGTATTATTTGATAAAT
84509939 ATTTCTAAA
1 ATTT-TAAA
84509948 AAAATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 4 0.15
25 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTTTAAAGTATTATTTGATAAAT
Found at i:84510315 original size:40 final size:36
Alignment explanation
Indices: 84510242--84510355 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 36
84510232 TTTGATTATA
* *
84510242 TTTTAAAAAATTGTTTATTTTGACAAA-TGTTAGGGTTT
1 TTTTAAAAAA-TGTTTATTTAGATAAAGT-TTA-GGTTT
*
84510280 TTTAAATAAAAAATGTTTATTTAGATAAAGTTTAGGCTT
1 TTT---TAAAAAATGTTTATTTAGATAAAGTTTAGGTTT
* * *
84510319 ATTT-AAAATTGTTTATTTAGATAAAGGTTAGGTTT
1 TTTTAAAAAATGTTTATTTAGATAAAGTTTAGGTTT
84510354 TT
1 TT
84510356 GTTATTTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
35 29 0.45
36 1 0.02
38 3 0.05
39 6 0.09
40 17 0.27
41 8 0.12
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (36 bp):
TTTTAAAAAATGTTTATTTAGATAAAGTTTAGGTTT
Found at i:84512456 original size:30 final size:30
Alignment explanation
Indices: 84512420--84512479 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
84512410 TTAAGTTCGA
84512420 ACTTTAGGGACAACATTATTGTCCAACCTC
1 ACTTTAGGGACAACATTATTGTCCAACCTC
*
84512450 ACTTTAGGGACAACGTTATTGTCCAACCTC
1 ACTTTAGGGACAACATTATTGTCCAACCTC
84512480 GAACCCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
ACTTTAGGGACAACATTATTGTCCAACCTC
Found at i:84514463 original size:15 final size:15
Alignment explanation
Indices: 84514443--84514472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84514433 AGTGTGAGGC
*
84514443 TGCTATTTGTCATCA
1 TGCTATTGGTCATCA
84514458 TGCTATTGGTCATCA
1 TGCTATTGGTCATCA
84514473 ATATCACGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (15 bp):
TGCTATTGGTCATCA
Found at i:84515506 original size:15 final size:15
Alignment explanation
Indices: 84515471--84515499 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
84515461 AAGTCGTTCA
84515471 AAAAAAAAAAGTAAC
1 AAAAAAAAAAGTAAC
84515486 AAAAAAAAAAGTAA
1 AAAAAAAAAAGTAA
84515500 AATAAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAGTAAC
Found at i:84515947 original size:3 final size:3
Alignment explanation
Indices: 84515941--84515967 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
84515931 CTTCATCTTC
84515941 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
84515968 TTTCTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:84532354 original size:38 final size:38
Alignment explanation
Indices: 84532265--84532369 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 38
84532255 AATAAAGGAC
* ** * *
84532265 AAATTTACAAAAAATACAAAAATTTATGGCATAAAAAT
1 AAATTTACAAAAAGTACAAGGACTTATGACATAAAAAT
**
84532303 AAATTTACAAAAAGTACAAGGACTTATGACATAATGAT
1 AAATTTACAAAAAGTACAAGGACTTATGACATAAAAAT
*
84532341 AAATTTACAAAAAGGTACAGGGACTTATG
1 AAATTTACAAAAA-GTACAAGGACTTATG
84532370 GCATGCCCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 44 0.76
39 14 0.24
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (38 bp):
AAATTTACAAAAAGTACAAGGACTTATGACATAAAAAT
Found at i:84535447 original size:31 final size:31
Alignment explanation
Indices: 84535411--84535471 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
84535401 ATTGAGTAAC
84535411 TTAAATAAAAAATTCCAAATAATTCAATAAT
1 TTAAATAAAAAATTCCAAATAATTCAATAAT
* ***
84535442 TTAAATAAAAATTTTTGAATAATTCAATAA
1 TTAAATAAAAAATTCCAAATAATTCAATAA
84535472 CTATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (31 bp):
TTAAATAAAAAATTCCAAATAATTCAATAAT
Found at i:84537056 original size:32 final size:31
Alignment explanation
Indices: 84536938--84537056 Score: 80
Period size: 32 Copynumber: 3.9 Consensus size: 31
84536928 TTAATATAAT
* *
84536938 ATTTGGTAACTAAACTTGACGCTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* **** **
84536969 ATTTGCTACCTAAACTTTTTTC-TGGTCC-A
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* * * * * *
84536998 ATTTGGTGCCCAAATTTCATATTTTTTCCCTA
1 ATTTGGTACCTAAACTTGACACTTTTT-CCTA
84537030 ATTTGGTACCTAAACTTGACACTTTTT
1 ATTTGGTACCTAAACTTGACACTTTTT
84537057 TTAAGTTGGT
Statistics
Matches: 61, Mismatches: 24, Indels: 5
0.68 0.27 0.06
Matches are distributed among these distances:
29 15 0.25
30 6 0.10
31 18 0.30
32 22 0.36
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:84537608 original size:58 final size:60
Alignment explanation
Indices: 84537485--84537620 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 60
84537475 CCTAAAAGAA
* **
84537485 AAAGTTTAGGTACCAAATTAGGCCCCAAAAAAGTTTTGATACCAAATTACAAAAAAATGT
1 AAAGTTCAGGTACCAAATTAGGCCAAAAAAAAGTTTTGATACCAAATTACAAAAAAATGT
* * * * *
84537545 CAAGTTCAGGTACCAAATTGGGCTAAAAAAAAG-TTTG-TACCAAATTAGAAAAAAGTGT
1 AAAGTTCAGGTACCAAATTAGGCCAAAAAAAAGTTTTGATACCAAATTACAAAAAAATGT
* *
84537603 AAAGTTCAGATACTAAAT
1 AAAGTTCAGGTACCAAAT
84537621 GTTATATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 34 0.52
59 4 0.06
60 27 0.42
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (60 bp):
AAAGTTCAGGTACCAAATTAGGCCAAAAAAAAGTTTTGATACCAAATTACAAAAAAATGT
Found at i:84547261 original size:21 final size:21
Alignment explanation
Indices: 84547235--84547302 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
84547225 CCATTCACTT
* *
84547235 AAAAAATATTTTTATTTTTTA
1 AAAAAATATTATTATTATTTA
*
84547256 AAAAAATA--ATTA-TCTTT-
1 AAAAAATATTATTATTATTTA
*
84547273 AACAAA-ATTATTATTATTTA
1 AAAAAATATTATTATTATTTA
84547293 AAAAAATATT
1 AAAAAATATT
84547303 TTTTCCAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 8 0.22
19 7 0.19
20 5 0.14
21 11 0.30
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATATTATTATTATTTA
Found at i:84547273 original size:18 final size:19
Alignment explanation
Indices: 84547246--84547300 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
84547236 AAAAATATTT
*
84547246 TTATTTTTTAAAAAAATAA
1 TTATTATTTAAAAAAATAA
* * *
84547265 TTA-TCTTTAACAAAATTA
1 TTATTATTTAAAAAAATAA
84547283 TTATTATTTAAAAAAATA
1 TTATTATTTAAAAAAATA
84547301 TTTTTTCCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATTATTTAAAAAAATAA
Found at i:84551689 original size:21 final size:22
Alignment explanation
Indices: 84551665--84551705 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
84551655 ACCAAAAATT
84551665 TATTTTAAAA-ATTTAAAAAAG
1 TATTTTAAAATATTTAAAAAAG
*
84551686 TATTTTAAAATATTTTAAAA
1 TATTTTAAAATATTTAAAAA
84551706 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTTAAAATATTTAAAAAAG
Found at i:84551699 original size:10 final size:10
Alignment explanation
Indices: 84551665--84551706 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
84551655 ACCAAAAATT
84551665 TATTTTAAAA
1 TATTTTAAAA
*
84551675 -ATTTAAAAAA
1 TATTT-TAAAA
84551685 GTATTTTAAAA
1 -TATTTTAAAA
84551696 TATTTTAAAA
1 TATTTTAAAA
84551706 T
1 T
84551707 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 4 0.15
12 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:84553876 original size:3 final size:3
Alignment explanation
Indices: 84553870--84553910 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
84553860 ATTATTAAAC
* *
84553870 ATT ATT A-T ATT ATT A-T ATT ATT ATT ACT ATT ATA ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
84553911 AATAAACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:84553883 original size:8 final size:8
Alignment explanation
Indices: 84553870--84553910 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
84553860 ATTATTAAAC
84553870 ATTATTAT
1 ATTATTAT
84553878 ATTATTAT
1 ATTATTAT
84553886 ATTATTATT
1 ATTATTA-T
*
84553895 ACTATTAT
1 ATTATTAT
84553903 AATTATTA
1 -ATTATTA
84553911 AATAAACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTATTAT
Found at i:84564942 original size:4 final size:4
Alignment explanation
Indices: 84564933--84564958 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
84564923 AATTGAGCCT
84564933 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
84564959 AGTTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:84573944 original size:21 final size:23
Alignment explanation
Indices: 84573906--84573947 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
84573896 CCGACCCATT
*
84573906 TTTTAATAAATACCAAAAATTTA
1 TTTTAATAAATACAAAAAATTTA
84573929 TTTTAA-AAATA-AAAAAATT
1 TTTTAATAAATACAAAAAATT
84573948 AAAAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTTAATAAATACAAAAAATTTA
Found at i:84581474 original size:22 final size:22
Alignment explanation
Indices: 84581446--84581491 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
84581436 TAGTCTGTTG
84581446 TCACTAACATTCTACTATAATT
1 TCACTAACATTCTACTATAATT
84581468 TCACTAACATTCTACTATAATT
1 TCACTAACATTCTACTATAATT
84581490 TC
1 TC
84581492 GTATTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (22 bp):
TCACTAACATTCTACTATAATT
Found at i:84584363 original size:118 final size:117
Alignment explanation
Indices: 84584143--84584678 Score: 530
Period size: 117 Copynumber: 4.6 Consensus size: 117
84584133 ACGAAAATTT
* * * **
84584143 CTCCTATACGT-AATCTCAAACACCCCAAAAGC-CAG--TTCCCGACAATCACATAAAAACCAAC
1 CTCCTATACGTAAATCTCAAACA-CCCTAAA-CTCGGTTTTCCAG-CAATCACATACCAACCAAC
* *
84584204 TGAAAAAAACTCACTTGTAAACC-AAGCTCACCAACTGTTCAAGACTAAAATCTTCA
63 TG-CAAAAACTCACTCGTAAACCGAA-CTCACCAACTGTTCAAGACTAAAATCTTCA
* * * *
84584260 CTCCCATACATAAATCTCAAACACCATAAACTTGGTTTTCCAGCAATCACATACCAACCAACTGC
1 CTCCTATACGTAAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACATACCAACCAACTGC
* *
84584325 AACAAACTCACTCGTAAACCGAACTCACCGA-TGTTTCAAGACTAAAATCTTAA
66 AA-AAACTCACTCGTAAACCGAACTCACCAACTG-TTCAAGACTAAAATCTTCA
* * ** *
84584378 CTCCTATGCGTTAATCTCAAATGCCCTAAACTCGGTTTTCCAGCAATCACGTACCAACCAACTGC
1 CTCCTATACGTAAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACATACCAACCAACTGC
* * * * * * * * *
84584443 AATAATTCACTTGAAAACTGAACTGACCGA-TGTTTCGAGACTAAAATCCTCA
66 AAAAACTCACTCGTAAACCGAACTCACCAACTG-TTCAAGACTAAAATCTTCA
* * * * * * *
84584495 CTCCTATATGTATATCTCAAACGCCCTAAACTCAGTTTTCCAGCAACCACGTACCAACCAAATGC
1 CTCCTATACGTAAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACATACCAACCAACTGC
* * * * *
84584560 AGTAAA-TCACTCGTAAACTGAACTCACCAACAGTTGAAGACTGAAATCTTCA
66 A-AAAACTCACTCGTAAACCGAACTCACCAACTGTTCAAGACTAAAATCTTCA
* * ** * *
84584612 CTCCTATATGTATATCTCAAACACCCTAAACTCGGTTTTCTGGCAATCACAAACCAATCAACTGC
1 CTCCTATACGTAAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACATACCAACCAACTGC
84584677 AA
66 AA
84584679 TTATTCACTT
Statistics
Matches: 350, Mismatches: 60, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
116 1 0.00
117 210 0.60
118 132 0.38
119 7 0.02
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.24
Consensus pattern (117 bp):
CTCCTATACGTAAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACATACCAACCAACTGC
AAAAACTCACTCGTAAACCGAACTCACCAACTGTTCAAGACTAAAATCTTCA
Found at i:84584646 original size:234 final size:235
Alignment explanation
Indices: 84584245--84584692 Score: 587
Period size: 234 Copynumber: 1.9 Consensus size: 235
84584235 CAACTGTTCA
* ** *
84584245 AGACTAAAATCTTCACTCCCATACATAAATCTCAAACACCATAAACTTGGTTTTCCAGCAATCAC
1 AGACTAAAATCCTCACTCCCATACATAAATCTCAAACACCATAAACTCAGTTTTCCAGCAACCAC
* * *
84584310 ATACCAACCAACTGCAACAAACTCACTCGTAAACCGAACTCACCGATGTTTCAAGACTAAAATCT
66 ATACCAACCAAATGCAACAAACTCACTCGTAAACCGAACTCACCAAAGTTTCAAGACTAAAATCT
* ** **
84584375 TAACTCCTATGCGTTAATCTCAAATGCCCTAAACTCGGTTTTCCAGCAATCACGTACCAACCAAC
131 TAACTCCTATACGTTAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACAAACCAACCAAC
84584440 TGCAATAATTCACTTGAAAACTGAACTGACCGATGTTTCG
196 TGCAATAATTCACTTGAAAACTGAACTGACCGATGTTTCG
* ** * * *
84584480 AGACTAAAATCCTCACTCCTATATGTATATCTCAAACGCCCTAAACTCAGTTTTCCAGCAACCAC
1 AGACTAAAATCCTCACTCCCATACATAAATCTCAAACACCATAAACTCAGTTTTCCAGCAACCAC
* ** * * *
84584545 GTACCAACCAAATGCAGTAAA-TCACTCGTAAACTGAACTCACCAACAG-TTGAAGACTGAAATC
66 ATACCAACCAAATGCAACAAACTCACTCGTAAACCGAACTCACCAA-AGTTTCAAGACTAAAATC
* * ** *
84584608 TTCACTCCTATATG-TATATCTCAAACACCCTAAACTCGGTTTTCTGGCAATCACAAACCAATCA
130 TTAACTCCTATACGTTA-ATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACAAACCAACCA
*
84584672 ACTGCAATTATTCACTTGAAA
194 ACTGCAATAATTCACTTGAAA
84584693 CATCGAATCA
Statistics
Matches: 181, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
233 2 0.01
234 106 0.59
235 73 0.40
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (235 bp):
AGACTAAAATCCTCACTCCCATACATAAATCTCAAACACCATAAACTCAGTTTTCCAGCAACCAC
ATACCAACCAAATGCAACAAACTCACTCGTAAACCGAACTCACCAAAGTTTCAAGACTAAAATCT
TAACTCCTATACGTTAATCTCAAACACCCTAAACTCGGTTTTCCAGCAATCACAAACCAACCAAC
TGCAATAATTCACTTGAAAACTGAACTGACCGATGTTTCG
Found at i:84587077 original size:31 final size:32
Alignment explanation
Indices: 84587016--84587083 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
84587006 AAAATTTTTA
* * *
84587016 AAATTCTAAAAGTATAGGGATTAAATTTGAT-
1 AAATTCAAAAAGTACAGGGACTAAATTTGATC
*
84587047 AAATTCAAAAAGTACATGGACTAGAA-TTGATC
1 AAATTCAAAAAGTACAGGGACTA-AATTTGATC
84587079 AAATT
1 AAATT
84587084 AAATACAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (32 bp):
AAATTCAAAAAGTACAGGGACTAAATTTGATC
Found at i:84589896 original size:16 final size:17
Alignment explanation
Indices: 84589860--84589897 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
84589850 AACAAGATGT
84589860 AAACAAAATATTAAATTAA
1 AAACAAAATATT--ATTAA
84589879 AAACAAAATATT-TTAA
1 AAACAAAATATTATTAA
84589895 AAA
1 AAA
84589898 AATCCGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
19 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACAAAATATTATTAA
Found at i:84591426 original size:92 final size:92
Alignment explanation
Indices: 84591267--84591446 Score: 279
Period size: 92 Copynumber: 2.0 Consensus size: 92
84591257 CTGAAGCGCA
* * *
84591267 TTATCTTCCTATTTAAGAGTTGAGGAGGGGCTATGGGTAGTTCTAAACATTGTATTAACAAAAAG
1 TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAACATTGTATCAACAAAAAG
*
84591332 CAGATATGATAATAACATATAATGACG
66 CAGATATGATAACAACATATAATGACG
* ** *
84591359 TTATCCTCCTATTTAAGAGTTGCGGAGGGACTATGGGTAGTTCTAAGTATTGTATCAACAAAGAG
1 TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAACATTGTATCAACAAAAAG
*
84591424 CAGATATGATAACAACCTATAAT
66 CAGATATGATAACAACATATAAT
84591447 AAAATTAATG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (92 bp):
TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAACATTGTATCAACAAAAAG
CAGATATGATAACAACATATAATGACG
Found at i:84595169 original size:4 final size:4
Alignment explanation
Indices: 84595162--84595186 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
84595152 TTTCAAATAA
84595162 ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
84595187 CAAGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:84601982 original size:6 final size:6
Alignment explanation
Indices: 84601966--84601996 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
84601956 CATCTAGGTT
*
84601966 CGGGTC TGGGTC CGGGTC CGGGTC CGGGTC C
1 CGGGTC CGGGTC CGGGTC CGGGTC CGGGTC C
84601997 TTCCCTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.48, T:0.19
Consensus pattern (6 bp):
CGGGTC
Found at i:84613548 original size:33 final size:33
Alignment explanation
Indices: 84613511--84613592 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
84613501 GTTGAAAATT
84613511 TTGCCTTTTAAATTTTTTTTGAAAATAAATTAA
1 TTGCCTTTTAAATTTTTTTTGAAAATAAATTAA
84613544 TTGCCTTTTAAATTTTTTTTGAAAATAAATTAA
1 TTGCCTTTTAAATTTTTTTTGAAAATAAATTAA
84613577 -T-CTCTTTT-AATTTTTT
1 TTGC-CTTTTAAATTTTTT
84613593 GGGAAATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 9 0.19
32 6 0.12
33 33 0.69
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (33 bp):
TTGCCTTTTAAATTTTTTTTGAAAATAAATTAA
Found at i:84615597 original size:23 final size:24
Alignment explanation
Indices: 84615566--84615614 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
84615556 TCGAGCTTGA
84615566 TTAAGCTTGATCGTA-TTCAAACTC
1 TTAAGCTTGATCGTACTT-AAACTC
*
84615590 TTAA-CTTGTTCGTACTTAAACTC
1 TTAAGCTTGATCGTACTTAAACTC
84615613 TT
1 TT
84615615 TCTATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (24 bp):
TTAAGCTTGATCGTACTTAAACTC
Found at i:84618313 original size:20 final size:20
Alignment explanation
Indices: 84618270--84618313 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
84618260 TTAAAATACT
* *
84618270 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
84618290 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
84618310 TTTA
1 TTTA
84618314 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:84624351 original size:24 final size:24
Alignment explanation
Indices: 84624322--84624369 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
84624312 ATTTCTAGGC
84624322 ATAATGATTTATTTGGCCTTCTAA
1 ATAATGATTTATTTGGCCTTCTAA
84624346 ATAATGATTTATTTGGCCTTCTAA
1 ATAATGATTTATTTGGCCTTCTAA
84624370 CTTTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (24 bp):
ATAATGATTTATTTGGCCTTCTAA
Found at i:84633376 original size:67 final size:67
Alignment explanation
Indices: 84633300--84633433 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
84633290 GAGAAAGAGA
* * * * *
84633300 TTATATTATGGGAGAGGCGGTGGCTCAAGTGCGCGAAGTAGCTGATCATCTGCAGACTCTAGCGG
1 TTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAAGTAGCTGATCATCTGCAAACTCTAGCGG
84633365 TT
66 TT
*
84633367 TTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAAGTAGCTGATCATTTGCAAACTCTAGCGG
1 TTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAAGTAGCTGATCATCTGCAAACTCTAGCGG
84633432 TT
66 TT
84633434 CAGGCTGATC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (67 bp):
TTATATTATGGGAGAAGCAGTGACTCAAGTACGCGAAGTAGCTGATCATCTGCAAACTCTAGCGG
TT
Found at i:84642299 original size:44 final size:42
Alignment explanation
Indices: 84642231--84642774 Score: 334
Period size: 44 Copynumber: 12.6 Consensus size: 42
84642221 CAAAGAATTG
* *
84642231 CAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATA
1 CAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGA
* * * *
84642273 TAGTAATCCTATCTCCCTGAAGTTACAATGGAGCGGATT-AA-A
1 CAG--ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
* * * * * *
84642315 -GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-C
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
* * * * *
84642355 CA-AGTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAAA
1 CAGA-TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGA
* * * *
84642397 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGC
1 ---CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
* * * *
84642442 CAGAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
1 CAG--ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGA
* * *
84642487 AAGGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGA
1 CA-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGA
* * * * *
84642530 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
1 CA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGA
* * *
84642574 AAGGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGA
1 CA-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGA
* * * * *
84642617 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
1 CA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGA
* * *
84642661 AAGGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGA
1 CA-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGA
* * * * *
84642704 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
1 CA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGA
* * *
84642748 AAGGATCTTATCTCTCTGAGGTTACAG
1 CA-GATCTTATCTCCCTGAAGTTACAG
84642775 CAGAGTAGAT
Statistics
Matches: 377, Mismatches: 99, Indels: 50
0.72 0.19 0.10
Matches are distributed among these distances:
39 28 0.07
40 4 0.01
41 26 0.07
42 6 0.02
43 101 0.27
44 176 0.47
45 33 0.09
46 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
Found at i:84642573 original size:87 final size:87
Alignment explanation
Indices: 84642233--84642786 Score: 725
Period size: 87 Copynumber: 6.4 Consensus size: 87
84642223 AAGAATTGCA
* * * *
84642233 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTA
*
84642298 CAATGGAGCGGA-T----TAAAG
65 CAGTGGAGCGGATTAAAATAAAG
* ** * * * *
84642316 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCG--CAC-CAAGTCTTATTTCCCTG-AGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACACTA-TCCTATCTCCCTGAAG-T
* * * **
84642376 TACAGTGGAACAGACTAAAAATTTCA-
63 TACAGTGGAGCGGA-TTAAAA-TAAAG
* * * * **
84642402 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTA
84642467 CAGTGGAGCGGATTAAAATAAAG
65 CAGTGGAGCGGATTAAAATAAAG
84642490 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
84642555 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
84642577 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
84642642 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
84642664 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
84642729 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* * * *
84642751 GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
84642787 CATCAGGTCT
Statistics
Matches: 415, Mismatches: 39, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
79 3 0.01
80 23 0.06
81 1 0.00
82 1 0.00
83 30 0.07
86 32 0.08
87 253 0.61
88 44 0.11
89 24 0.06
90 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAATAAAG
Found at i:84646210 original size:181 final size:181
Alignment explanation
Indices: 84645906--84646267 Score: 724
Period size: 181 Copynumber: 2.0 Consensus size: 181
84645896 AGATAATTGA
84645906 GTGACAAAAAAAAAGCAATAGTTGGGTGACTAATAATGTACATATATATACATACATTATATTTT
1 GTGACAAAAAAAAAGCAATAGTTGGGTGACTAATAATGTACATATATATACATACATTATATTTT
84645971 AAGTTATGGACTAAATTAGTATCATGAATTAATTGAATCTCACTTTAGTTGAAAAAAGATTAAAA
66 AAGTTATGGACTAAATTAGTATCATGAATTAATTGAATCTCACTTTAGTTGAAAAAAGATTAAAA
84646036 ACCCATTTTATTTAAAAAATGCATTCAATCTTCTCTATAACAGATTAATAT
131 ACCCATTTTATTTAAAAAATGCATTCAATCTTCTCTATAACAGATTAATAT
84646087 GTGACAAAAAAAAAGCAATAGTTGGGTGACTAATAATGTACATATATATACATACATTATATTTT
1 GTGACAAAAAAAAAGCAATAGTTGGGTGACTAATAATGTACATATATATACATACATTATATTTT
84646152 AAGTTATGGACTAAATTAGTATCATGAATTAATTGAATCTCACTTTAGTTGAAAAAAGATTAAAA
66 AAGTTATGGACTAAATTAGTATCATGAATTAATTGAATCTCACTTTAGTTGAAAAAAGATTAAAA
84646217 ACCCATTTTATTTAAAAAATGCATTCAATCTTCTCTATAACAGATTAATAT
131 ACCCATTTTATTTAAAAAATGCATTCAATCTTCTCTATAACAGATTAATAT
84646268 AACAGTCAAG
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (181 bp):
GTGACAAAAAAAAAGCAATAGTTGGGTGACTAATAATGTACATATATATACATACATTATATTTT
AAGTTATGGACTAAATTAGTATCATGAATTAATTGAATCTCACTTTAGTTGAAAAAAGATTAAAA
ACCCATTTTATTTAAAAAATGCATTCAATCTTCTCTATAACAGATTAATAT
Found at i:84652130 original size:11 final size:11
Alignment explanation
Indices: 84652116--84652141 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
84652106 TATTTTTTAA
84652116 TTTTAAAATAC
1 TTTTAAAATAC
84652127 TTTTAAAATAC
1 TTTTAAAATAC
84652138 TTTT
1 TTTT
84652142 TTTATTTTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:84655219 original size:17 final size:17
Alignment explanation
Indices: 84655199--84655234 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
84655189 ATAGAAAGCA
84655199 AATTATTTACAATAATG
1 AATTATTTACAATAATG
**
84655216 AATTATTTTGAATAATG
1 AATTATTTACAATAATG
84655233 AA
1 AA
84655235 ATACAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (17 bp):
AATTATTTACAATAATG
Found at i:84655454 original size:22 final size:22
Alignment explanation
Indices: 84655396--84655450 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
84655386 TAGAATAAAT
* *
84655396 TTTACATTTTATTAGTTTTATA
1 TTTATATTTTATTAATTTTATA
84655418 TTTATATTTTA-TAATTATTA-A
1 TTTATATTTTATTAATT-TTATA
84655439 TTT-TATTTTATT
1 TTTATATTTTATT
84655451 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 13 0.45
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATATTTTATTAATTTTATA
Found at i:84656100 original size:60 final size:61
Alignment explanation
Indices: 84655991--84656126 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 61
84655981 TTTTAGTAGA
* *
84655991 GGTCACCCAACTATGATTTTTTTTTTCTTTTTTGATCAACTAACGATGAAAAGTTACAAAAT
1 GGTCACTCAACTATGA-TTTTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAAT
* * *
84656053 GGTCACTCAACTATG-TTTTTTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAAT
1 GGTCACTCAACTATGATTTTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAAT
*
84656113 GATCA-TCAAACTAT
1 GGTCACTC-AACTAT
84656127 TTAATTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 2 0.03
60 51 0.76
62 14 0.21
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (61 bp):
GGTCACTCAACTATGATTTTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAAT
Found at i:84659920 original size:37 final size:39
Alignment explanation
Indices: 84659856--84659929 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 39
84659846 ATAAATATAT
84659856 ATTTTTTATTTTTATTTTTTAATTTTAAAATACTTTTAAA
1 ATTTTTTA-TTTTATTTTTTAATTTTAAAATACTTTTAAA
* *
84659896 ATTTTTTA-TTT-TTTTTTATTTTTAAAATATTTTT
1 ATTTTTTATTTTATTTTTTAATTTTAAAATACTTTT
84659930 TTAATGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 21 0.66
38 3 0.09
40 8 0.25
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (39 bp):
ATTTTTTATTTTATTTTTTAATTTTAAAATACTTTTAAA
Found at i:84663702 original size:50 final size:50
Alignment explanation
Indices: 84663643--84663742 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
84663633 CCCTCTACTC
84663643 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
1 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
*
84663693 AGAAAATGGGTAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
1 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
84663743 CATTCTGTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (50 bp):
AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
Found at i:84665201 original size:24 final size:25
Alignment explanation
Indices: 84665172--84665227 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
84665162 AAGTTTATGT
* * *
84665172 TTTTTTTTGTT-AATTTGGTTCTTA
1 TTTTTTTAGTTAAATTTAGTTATTA
84665196 TTTTTTTAGTTAAATTTAGTTATTA
1 TTTTTTTAGTTAAATTTAGTTATTA
*
84665221 ATTTTTT
1 TTTTTTT
84665228 GAATGTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.70
Consensus pattern (25 bp):
TTTTTTTAGTTAAATTTAGTTATTA
Found at i:84665545 original size:12 final size:12
Alignment explanation
Indices: 84665528--84665562 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
84665518 TCTTTTTTTA
84665528 AAAAAAAAATTG
1 AAAAAAAAATTG
84665540 AAAAAAAAATTG
1 AAAAAAAAATTG
84665552 ACAAAAAAAAT
1 A-AAAAAAAAT
84665563 GCAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:84665567 original size:11 final size:12
Alignment explanation
Indices: 84665529--84665572 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
84665519 CTTTTTTTAA
*
84665529 AAAAAAAATTGA
1 AAAAAAAATTGC
84665541 AAAAAAAATTGAC
1 AAAAAAAATTG-C
84665554 AAAAAAAA-TGC
1 AAAAAAAATTGC
84665565 AAATAAAA
1 AAA-AAAA
84665573 GTTAAATTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 17 0.59
13 8 0.28
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTGC
Found at i:84666555 original size:13 final size:12
Alignment explanation
Indices: 84666531--84666556 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84666521 GCCCATATTA
84666531 TTTTTAAATTTT
1 TTTTTAAATTTT
84666543 TTTTTAAATTTT
1 TTTTTAAATTTT
84666555 TT
1 TT
84666557 ATTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTAAATTTT
Found at i:84666723 original size:18 final size:17
Alignment explanation
Indices: 84666700--84666733 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
84666690 GTTCTAAATT
84666700 ACATAATATATAAATATA
1 ACATAATATA-AAATATA
84666718 ACATAATATAAAATAT
1 ACATAATATAAAATAT
84666734 TATAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ACATAATATAAAATATA
Found at i:84680069 original size:22 final size:21
Alignment explanation
Indices: 84680044--84680094 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
84680034 AAGGGATATT
*
84680044 GGGGTAGGGTTTGGGGTTTAAA
1 GGGGTAGGGTTTAGGG-TTAAA
* *
84680066 GGGGAAGGTTTTAGGGTTAAA
1 GGGGTAGGGTTTAGGGTTAAA
84680087 GAGGGTAG
1 G-GGGTAG
84680095 AGAGTAACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.24, C:0.00, G:0.49, T:0.27
Consensus pattern (21 bp):
GGGGTAGGGTTTAGGGTTAAA
Found at i:84681037 original size:15 final size:17
Alignment explanation
Indices: 84681000--84681049 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
84680990 TTTATATTTA
84681000 CATTATAATATTATATAT
1 CATTATAA-ATTATATAT
*
84681018 TATTATAAATT-TA-AT
1 CATTATAAATTATATAT
*
84681033 CATTATAAACTATATAT
1 CATTATAAATTATATAT
84681050 AACATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.41
16 4 0.15
17 5 0.19
18 7 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
CATTATAAATTATATAT
Found at i:84682687 original size:30 final size:29
Alignment explanation
Indices: 84682646--84682707 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
84682636 GCGAGAACAG
*
84682646 TAAGTGATTTAATTT-ATTAATAATAAAATA
1 TAAGCGATTTAATTTGATT-ATAA-AAAATA
*
84682676 TAAGCGATTTAATTTGATTATAAAATATA
1 TAAGCGATTTAATTTGATTATAAAAAATA
84682705 TAA
1 TAA
84682708 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 18 0.62
31 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (29 bp):
TAAGCGATTTAATTTGATTATAAAAAATA
Found at i:84686109 original size:12 final size:12
Alignment explanation
Indices: 84686090--84686119 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
84686080 TATTCTTCAG
84686090 AATTTTTTT-TA
1 AATTTTTTTATA
84686101 AATTTTTTTATA
1 AATTTTTTTATA
84686113 AATTTTT
1 AATTTTT
84686120 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
AATTTTTTTATA
Found at i:84687333 original size:14 final size:14
Alignment explanation
Indices: 84687310--84687343 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
84687300 AATTTTCTCT
84687310 ATTT-TTCAAAATA
1 ATTTATTCAAAATA
84687323 ATTTATTCAAAATA
1 ATTTATTCAAAATA
84687337 ATTTATT
1 ATTTATT
84687344 AAATTAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTATTCAAAATA
Found at i:84689494 original size:1 final size:1
Alignment explanation
Indices: 84689488--84689520 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
84689478 ATACTAGCCC
84689488 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
84689521 CCAACTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:84690410 original size:265 final size:262
Alignment explanation
Indices: 84689922--84690405 Score: 665
Period size: 264 Copynumber: 1.8 Consensus size: 262
84689912 TTTTGAATTG
*
84689922 ATTTGAATTTTTATTGATTCAGGGTTGCAGGTTTAGTTTAGATTTAGTTTTTGAGATGAACAATG
1 ATTTGAATTTTTATTGATTCAGGGTTGCAGGTTAAGTTTAGATTTAGTTTTTGAGATGAACAATG
* * * * *
84689987 TGGTTTTTGAGCTTCTTCTTTTTTTTTTTTTAGTTTTTGCTAGTATTGAGTCTGTGATTTCTATG
66 TGATTTTTGAG--TC-TCTTTTTTTTTTTGTAGTTTTTGCTAGCATTGACTCTGAGATTTCTATG
* * * * *
84690052 TACTATTTTTGAATTTTTATTGATTCAGTTTAGCTGGTTTAAGTTTAGATTTAGTTTTTTTGAGT
128 TACTATATTTGAATTCTTATTGATCCAGTGTAGCTGGTTTAAGTTTAGATTTAGTGTTTTTGAGT
84690117 CGAACAATGTGATTTTTGAGCCTTCTTTTGTCGTTTTTGTTAGCATTGACTTTGAGATTTCTATG
193 CGAACAATGTGATTTTTGAGCCTTCTTTTGTCGTTTTTGTTAGCATTGACTTTGAGATTTCTATG
84690182 TACCA
258 TACCA
* * * **
84690187 ATTTGAATTTTTATTGATTCTGTGTTGCTGGTTAAGTTTAGATTTTTTTTTTTTTTTGAGATGAA
1 ATTTGAATTTTTATTGATTCAGGGTTGCAGGTTAAGTTTAGA-----TTTAGTTTTTGAGATGAA
* *
84690252 CAATGTGATTTTTGAG-C-C-TTTTTTTTTTGTCGTTTTTGCTAGCATTGACTTTGAGATTTCTA
61 CAATGTGATTTTTGAGTCTCTTTTTTTTTTTGTAGTTTTTGCTAGCATTGACTCTGAGATTTCTA
*
84690314 TGTACTA-ATTTGAATTCTTATTGATCCAGTGTCGCTGG-TTAAGTTTAGATTTAG-GTTTTTGA
126 TGTACTATATTTGAATTCTTATTGATCCAGTGTAGCTGGTTTAAGTTTAGATTTAGTGTTTTTGA
* *
84690376 GTTGAACAATGTGATTTTTGAGCTTTCTTT
191 GTCGAACAATGTGATTTTTGAGCCTTCTTT
84690406 CTTTTTTTTG
Statistics
Matches: 193, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
261 35 0.18
262 16 0.08
263 26 0.13
264 45 0.23
265 39 0.20
267 1 0.01
270 31 0.16
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (262 bp):
ATTTGAATTTTTATTGATTCAGGGTTGCAGGTTAAGTTTAGATTTAGTTTTTGAGATGAACAATG
TGATTTTTGAGTCTCTTTTTTTTTTTGTAGTTTTTGCTAGCATTGACTCTGAGATTTCTATGTAC
TATATTTGAATTCTTATTGATCCAGTGTAGCTGGTTTAAGTTTAGATTTAGTGTTTTTGAGTCGA
ACAATGTGATTTTTGAGCCTTCTTTTGTCGTTTTTGTTAGCATTGACTTTGAGATTTCTATGTAC
CA
Found at i:84690411 original size:134 final size:131
Alignment explanation
Indices: 84689922--84690423 Score: 570
Period size: 134 Copynumber: 3.8 Consensus size: 131
84689912 TTTTGAATTG
* * *
84689922 ATTTGAATTTTTATTGATTCAGGGTTGCAGGTTTAGTTTAGATTTA-GTTTTTGAGATGAACAAT
1 ATTTGAATTTTTATTGATTCAGTGTTGCTGGTTAAGTTTAGATTTAGGTTTTTGAGATGAACAAT
* * * * * * *
84689986 GTGGTTTTTGAGCTTCTTCTTTTTTTTTTTTTAGTTTTTGCTAGTATTGAGTCTGTGATTTCTAT
66 GTGATTTTTGAG---C--CTTTCTTTTTTTGTAGTTTTTGCTAGCATTGACTTTGAGATTTCTAT
84690051 GTACTA
126 GTACTA
* *
84690057 TTTTTGAATTTTTATTGATTCAGT-TTAGCTGGTTTAAGTTTAGATTTAGTTTTTTTGAG-TCGA
1 -ATTTGAATTTTTATTGATTCAGTGTT-GCTGG-TTAAGTTTAGATTTAG-GTTTTTGAGAT-GA
* *
84690120 ACAATGTGATTTTTGAGCC-TTC---TTTTGTCGTTTTTGTTAGCATTGACTTTGAGATTTCTAT
61 ACAATGTGATTTTTGAGCCTTTCTTTTTTTGTAGTTTTTGCTAGCATTGACTTTGAGATTTCTAT
*
84690181 GTACCA
126 GTACTA
* ***
84690187 ATTTGAATTTTTATTGATTCTGTGTTGCTGGTTAAGTTTAGATTTTTTTTTTTTTTTGAGATGAA
1 ATTTGAATTTTTATTGATTCAGTGTTGCTGGTTAAGTTTAGA----TTTAGGTTTTTGAGATGAA
*
84690252 CAATGTGATTTTTGAGCCTTT-TTTTTTTGTCGTTTTTGCTAGCATTGACTTTGAGATTTCTATG
62 CAATGTGATTTTTGAGCCTTTCTTTTTTTGTAGTTTTTGCTAGCATTGACTTTGAGATTTCTATG
84690316 TACTA
127 TACTA
* * * *
84690321 ATTTGAATTCTTATTGATCCAGTGTCGCTGGTTAAGTTTAGATTTAGGTTTTTGAGTTGAACAAT
1 ATTTGAATTTTTATTGATTCAGTGTTGCTGGTTAAGTTTAGATTTAGGTTTTTGAGATGAACAAT
84690386 GTGATTTTTGAGCTTTCTTTCTTTTTTTTGTAGTTTTT
66 GTGATTTTTGAGC---CTTTC-TTTTTTTGTAGTTTTT
84690424 TTTTAATGCT
Statistics
Matches: 316, Mismatches: 30, Indels: 41
0.82 0.08 0.11
Matches are distributed among these distances:
128 11 0.03
129 26 0.08
130 71 0.22
131 30 0.09
132 6 0.02
133 6 0.02
134 82 0.26
135 17 0.05
136 26 0.08
137 14 0.04
138 1 0.00
139 26 0.08
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (131 bp):
ATTTGAATTTTTATTGATTCAGTGTTGCTGGTTAAGTTTAGATTTAGGTTTTTGAGATGAACAAT
GTGATTTTTGAGCCTTTCTTTTTTTGTAGTTTTTGCTAGCATTGACTTTGAGATTTCTATGTACT
A
Found at i:84695988 original size:40 final size:40
Alignment explanation
Indices: 84695938--84696022 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
84695928 ATAATACTCT
*
84695938 CTCTTAGATGTCTTTTAATAGATAATATGCCTTATTAAAA
1 CTCTTAGATGTCTATTAATAGATAATATGCCTTATTAAAA
*
84695978 CTCTTGGATGTCTATTAATAGATAATATGCCTTATTAAAA
1 CTCTTAGATGTCTATTAATAGATAATATGCCTTATTAAAA
84696018 C-CTTA
1 CTCTTA
84696023 TTAGGAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (40 bp):
CTCTTAGATGTCTATTAATAGATAATATGCCTTATTAAAA
Found at i:84696013 original size:20 final size:20
Alignment explanation
Indices: 84695952--84696015 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
84695942 TAGATGTCTT
84695952 TTAATAGATAATATGCCTTA
1 TTAATAGATAATATGCCTTA
** *
84695972 TTAA-A-ACTCTTGGATGTC-TA
1 TTAATAGA-TAAT--ATGCCTTA
84695992 TTAATAGATAATATGCCTTA
1 TTAATAGATAATATGCCTTA
84696012 TTAA
1 TTAA
84696016 AACCTTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 1 0.03
19 7 0.22
20 16 0.50
21 7 0.22
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (20 bp):
TTAATAGATAATATGCCTTA
Found at i:84698471 original size:12 final size:12
Alignment explanation
Indices: 84698454--84698488 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
84698444 TTGTTCATTT
84698454 ATTCATCAAGTC
1 ATTCATCAAGTC
84698466 ATTCATCAAGTC
1 ATTCATCAAGTC
*
84698478 ATTAATCAAGT
1 ATTCATCAAGT
84698489 TTTCATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (12 bp):
ATTCATCAAGTC
Found at i:84705554 original size:28 final size:28
Alignment explanation
Indices: 84705510--84705607 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
84705500 TGACTTTCGA
84705510 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
84705538 CACCAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
84705566 CACTAAGTGTGCAAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
84705594 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
84705608 ACTTATTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:84706466 original size:23 final size:22
Alignment explanation
Indices: 84706415--84706656 Score: 119
Period size: 23 Copynumber: 10.4 Consensus size: 22
84706405 TTGATGTAAA
** * *
84706415 AATGCTGTCCAATTTTGTATAC
1 AATGCTGTTAAATTTTGTGTAT
84706437 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
84706460 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
84706483 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
* *
84706508 CAATGCTGTTCAATTTTGTATAT
1 -AATGCTGTTAAATTTTGTGTAT
84706531 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* * *
84706554 AAGTGCTGTCCAAATTGT-TATAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
84706577 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** * *
84706602 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
84706625 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
84706648 AAGTGCTGT
1 AA-TGCTGT
84706657 CCAAATTGGT
Statistics
Matches: 160, Mismatches: 44, Indels: 31
0.68 0.19 0.13
Matches are distributed among these distances:
22 6 0.04
23 110 0.69
24 24 0.15
25 20 0.12
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (22 bp):
AATGCTGTTAAATTTTGTGTAT
Found at i:84706470 original size:46 final size:46
Alignment explanation
Indices: 84706379--84706758 Score: 271
Period size: 46 Copynumber: 8.0 Consensus size: 46
84706369 GCTGCTCAAA
* * * *
84706379 TTGTCATATATATGCTGTCCAAATTTTTGATGTAAAAATGCTGTCCAATT
1 TTGT-ATATACATGCTGT-TAAA-TTTTG-TGTATAAGTGCTGTCCAATT
* *
84706429 TTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAAT
1 TTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAATT
* * ** * * * *
84706475 TGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAA-TGCTGTTCAATT
1 TTGTATATACATGCTG-TTAAATTTT-GTGTAT-AAGTGCTGTCCAATT
*
84706523 TTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAA-A
1 TTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAATT
** * * *
84706568 TTGTTATATGTATGCTGCCTAATTTTTGGTGAATCAA-TGCTGTCCAATT
1 TTG-TATATACATGCTG-TTAAATTTT-GTGTAT-AAGTGCTGTCCAATT
* *
84706617 TTGTATACACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAAT
1 TTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAATT
* ** * * * * *
84706663 TGGTATATGTATGCTGCCTAATTTTTGGTGAAAAAAAATGCTGTCCAATT
1 TTGTATATACATGCTG-TTAAATTTT-GTG--TATAAGTGCTGTCCAATT
* * * * *
84706713 TTATATATATATGCTGCTCAATTTTTGATGTATAAGAGCTGTCCAA
1 TTGTATATACATGCTG-TTAAATTTTG-TGTATAAGTGCTGTCCAA
84706759 ACAGGGTAGA
Statistics
Matches: 258, Mismatches: 57, Indels: 32
0.74 0.16 0.09
Matches are distributed among these distances:
45 7 0.03
46 81 0.31
47 40 0.16
48 70 0.27
49 19 0.07
50 41 0.16
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (46 bp):
TTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAATT
Found at i:84706525 original size:94 final size:95
Alignment explanation
Indices: 84706375--84706759 Score: 544
Period size: 94 Copynumber: 4.0 Consensus size: 95
84706365 TTATGCTGCT
* * * *
84706375 CAAATT-GTCATATATATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATACA
1 CAAATTGGT-ATATGTATGCTG-CCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATACA
84706438 CATGCTGTTAAATTTTGTGTATAAGTGCTGTC
64 CATGCTGTTAAATTTTGTGTATAAGTGCTGTC
* * * *
84706470 CAAATTGGTGTATGTATGCTGCCTAATTTTTGGTG-AATCAATGCTGTTCAATTTTGTATATACA
1 CAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATACACA
84706534 TGCTGTTAAATTTTGTGTATAAGTGCTGTC
66 TGCTGTTAAATTTTGTGTATAAGTGCTGTC
* *
84706564 CAAATTGTTATATGTATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATACACA
1 CAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATACACA
84706628 TGCTGTTAAATTTTGTGTATAAGTGCTGTC
66 TGCTGTTAAATTTTGTGTATAAGTGCTGTC
* * * *
84706658 CAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAAAAAAAATGCTGTCCAATTTTATATATAT
1 CAAATTGGTATATGTATGCTGCCTAATTTTTGGTG-AAATAAATGCTGTCCAATTTTGTATACAC
* * *
84706723 ATGCTGCTCAATTTTTGATGTATAAGAGCTGTC
65 ATGCTG-TTAAATTTTG-TGTATAAGTGCTGTC
84706756 CAAA
1 CAAA
84706760 CAGGGTAGAT
Statistics
Matches: 264, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
93 2 0.01
94 189 0.72
95 16 0.06
96 31 0.12
97 8 0.03
98 18 0.07
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (95 bp):
CAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATACACA
TGCTGTTAAATTTTGTGTATAAGTGCTGTC
Found at i:84709367 original size:16 final size:16
Alignment explanation
Indices: 84709345--84709413 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
84709335 TTTGGTTCGC
84709345 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
84709361 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
84709377 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
84709394 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
84709410 TGTA
1 TGTA
84709414 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:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:84709391 original size:33 final size:32
Alignment explanation
Indices: 84709345--84709413 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
84709335 TTTGGTTCGC
84709345 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
84709377 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
84709410 TGTA
1 TGTA
84709414 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:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:84709478 original size:44 final size:45
Alignment explanation
Indices: 84709394--84709484 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
84709384 GGATTAGAGG
* * *
84709394 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
84709439 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
84709483 TG
1 TG
84709485 GAATAGAGGT
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:84709670 original size:18 final size:17
Alignment explanation
Indices: 84709649--84709683 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84709639 TTATTATTAA
*
84709649 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
84709667 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84709684 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:84709770 original size:120 final size:120
Alignment explanation
Indices: 84709632--84710155 Score: 939
Period size: 120 Copynumber: 4.4 Consensus size: 120
84709622 ATCATATTTA
84709632 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
84709697 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
84709752 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
84709817 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
84709872 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
84709937 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
84709992 AACATAATTATTATTAAATATATTTTAATT-AAA-CTATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
84710055 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-TT
* * *
84710110 GAA-ATAATTAATATTAAATATATTTTAATTATAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
84710156 AATAATTTAA
Statistics
Matches: 392, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
117 3 0.01
118 103 0.26
119 7 0.02
120 279 0.71
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:84709790 original size:18 final size:17
Alignment explanation
Indices: 84709769--84709803 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84709759 TTATTATTAA
*
84709769 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
84709787 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84709804 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:84709910 original size:18 final size:17
Alignment explanation
Indices: 84709889--84709923 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84709879 TTATTATTAA
*
84709889 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
84709907 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84709924 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:84710255 original size:92 final size:91
Alignment explanation
Indices: 84710178--84710386 Score: 226
Period size: 92 Copynumber: 2.3 Consensus size: 91
84710168 TAATTATAAC
* * *
84710178 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
84710242 TTAATATTAAATTTCATAAAATACTTGA
65 TTAATATTAAATTTCAAAAAATAC-TAA
* * * *
84710270 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAAT-AG
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
84710334 TGATA-TATAATTTCATAAAATTCTCAA
66 TAATATTA-AATTTCAAAAAATACT-AA
* *
84710361 TAATAAATTGTTCTTATATGAATTTA
1 TAATAAATT-ATATTATATGAATTTA
84710387 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 68 0.66
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
TAATATTAAATTTCAAAAAATACTAA
Found at i:84711613 original size:12 final size:12
Alignment explanation
Indices: 84711596--84711621 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84711586 TCTCACACCA
84711596 CTCAATCTCATC
1 CTCAATCTCATC
84711608 CTCAATCTCATC
1 CTCAATCTCATC
84711620 CT
1 CT
84711622 GCCGTGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (12 bp):
CTCAATCTCATC
Found at i:84718783 original size:20 final size:20
Alignment explanation
Indices: 84718714--84718786 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
84718704 AAACTCGATC
84718714 TAAAAAATAATTTAAACACGAAA
1 TAAAAAA-AATTTAAA-ACG-AA
**
84718737 TAATTAAAAAA-TTAAAATTAA
1 TAA--AAAAAATTTAAAACGAA
*
84718758 TTAAAAAAATTTAAAACGAA
1 TAAAAAAAATTTAAAACGAA
84718778 TAAAAAAAA
1 TAAAAAAAA
84718787 ACTTGAACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 6 0.15
20 16 0.39
21 4 0.10
22 1 0.02
23 8 0.20
24 2 0.05
25 4 0.10
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (20 bp):
TAAAAAAAATTTAAAACGAA
Found at i:84726528 original size:31 final size:31
Alignment explanation
Indices: 84726493--84726554 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
84726483 GCACGTTGAA
*
84726493 TTAAATAAAAACTTTCGGATAGTTCAATGAT
1 TTAAATAAAAACTTTCGAATAGTTCAATGAT
* * *
84726524 TTAAATGAAAACTTTTGAATAGTTTAATGAT
1 TTAAATAAAAACTTTCGAATAGTTCAATGAT
84726555 CTTGGGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAACTTTCGAATAGTTCAATGAT
Found at i:84731874 original size:10 final size:8
Alignment explanation
Indices: 84731836--84731878 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
84731826 TTTCATGTTT
84731836 TTTTTTAA
1 TTTTTTAA
*
84731844 TTTTTACGAA
1 TTTTT--TAA
84731854 TTTTTTAA
1 TTTTTTAA
84731862 TTTTTTAA
1 TTTTTTAA
84731870 TATTTTTAA
1 T-TTTTTAA
84731879 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 16 0.53
9 7 0.23
10 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTTTTAA
Found at i:84735885 original size:16 final size:16
Alignment explanation
Indices: 84735856--84735925 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
84735846 TTTGGTTTGC
*
84735856 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
** *
84735872 CATAATGGAATAGAGG
1 TGTAATGGATTAGAGG
84735888 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
84735904 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
84735920 TGTAAT
1 TGTAAT
84735926 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.33, C:0.01, G:0.34, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:84735963 original size:45 final size:41
Alignment explanation
Indices: 84735904--84736013 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
84735894 GGATTAGAGG
*
84735904 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
84735946 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
84735989 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
84736014 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:84736174 original size:16 final size:17
Alignment explanation
Indices: 84736137--84736174 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
84736127 ATTTAATCAT
84736137 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
84736154 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
84736169 ATTTAA
1 ATTTAA
84736175 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:84736210 original size:22 final size:21
Alignment explanation
Indices: 84736120--84736406 Score: 92
Period size: 22 Copynumber: 14.0 Consensus size: 21
84736110 ATTATCAATA
* *
84736120 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
84736140 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
84736161 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
84736182 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
84736204 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
84736221 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
84736245 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
84736266 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
84736286 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
84736303 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
84736325 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
84736347 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
84736369 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
84736387 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
84736407 CTTAGTATTA
Statistics
Matches: 197, Mismatches: 38, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
17 16 0.08
18 45 0.23
19 2 0.01
20 21 0.11
21 38 0.19
22 49 0.25
23 9 0.05
24 7 0.04
26 10 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:84736244 original size:13 final size:12
Alignment explanation
Indices: 84736220--84736260 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
84736210 TATAATAGTA
84736220 TAAAATATAATT
1 TAAAATATAATT
84736232 TAAAATAATAATT
1 TAAAAT-ATAATT
*
84736245 ATTAAATATAATT
1 -TAAAATATAATT
84736258 TAA
1 TAA
84736261 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:84736269 original size:18 final size:18
Alignment explanation
Indices: 84736248--84736283 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
84736238 AATAATTATT
84736248 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
84736266 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
84736284 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:84736394 original size:18 final size:17
Alignment explanation
Indices: 84736371--84736405 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
84736361 TTATTATTAA
84736371 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
84736389 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84736406 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:84736464 original size:61 final size:60
Alignment explanation
Indices: 84736175--84736466 Score: 192
Period size: 59 Copynumber: 4.8 Consensus size: 60
84736165 TATAATTTAA
* * *
84736175 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * * *
84736232 TAAAATAATAATTATTA-AATATAATTTAATAAAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
84736294 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
84736354 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
84736415 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
84736467 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 40, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
57 1 0.01
58 7 0.04
59 56 0.32
60 26 0.15
61 48 0.28
62 35 0.20
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:84736503 original size:121 final size:120
Alignment explanation
Indices: 84736175--84736482 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
84736165 TATAATTTAA
* * *
84736175 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
84736239 ATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
84736294 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* * *
84736359 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
84736415 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
84736480 ATT
66 ATT
84736483 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 1 0.01
120 69 0.39
121 109 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:84737983 original size:13 final size:13
Alignment explanation
Indices: 84737967--84737996 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84737957 TAGACCAAGC
84737967 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
84737980 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
84737993 TTTT
1 TTTT
84737997 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:84739883 original size:29 final size:29
Alignment explanation
Indices: 84739812--84739917 Score: 74
Period size: 29 Copynumber: 3.6 Consensus size: 29
84739802 ATTAGGGATC
*
84739812 TAATTAAAATTTTTAAAAAAATTAGCGGTT
1 TAATT-AAATTTTTAAAAAAATTAGCGGGT
* * * *
84739842 TAATGAGAGTTTTCAAAAAATTAG-GAGGT
1 TAATTAAATTTTTAAAAAAATTAGCG-GGT
***
84739871 TAATTAAATTTTT-TTTAAATTAG-GGGCT
1 TAATTAAATTTTTAAAAAAATTAGCGGG-T
*
84739899 TAATGAGAATTTTTAAAAA
1 TAATTA-AATTTTTAAAAA
84739918 TTTTGGGATC
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
27 2 0.04
28 15 0.26
29 35 0.61
30 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (29 bp):
TAATTAAATTTTTAAAAAAATTAGCGGGT
Found at i:84739918 original size:28 final size:27
Alignment explanation
Indices: 84739800--84739919 Score: 80
Period size: 28 Copynumber: 4.2 Consensus size: 27
84739790 TCTTGGCGAT
* * *
84739800 AAATTAGGGATCTAATTAAAATTTTTAAAA
1 AAATTAGGGGT-TAATGAGAATTTTT--AA
* * *
84739830 AAATTAGCGGTTTAATGAGAGTTTTCAAA
1 AAATTAG-GGGTTAATGAGAATTTT-TAA
* **
84739859 AAATTAGGAGGTTAATTA-AATTTTTTTT
1 AAATTAGG-GGTTAATGAGAA-TTTTTAA
84739887 AAATTAGGGGCTTAATGAGAATTTTTAA
1 AAATTAGGGG-TTAATGAGAATTTTTAA
84739915 AAATT
1 AAATT
84739920 TTGGGATCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
27 2 0.03
28 26 0.37
29 22 0.31
30 17 0.24
31 3 0.04
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (27 bp):
AAATTAGGGGTTAATGAGAATTTTTAA
Found at i:84741319 original size:26 final size:25
Alignment explanation
Indices: 84741290--84741354 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
84741280 AAAATTTATT
84741290 AAATATTTAAAAATATAAAAATACAA
1 AAATATTTAAAAATATAAAAATA-AA
* *
84741316 AAATCA-TAAAAAATATAAATATAAA
1 AAAT-ATTTAAAAATATAAAAATAAA
* *
84741341 TAATATATAAAAAT
1 AAATATTTAAAAAT
84741355 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.03
25 11 0.34
26 19 0.59
27 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (25 bp):
AAATATTTAAAAATATAAAAATAAA
Found at i:84741350 original size:17 final size:16
Alignment explanation
Indices: 84741300--84741351 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
84741290 AAATATTTAA
* *
84741300 AAATATAAAAATACAA
1 AAATATAAAAATATAT
84741316 AAATCATAAAAA-ATAT
1 AAAT-ATAAAAATATAT
84741332 AAATATAAATAATATAT
1 AAATATAAA-AATATAT
84741349 AAA
1 AAA
84741352 AATTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 14 0.45
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATAAAAATATAT
Found at i:84747343 original size:30 final size:30
Alignment explanation
Indices: 84747302--84747359 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
84747292 AGGTTACTGA
*
84747302 TTAATTGCATAAGATCTCCTTAATTTATGG
1 TTAATTCCATAAGATCTCCTTAATTTATGG
**
84747332 TTAATTCCATAAGATCTGTTTAATTTAT
1 TTAATTCCATAAGATCTCCTTAATTTAT
84747360 AATTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (30 bp):
TTAATTCCATAAGATCTCCTTAATTTATGG
Found at i:84749575 original size:31 final size:31
Alignment explanation
Indices: 84749518--84749583 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
84749508 ATCATTAAAT
*
84749518 TATTCAAAAATTTTCATTTAAATCACT-GAAC
1 TATTCAAAAATTTTCATTCAAATCACTAG-AC
*
84749549 TATTCAAAAAATTTT-ATTCAAGTCACTAGAC
1 TATTC-AAAAATTTTCATTCAAATCACTAGAC
84749580 TATT
1 TATT
84749584 AAGTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (31 bp):
TATTCAAAAATTTTCATTCAAATCACTAGAC
Found at i:84769203 original size:27 final size:28
Alignment explanation
Indices: 84769147--84769203 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
84769137 TATTCAAAAG
*
84769147 TTTTTATTTAAATCATTGGGCTATTAAGT
1 TTTTTATTTAAATCA-TGGGCTAGTAAGT
*
84769176 TTTTTATTTAAAGTC-T-GGCTAGTGAGT
1 TTTTTATTTAAA-TCATGGGCTAGTAAGT
84769203 T
1 T
84769204 CCAAGCAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 10 0.40
28 1 0.04
29 12 0.48
30 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.51
Consensus pattern (28 bp):
TTTTTATTTAAATCATGGGCTAGTAAGT
Found at i:84771004 original size:22 final size:22
Alignment explanation
Indices: 84770962--84771005 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
84770952 AAAAACCTTG
* *
84770962 ATTTTAAATTCAAATCGTTCAA
1 ATTTAAAATTCAAATAGTTCAA
*
84770984 ATTTAAAATTCAAATATTTCAA
1 ATTTAAAATTCAAATAGTTCAA
84771006 GTTTTGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTAAAATTCAAATAGTTCAA
Found at i:84780575 original size:19 final size:20
Alignment explanation
Indices: 84780530--84780576 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
84780520 AAAAAACAAA
* *
84780530 TTTAATTATAAATATATAAT
1 TTTAAATATAAAAATATAAT
*
84780550 ATT-AATATAAAAATAT-AT
1 TTTAAATATAAAAATATAAT
84780568 TTTAAATAT
1 TTTAAATAT
84780577 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATATAAAAATATAAT
Done.