Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 92 of 207
Found at i:27109791 original size:37 final size:37
Alignment explanation
Indices: 27109741--27109819 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27109731 TTATTACGAA
* * *
27109741 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27109778 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27109815 GTCTT
1 GTCTT
27109820 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27110025 original size:47 final size:47
Alignment explanation
Indices: 27109938--27110547 Score: 1062
Period size: 47 Copynumber: 13.0 Consensus size: 47
27109928 CCCTTCGGGA
* * * * * * *
27109938 CTTATCTCATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27109985 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27110032 C-TATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110125 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110172 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27110219 ATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27110266 ATTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27110406 ATTATCACATATATACACTTTTACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27110453 ATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110500 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110547 C
1 C
27110548 ATACTATCAT
Statistics
Matches: 541, Mismatches: 20, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
46 89 0.16
47 452 0.84
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27110358 original size:234 final size:234
Alignment explanation
Indices: 27109938--27110547 Score: 1060
Period size: 234 Copynumber: 2.6 Consensus size: 234
27109928 CCCTTCGGGA
* * * * * * * ** *
27109938 CTTATCTCATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACAC
* *
27110003 TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACGCTTTCACATTCATCACATCG
66 TTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCATCACATCG
27110068 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
27110133 ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27110172 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACAC
27110237 TTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGC-TTATCACATATATACACTTTCACATTCATCACATC
27110302 -GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
27110366 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27110406 ATTATCACATATATACACTTTTACATTCATCACATCAGCCATTAGGCATTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACAC
27110471 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCATCACATC
27110536 GGCCATTAGGCC
130 GGCCATTAGGCC
27110548 ATACTATCAT
Statistics
Matches: 358, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
234 313 0.87
235 45 0.13
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27110462 original size:22 final size:23
Alignment explanation
Indices: 27110195--27110462 Score: 73
Period size: 22 Copynumber: 11.5 Consensus size: 23
27110185 TACACTTTCA
*
27110195 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCAGCCATTAGG
* ** ***
27110218 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CAGCCA-TTAGG
*
27110242 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCAGCCATTAGG
* ** ***
27110265 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CAGCCA-TTAGG
27110289 CATTCATCACATC-GCCATTAGG
1 CATTCATCACATCAGCCATTAGG
* * ** ***
27110311 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CAGCCA-TTAGG
*
27110335 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCAGCCATTAGG
* * ** ***
27110358 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CAGCCA-TTAGG
*
27110382 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCAGCCATTAGG
* ** ***
27110405 CATT-ATCACATATATACACTTTTA
1 CATTCATCACAT-CAGCCA-TTAGG
27110429 CATTCATCACATCAGCCATTAGG
1 CATTCATCACATCAGCCATTAGG
27110452 CATT-ATCACAT
1 CATTCATCACAT
27110463 ATATACACTT
Statistics
Matches: 158, Mismatches: 71, Indels: 33
0.60 0.27 0.13
Matches are distributed among these distances:
21 7 0.04
22 40 0.25
23 39 0.25
24 37 0.23
25 35 0.22
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (23 bp):
CATTCATCACATCAGCCATTAGG
Found at i:27113687 original size:40 final size:40
Alignment explanation
Indices: 27113402--27113741 Score: 375
Period size: 40 Copynumber: 8.5 Consensus size: 40
27113392 AGCATGATTA
* * * *
27113402 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* ** * *
27113442 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
27113482 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
27113522 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
27113562 CTCTTCGGAACTTAG-CCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
27113601 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
27113641 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
27113682 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
27113722 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
27113742 CATCATTCGA
Statistics
Matches: 257, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
39 40 0.16
40 198 0.77
41 19 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:27113727 original size:159 final size:159
Alignment explanation
Indices: 27113402--27113737 Score: 383
Period size: 159 Copynumber: 2.1 Consensus size: 159
27113392 AGCATGATTA
* * * ** *
27113402 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 CTCTTCGGGACTTAG-CCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATACA
* *
27113467 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGA
65 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATAACTAGCACCAATGCTCCTCGGGA
* *
27113532 CTTAGCCCGGATATATCACTAGCATGAATG
130 CTTAGCCCGGATATATCACTAGCATCAAAG
* * * * *
27113562 CTCTTCGGAACTTAGCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CTCTTCGGGACTTAGCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATACAT
* * * ** * *
27113627 CGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTC-GGA
66 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TAACTAGCACCAATGCTCCTCGGGA
* *
27113690 TCTTAGTCCGGATATGGTCACTTAGCA-CAAAG
130 -CTTAGCCCGGATAT-ATCAC-TAGCATCAAAG
27113722 C-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCC
27113738 CGGACATCAT
Statistics
Matches: 147, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
158 3 0.02
159 105 0.71
160 34 0.23
161 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (159 bp):
CTCTTCGGGACTTAGCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATACAT
CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATAACTAGCACCAATGCTCCTCGGGAC
TTAGCCCGGATATATCACTAGCATCAAAG
Found at i:27114085 original size:29 final size:29
Alignment explanation
Indices: 27114046--27114124 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
27114036 CTTAATAATC
*
27114046 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
27114076 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
27114105 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27114125 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:27114167 original size:43 final size:43
Alignment explanation
Indices: 27114106--27114208 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
27114096 TGCATTTCAA
27114106 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27114149 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27114192 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
27114209 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:27116123 original size:37 final size:35
Alignment explanation
Indices: 27116073--27116149 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 35
27116063 TTATTACGAA
* *
27116073 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CC-CACGAAGTCATCGG
*
27116110 GTCTTACCCGGACAAAATCCCCACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACGAAGTCATCGG
27116145 GTCTT
1 GTCTT
27116150 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 17 0.46
36 2 0.05
37 18 0.49
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (35 bp):
GTCTTACCCGGACAAAATCCCCACGAAGTCATCGG
Found at i:27116418 original size:47 final size:47
Alignment explanation
Indices: 27116267--27116582 Score: 589
Period size: 47 Copynumber: 6.7 Consensus size: 47
27116257 GCCCTTCGGG
*
27116267 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
27116317 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27116363 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27116410 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27116457 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27116504 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27116551 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
27116583 ATACTATCAT
Statistics
Matches: 265, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
46 40 0.15
47 187 0.71
48 6 0.02
49 28 0.11
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:27118754 original size:19 final size:20
Alignment explanation
Indices: 27118715--27118756 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
27118705 CCCTCCCTTG
*
27118715 TAAATAATATACATTATTATA
1 TAAATAATATA-ATTACTATA
27118736 TAAATAATAT-ATTACTATA
1 TAAATAATATAATTACTATA
27118755 TA
1 TA
27118757 TAAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAATTACTATA
Found at i:27118756 original size:21 final size:20
Alignment explanation
Indices: 27118715--27118761 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
27118705 CCCTCCCTTG
27118715 TAAATAATATACATTATTATA
1 TAAATAATATA-ATTATTATA
27118736 TAAATAATAT-ATTACTATATA
1 TAAATAATATAATTA-T-TATA
27118757 TAAAT
1 TAAAT
27118762 TGTAACGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 19 0.79
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAATTATTATA
Found at i:27119547 original size:21 final size:21
Alignment explanation
Indices: 27119521--27119562 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27119511 ATCATCCCTC
27119521 ATCTATAAGTTTCACGCTAGT
1 ATCTATAAGTTTCACGCTAGT
27119542 ATCTATAAGTTTCACGCTAGT
1 ATCTATAAGTTTCACGCTAGT
27119563 CTCTTCCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
ATCTATAAGTTTCACGCTAGT
Found at i:27125505 original size:37 final size:37
Alignment explanation
Indices: 27125455--27125530 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
27125445 TTATTACGAA
* * *
27125455 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27125492 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27125529 GT
1 GT
27125531 ATTTAGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27125730 original size:47 final size:47
Alignment explanation
Indices: 27125652--27126062 Score: 671
Period size: 47 Copynumber: 8.7 Consensus size: 47
27125642 CCCTTCGGGA
* * * * * *
27125652 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27125699 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27125746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27125793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27125840 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27125887 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27125934 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27125981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27126028 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27126063 AGAATCCTAA
Statistics
Matches: 342, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 341 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27127980 original size:13 final size:13
Alignment explanation
Indices: 27127962--27127986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27127952 TACTAAATTT
27127962 TCATGGATTCAAA
1 TCATGGATTCAAA
27127975 TCATGGATTCAA
1 TCATGGATTCAA
27127987 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:27132753 original size:7 final size:7
Alignment explanation
Indices: 27132741--27132805 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
27132731 AAGAACCTAG
27132741 TAATATA
1 TAATATA
27132748 TAATATA
1 TAATATA
27132755 T-ATGATA
1 TAAT-ATA
27132762 -AATAGTA
1 TAATA-TA
27132769 TAATATA
1 TAATATA
27132776 TAA-ATAA
1 TAATAT-A
27132783 TAA-ATA
1 TAATATA
27132789 T-ATATTA
1 TAATA-TA
*
27132796 TTATATA
1 TAATATA
27132803 TAA
1 TAA
27132806 ATAACTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
5 1 0.02
6 8 0.16
7 33 0.67
8 7 0.14
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:27132776 original size:23 final size:21
Alignment explanation
Indices: 27132742--27132808 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
27132732 AGAACCTAGT
*
27132742 AATATATAATATATAT-GATA
1 AATATATAATATATATATATA
*
27132762 AATAGTATAATATATAAATAATA
1 AATA-TATAATATATATAT-ATA
*
27132785 AATATATATTAT-TATATATA
1 AATATATAATATATATATATA
27132805 AATA
1 AATA
27132809 ACTTTAAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 11 0.28
21 15 0.38
22 7 0.17
23 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AATATATAATATATATATATA
Found at i:27133054 original size:9 final size:9
Alignment explanation
Indices: 27133040--27133101 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
27133030 AAACCTTGTA
27133040 ATATATAAT
1 ATATATAAT
27133049 ATATATGATAT
1 ATATAT-A-AT
27133060 ATATTATAAT
1 ATA-TATAAT
*
27133070 AGATATAA-
1 ATATATAAT
27133078 A-ATGATAAT
1 ATAT-ATAAT
27133087 AT-TAT-AT
1 ATATATAAT
27133094 ATATATAA
1 ATATATAA
27133102 CTTTAACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
7 6 0.14
8 10 0.23
9 14 0.32
10 5 0.11
11 6 0.14
12 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (9 bp):
ATATATAAT
Found at i:27133101 original size:16 final size:16
Alignment explanation
Indices: 27133040--27133101 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
27133030 AAACCTTGTA
27133040 ATATATA-ATATATATG
1 ATATATATATA-ATATG
27133056 ATATATATTATAATA-G
1 ATATATA-TATAATATG
* *
27133072 ATATAAAATGATAATATT
1 ATAT-ATAT-ATAATATG
27133090 ATATATATATAA
1 ATATATATATAA
27133102 CTTTAACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
16 17 0.45
17 14 0.37
18 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATATATATATAATATG
Found at i:27133250 original size:23 final size:23
Alignment explanation
Indices: 27133220--27133287 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
27133210 TCATATATTA
*
27133220 TATATATTATTATATATAAATAC
1 TATATATTACTATATATAAATAC
27133243 TATATATTACTATATATAAATAC
1 TATATATTACTATATATAAATAC
*
27133266 TATATGTTACTATATATAAATA
1 TATATATTACTATATATAAATA
27133288 ATAAATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (23 bp):
TATATATTACTATATATAAATAC
Found at i:27133276 original size:10 final size:10
Alignment explanation
Indices: 27133212--27133282 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 10
27133202 TTTCTCTTTC
27133212 ATATATTA-T
1 ATATATTACT
*
27133221 ATATATTATT
1 ATATATTACT
27133231 ATATATAAATACT
1 ATATAT---TACT
27133244 ATATATTACT
1 ATATATTACT
27133254 ATATATAAATACT
1 ATATAT---TACT
*
27133267 ATATGTTACT
1 ATATATTACT
27133277 ATATAT
1 ATATAT
27133283 AAATAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 8 0.15
10 26 0.50
13 18 0.35
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (10 bp):
ATATATTACT
Found at i:27135675 original size:11 final size:11
Alignment explanation
Indices: 27135661--27135717 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
27135651 ATATCTAAAC
*
27135661 AATAATAATAA
1 AATAATAACAA
*
27135672 AATAATAGCAA
1 AATAATAACAA
* * *
27135683 TATAATTATAA
1 AATAATAACAA
*
27135694 AATAATAGCAA
1 AATAATAACAA
*
27135705 AATAATAAGAA
1 AATAATAACAA
27135716 AA
1 AA
27135718 CAAGAAAACA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (11 bp):
AATAATAACAA
Found at i:27135687 original size:22 final size:22
Alignment explanation
Indices: 27135661--27135717 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
27135651 ATATCTAAAC
27135661 AATAATAATAAAATAATAGCAA
1 AATAATAATAAAATAATAGCAA
* *
27135683 TATAATTATAAAATAATAGCAA
1 AATAATAATAAAATAATAGCAA
*
27135705 AATAATAAGAAAA
1 AATAATAATAAAA
27135718 CAAGAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:27136133 original size:24 final size:24
Alignment explanation
Indices: 27136106--27136172 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
27136096 TTTAAAATAC
27136106 TTTTAAAATACATTTTTTAA-TTT
1 TTTTAAAATACATTTTTTAATTTT
27136129 TTTT----TA-A--TTTTAATTTT
1 TTTTAAAATACATTTTTTAATTTT
27136146 TTTTAAAATACATTTTTTAATTTT
1 TTTTAAAATACATTTTTTAATTTT
27136170 TTT
1 TTT
27136173 AATTTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
16 6 0.17
17 7 0.19
18 1 0.03
19 2 0.06
21 2 0.06
22 1 0.03
23 4 0.11
24 13 0.36
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAAAATACATTTTTTAATTTT
Found at i:27136141 original size:16 final size:16
Alignment explanation
Indices: 27136120--27136151 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27136110 AAAATACATT
27136120 TTTTAATTTTTTTTAA
1 TTTTAATTTTTTTTAA
27136136 TTTTAATTTTTTTTAA
1 TTTTAATTTTTTTTAA
27136152 AATACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTTTTTAA
Found at i:27136150 original size:40 final size:41
Alignment explanation
Indices: 27136086--27136228 Score: 193
Period size: 40 Copynumber: 3.5 Consensus size: 41
27136076 AATATTTTTA
*
27136086 TTTTTTTAATTTTAAAATACTTTTAAAATACATTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
* *
27136127 TTTTTTTAATTTT-AATTTTTTTTAAAATACATTTTTTAA-
1 TTTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
*
27136166 TTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTAAAATT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACATTTTT-TAA-T
27136208 TTTATTTTAATTTTTAAAATA
1 TTT-TTTTAA-TTTTAAAATA
27136229 AATTTTTCGT
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
39 18 0.20
40 40 0.44
41 13 0.14
42 3 0.03
43 6 0.07
44 10 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
Found at i:27136202 original size:12 final size:11
Alignment explanation
Indices: 27136175--27136210 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
27136165 ATTTTTTTAA
27136175 TTTTAAAATAT
1 TTTTAAAATAT
27136186 TTTTAAAATACT
1 TTTTAAAATA-T
27136198 TTTTAAAAT-T
1 TTTTAAAATAT
27136208 TTT
1 TTT
27136211 ATTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27136221 original size:21 final size:21
Alignment explanation
Indices: 27136169--27136227 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
27136159 TTTTTAATTT
*
27136169 TTTTAATTTTAAAATATTTTTA
1 TTTTAATTTTTAAA-ATTTTTA
*** *
27136191 AAATACTTTTTAAAATTTTTA
1 TTTTAATTTTTAAAATTTTTA
27136212 TTTTAATTTTTAAAAT
1 TTTTAATTTTTAAAAT
27136228 AAATTTTTCG
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAATTTTTAAAATTTTTA
Found at i:27142101 original size:125 final size:125
Alignment explanation
Indices: 27141871--27142294 Score: 584
Period size: 125 Copynumber: 3.4 Consensus size: 125
27141861 ACGTGGACGT
* * * *
27141871 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCACTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* *
27141936 TTCCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTCTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATATGA
* * *
27141996 GAAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * *
27142060 TTTCGAGTTAACGTTTCTGAGCAAATAGTATAAAAAGCGCTTCAAGC-AGGATGCTATTTGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTA-CTAGGATGCTATATGA
* * * * *
27142121 GAAGAATTTCTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCTTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * * * *
27142186 TTTTGAGTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-TCAAGATACTTTATTA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACT-AGGATGCTATATGA
27142246 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
27142295 CATGTTTGGG
Statistics
Matches: 259, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
124 37 0.14
125 185 0.71
126 37 0.14
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATATGA
Found at i:27145877 original size:17 final size:19
Alignment explanation
Indices: 27145852--27145895 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
27145842 TATAAGAATA
*
27145852 ATTATATTAAGA-A-TTTT
1 ATTAAATTAAGATATTTTT
27145869 ATTAAATT-AGATATTTTT
1 ATTAAATTAAGATATTTTT
27145887 ATTAAATTA
1 ATTAAATTA
27145896 TATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTAAATTAAGATATTTTT
Found at i:27146147 original size:45 final size:44
Alignment explanation
Indices: 27146058--27146150 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
27146048 ATTACAACAT
* *
27146058 CATTCCATTCAACCAAATACAAGAATACTATTGCAGTTCTATTC
1 CATTCCATTCAACCAAATACAAGAATACTATTACAGCTCTATTC
27146102 CATTCCATTCAACC-AA-ACAATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAATACAA--GAA-TACTATTACAGCTCTATTC
27146147 CATT
1 CATT
27146151 ACACATTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
42 4 0.09
43 2 0.05
44 17 0.39
45 21 0.48
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAATACAAGAATACTATTACAGCTCTATTC
Found at i:27146153 original size:16 final size:16
Alignment explanation
Indices: 27146132--27146187 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
27146122 TTGAATTACT
27146132 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
27146148 ATTACA-CATTTATTCC
1 ATTACAGC-TCTATTCC
27146164 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
27146180 ATTACAGC
1 ATTACAGC
27146188 GAACCAAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 34 0.94
17 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:27146930 original size:18 final size:17
Alignment explanation
Indices: 27146891--27146938 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
27146881 TTAAAGTTAT
*
27146891 TTAAAATTTAAAAAAAA
1 TTAAAAATTAAAAAAAA
27146908 TTAAAAATTAAAAAGTAAA
1 TTAAAAATTAAAAA--AAA
27146927 -TAAAAA-TAAAAA
1 TTAAAAATTAAAAA
27146939 TATTCTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 19 0.68
18 6 0.21
19 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
TTAAAAATTAAAAAAAA
Found at i:27152344 original size:22 final size:22
Alignment explanation
Indices: 27152319--27152368 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
27152309 GTGGAGCCGT
27152319 GGAGGACCGGAGGTGGATCGGC
1 GGAGGACCGGAGGTGGATCGGC
**
27152341 GGAGGATTGGAGGTGGATCGGC
1 GGAGGACCGGAGGTGGATCGGC
27152363 GGAGGA
1 GGAGGA
27152369 TTGGTGTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.56, T:0.12
Consensus pattern (22 bp):
GGAGGACCGGAGGTGGATCGGC
Found at i:27152369 original size:22 final size:22
Alignment explanation
Indices: 27152327--27152372 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
27152317 GTGGAGGACC
27152327 GGAGGTGGATCGGCGGAGGATT
1 GGAGGTGGATCGGCGGAGGATT
27152349 GGAGGTGGATCGGCGGAGGATT
1 GGAGGTGGATCGGCGGAGGATT
27152371 GG
1 GG
27152373 TGTCGGAGGT
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:0.17, C:0.09, G:0.57, T:0.17
Consensus pattern (22 bp):
GGAGGTGGATCGGCGGAGGATT
Found at i:27167256 original size:15 final size:15
Alignment explanation
Indices: 27167236--27167266 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27167226 AAGCCAAGAC
27167236 TTGGGCAAATTTTGG
1 TTGGGCAAATTTTGG
27167251 TTGGGCAAATTTTGG
1 TTGGGCAAATTTTGG
27167266 T
1 T
27167267 ATTTTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.32, T:0.42
Consensus pattern (15 bp):
TTGGGCAAATTTTGG
Found at i:27170343 original size:16 final size:15
Alignment explanation
Indices: 27170323--27170370 Score: 64
Period size: 14 Copynumber: 3.2 Consensus size: 15
27170313 AGTAAAAAAT
27170323 AATATAAATTTTAT-
1 AATATAAATTTTATA
27170337 AATATATAATCTTTATA
1 AATATA-AAT-TTTATA
27170354 AATA-AAATTTTATA
1 AATATAAATTTTATA
27170368 AAT
1 AAT
27170371 GGTTGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 15 0.48
15 6 0.19
16 6 0.19
17 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATAAATTTTATA
Found at i:27170369 original size:14 final size:14
Alignment explanation
Indices: 27170323--27170370 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
27170313 AGTAAAAAAT
27170323 AATATAAATTTTATA
1 AATA-AAATTTTATA
*
27170338 ATATATAATCTTTATA
1 A-ATAAAAT-TTTATA
27170354 AATAAAATTTTATA
1 AATAAAATTTTATA
27170368 AAT
1 AAT
27170371 GGTTGAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 9 0.31
15 10 0.34
16 10 0.34
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAAAATTTTATA
Found at i:27170462 original size:21 final size:22
Alignment explanation
Indices: 27170420--27170477 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
27170410 TTTTATAGAT
* *
27170420 AAATTTTGATAAAGAAATTATA
1 AAATTTTTATAAATAAATTATA
*
27170442 AAATTTTTATTAATAAA-TATA
1 AAATTTTTATAAATAAATTATA
**
27170463 TTATTTTTATAAATA
1 AAATTTTTATAAATA
27170478 TAACATGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
AAATTTTTATAAATAAATTATA
Found at i:27182892 original size:21 final size:22
Alignment explanation
Indices: 27182868--27182909 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27182858 AAAGTTAACC
27182868 TAAAA-AAATACAATTA-ATTAG
1 TAAAACAAATA-AATTACATTAG
27182889 TAAAACAAATAAATTACATTA
1 TAAAACAAATAAATTACATTA
27182910 CAACAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAACAAATAAATTACATTAG
Found at i:27185468 original size:15 final size:16
Alignment explanation
Indices: 27185448--27185481 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
27185438 ATCCTACTCC
27185448 TAAAATGAT-AAAAAT
1 TAAAATGATCAAAAAT
*
27185463 TAAAATGATCCAAAAT
1 TAAAATGATCAAAAAT
27185479 TAA
1 TAA
27185482 TCACAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAAATGATCAAAAAT
Found at i:27187601 original size:50 final size:51
Alignment explanation
Indices: 27187526--27187652 Score: 159
Period size: 50 Copynumber: 2.5 Consensus size: 51
27187516 GATGGTCAAG
* * *
27187526 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTACC-GAATAGCATAGATCACA
* * * * *
27187576 TGTGTAGTACTATCTGCAGGCTACTATATGTACCGGATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTACCGAATAGCATAGATCACA
27187627 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27187653 TGTGAACCGG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 3 0.05
50 32 0.48
51 31 0.47
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGTACCGAATAGCATAGATCACA
Found at i:27187645 original size:51 final size:50
Alignment explanation
Indices: 27187526--27187662 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 50
27187516 GATGGTCAAG
* * * *
27187526 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGATCACA
* * * *
27187576 TGTGTAGTACTATCTGCAGGCTACTATATGTACCGG-ATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATAGATCACA
*
27187627 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
27187663 TATCATCAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
49 2 0.03
50 33 0.45
51 39 0.53
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGATCACA
Found at i:27198449 original size:27 final size:27
Alignment explanation
Indices: 27198418--27198470 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
27198408 AAACCCTAAA
*
27198418 TGTCTGCCGATTGGCACATTTGCTTTC
1 TGTCTGCCGACTGGCACATTTGCTTTC
* *
27198445 TGTCTGCCGCCTGGCACATTTTCTTT
1 TGTCTGCCGACTGGCACATTTGCTTT
27198471 GGTTTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.09, C:0.28, G:0.21, T:0.42
Consensus pattern (27 bp):
TGTCTGCCGACTGGCACATTTGCTTTC
Found at i:27204575 original size:11 final size:11
Alignment explanation
Indices: 27204559--27204591 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
27204549 TATTTAAAAA
27204559 TATTTATAATT
1 TATTTATAATT
27204570 TATTTATAATT
1 TATTTATAATT
27204581 TATTTATAATT
1 TATTTATAATT
27204592 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATAATT
Found at i:27204722 original size:18 final size:18
Alignment explanation
Indices: 27204696--27204748 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
27204686 AATAGTGAAC
27204696 ATTATAATTATAATTTAA
1 ATTATAATTATAATTTAA
* * *
27204714 ATTACAATTATTAGTTAA
1 ATTATAATTATAATTTAA
*
27204732 A-AATAATTATAATTTAA
1 ATTATAATTATAATTTAA
27204749 TTTTAACATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTATAATTATAATTTAA
Found at i:27204771 original size:36 final size:35
Alignment explanation
Indices: 27204699--27204769 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
27204689 AGTGAACATT
*
27204699 ATAATTATAATTTAAATTACAATTATTAGTTAAAA
1 ATAATTATAATTTAAATTACAATTATTAGTAAAAA
*
27204734 ATAATTATAATTTAATTTTA-ACATTATTA-TAAAAA
1 ATAATTATAATTTAA-ATTACA-ATTATTAGTAAAAA
27204769 A
1 A
27204770 ATTACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (35 bp):
ATAATTATAATTTAAATTACAATTATTAGTAAAAA
Found at i:27207987 original size:25 final size:25
Alignment explanation
Indices: 27207875--27208022 Score: 142
Period size: 25 Copynumber: 6.0 Consensus size: 25
27207865 GTACATGTAT
*
27207875 GCTCATACAAGCTGTA-AACGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*** *
27207899 GCTTC-TTTGAGCTAAATAACGGTAA
1 GC-TCATACAAGCTGAATAACGGTAA
* *
27207924 GCTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*
27207949 GCTCATACAAGCTGAATAATGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
* **
27207974 GCTCATACAAGCTGAGTATTGGTAA
1 GCTCATACAAGCTGAATAACGGTAA
*
27207999 GCTCATA-AGAGCTGAA-ATCGGTAA
1 GCTCATACA-AGCTGAATAACGGTAA
27208023 CCCTAATGAT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
24 18 0.17
25 86 0.83
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACAAGCTGAATAACGGTAA
Found at i:27208193 original size:14 final size:14
Alignment explanation
Indices: 27208160--27208193 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27208150 TTCAATCAAA
*
27208160 GAATATAATTACAC
1 GAATTTAATTACAC
27208174 -AATTTAATTACAC
1 GAATTTAATTACAC
27208187 GAATTTA
1 GAATTTA
27208194 CCTCGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (14 bp):
GAATTTAATTACAC
Found at i:27215139 original size:25 final size:25
Alignment explanation
Indices: 27215105--27215169 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
27215095 ACGAACTGTA
*
27215105 AACGGTAAGCTCCT-CAGAGCTGAAT
1 AACGGTAAGCTCATAC-GAGCTGAAT
*
27215130 AACGGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
*
27215155 ATCGGTAAGCTCATA
1 AACGGTAAGCTCATA
27215170 GGAACTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:27218305 original size:59 final size:59
Alignment explanation
Indices: 27218233--27218350 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
27218223 TTTTGTAAAG
*
27218233 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTTATTTGCCTCTAATAA
1 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
*
27218292 TTAGAAGGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
1 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
27218351 ATTAAATACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (59 bp):
TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
Found at i:27229033 original size:79 final size:81
Alignment explanation
Indices: 27228931--27229115 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
27228921 GCTCCTCGTT
* * *
27228931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
* *
27228994 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
27229011 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
* *
27229075 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
27229091 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27229116 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:27229115 original size:40 final size:40
Alignment explanation
Indices: 27228931--27229115 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
27228921 GCTCCTCGTT
* *
27228931 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27228971 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
27229011 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
27229050 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
27229091 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27229116 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27237077 original size:117 final size:120
Alignment explanation
Indices: 27236895--27237117 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 120
27236885 GCTCCTCGTT
**
27236895 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
27236960 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
27237015 CAAATGCCTTC-GG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
27237076 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27237118 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
116 3 0.03
117 57 0.63
118 17 0.19
119 2 0.02
120 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27237117 original size:40 final size:40
Alignment explanation
Indices: 27236895--27237117 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
27236885 GCTCCTCGTT
* *
27236895 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27236935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27236975 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27237015 CAAATGCCTTC-GG-CTTAGCCCGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
27237052 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
27237093 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27237118 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
37 24 0.15
38 10 0.06
39 12 0.07
40 107 0.65
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27243602 original size:50 final size:50
Alignment explanation
Indices: 27243542--27243673 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
27243532 TATTGACGTT
* * * *
27243542 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACAAGGCGTTGACACCCAA
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAA
** * * * *
27243592 ATGAAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAA
* *
27243642 ATGAGAA-CTCCCATGTAAGACCATATCTGGGA
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGA
27243674 TATGGCATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 65 0.97
51 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACAAGGCATGGACACCCAA
Found at i:27243715 original size:49 final size:49
Alignment explanation
Indices: 27243606--27243784 Score: 227
Period size: 49 Copynumber: 3.6 Consensus size: 49
27243596 AAGGTCCCCC
* * * * *
27243606 GTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATATGAGAAC-TCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AACATCCCAT
27243656 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* *
27243705 GTAAGACCATATCTAGGATATGGCATTGACAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* * *
27243754 GTAAGACCATATCTGAGAAATGGCTTTGGCA
1 GTAAGACCATATCTGGGATATGGCATTGGCA
27243785 TGTTATTTTC
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 4 0.03
49 83 0.72
50 28 0.24
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (49 bp):
GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
Found at i:27244012 original size:20 final size:20
Alignment explanation
Indices: 27243987--27244025 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27243977 TGAGTTATTT
27243987 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
27244007 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
27244026 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:27247517 original size:14 final size:14
Alignment explanation
Indices: 27247500--27247529 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27247490 CATTTAGTAT
*
27247500 GTATGATCATTTTA
1 GTATAATCATTTTA
27247514 GTATAATCATTTTA
1 GTATAATCATTTTA
27247528 GT
1 GT
27247530 TTAGTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
GTATAATCATTTTA
Found at i:27250424 original size:51 final size:50
Alignment explanation
Indices: 27250364--27250687 Score: 272
Period size: 51 Copynumber: 6.4 Consensus size: 50
27250354 GATGAACACG
** * *
27250364 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGATCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * * * * *
27250415 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAA-ATATGGTCACA
* ** * * * *
27250466 TGTGTAATACTGTGTGAAGGCTACTTTGCGAATCGATAAATGATGGTCATA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * * * *
27250517 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAA-ATATGGTCACA
** * *
27250568 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAAT-ATGGTCACA
* * * *
27250619 TGTGTAGTGCTAAGTGAAGGCTACTATGTGTACCGA-AAAGTTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAA--TATGGTCACA
* *
27250670 TATGTAGTACTATGTGAA
1 TGTGTAGTACTAAGTGAA
27250688 CCGTAAAACT
Statistics
Matches: 208, Mismatches: 59, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
50 5 0.02
51 200 0.96
52 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGATAAATATGGTCACA
Found at i:27250536 original size:102 final size:102
Alignment explanation
Indices: 27250360--27250687 Score: 514
Period size: 102 Copynumber: 3.2 Consensus size: 102
27250350 TATCGATGAA
* * *
27250360 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
27250425 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
* ** * *
27250462 CACGTGTGTAATACTGTGTGAAGGCTACTTTGCGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
27250527 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
*
27250564 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTGC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
27250629 TAAGTGAAGGCTACTATGTGTACCGAA-AAGTTTTGGT
66 TAAGTGAAGGCTACAATGTGTACC-AAGAAGCTTTGGT
* *
27250666 CACGTATGTAGTACTATGTGAA
1 CACGTGTGTAGTACTGTGTGAA
27250688 CCGTAAAACT
Statistics
Matches: 205, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
102 204 1.00
103 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
Found at i:27250731 original size:50 final size:50
Alignment explanation
Indices: 27250677--27250782 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
27250667 ACGTATGTAG
* * *
27250677 TACTATGTGAACCGTAAAACTTAATCACGTGTGCAGTACTATGTGAAGGC
1 TACTACGTGAACCGTAAAACTTAATCACGTGTGCAATACAATGTGAAGGC
* * *
27250727 TACTACGTGAACCGTAAAACTTGATCACGTGTGTAATACAATGTGAAGGT
1 TACTACGTGAACCGTAAAACTTAATCACGTGTGCAATACAATGTGAAGGC
27250777 TACTAC
1 TACTAC
27250783 ATGTATCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (50 bp):
TACTACGTGAACCGTAAAACTTAATCACGTGTGCAATACAATGTGAAGGC
Found at i:27254655 original size:290 final size:290
Alignment explanation
Indices: 27254135--27254714 Score: 1133
Period size: 290 Copynumber: 2.0 Consensus size: 290
27254125 CAAGAATTTT
27254135 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
27254200 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27254265 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
* *
27254330 TGTTAAAGATGGAGGGAATTATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCGTGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27254395 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27254425 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
*
27254490 ACTCCTAAAAAGGTCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27254555 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
27254620 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27254685 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27254715 GTGCTCTATC
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 287 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (290 bp):
ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
AACCGAATGGTAAGGAGTTCAACCACACTC
Found at i:27257632 original size:290 final size:290
Alignment explanation
Indices: 27257112--27257691 Score: 1133
Period size: 290 Copynumber: 2.0 Consensus size: 290
27257102 CAAGAATTTT
27257112 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
27257177 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27257242 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
* *
27257307 TGTTAAAGATGGAGGGAATTATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCGTGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27257372 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27257402 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
*
27257467 ACTCCTAAAAAGGTCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27257532 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
27257597 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27257662 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27257692 GTGCTCTATC
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 287 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (290 bp):
ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
AACCGAATGGTAAGGAGTTCAACCACACTC
Found at i:27260609 original size:290 final size:290
Alignment explanation
Indices: 27260089--27260668 Score: 1133
Period size: 290 Copynumber: 2.0 Consensus size: 290
27260079 CAAGAATTTT
27260089 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
27260154 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27260219 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
* *
27260284 TGTTAAAGATGGAGGGAATTATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCGTGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27260349 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27260379 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
*
27260444 ACTCCTAAAAAGGTCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27260509 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
27260574 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27260639 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27260669 GTGCTCTATC
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 287 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (290 bp):
ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
AACCGAATGGTAAGGAGTTCAACCACACTC
Found at i:27263575 original size:290 final size:290
Alignment explanation
Indices: 27263055--27263634 Score: 1133
Period size: 290 Copynumber: 2.0 Consensus size: 290
27263045 CAAGAATTTT
27263055 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
27263120 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27263185 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
* *
27263250 TGTTAAAGATGGAGGGAATTATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCGTGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27263315 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27263345 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
*
27263410 ACTCCTAAAAAGGTCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27263475 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
27263540 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27263605 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27263635 GTGCTCTATC
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 287 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (290 bp):
ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
AACCGAATGGTAAGGAGTTCAACCACACTC
Found at i:27266565 original size:290 final size:290
Alignment explanation
Indices: 27266045--27266624 Score: 1133
Period size: 290 Copynumber: 2.0 Consensus size: 290
27266035 CAAGAATTTT
27266045 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
27266110 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27266175 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
* *
27266240 TGTTAAAGATGGAGGGAATTATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCGTGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27266305 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27266335 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
1 ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
*
27266400 ACTCCTAAAAAGGTCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
66 ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
27266465 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
131 CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
27266530 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
196 TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
27266595 AACCGAATGGTAAGGAGTTCAACCACACTC
261 AACCGAATGGTAAGGAGTTCAACCACACTC
27266625 GTGCTCTATC
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 287 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (290 bp):
ATCAAAACTGAATGAATTTGAGTTAAAAAGGACATGAAAAAGTGTGTATATTTTCGTGTTTCCAC
ACTCCTAAAAAGGGCAAGGAATGCCGTGATGAGGGCACTTTCGTAATAACTCCTTGAACTACTCC
CATGCCTCATATAAAGAGTCTTCATCAAGATGCTAAACTGAAGTGATTTCATTTCAGATCTTGGC
TGTTAAAGATGGAGGGAAATATTTCATTAAGAAACGTTCAACCAACTCTTGCCATATAGTCATGG
AACCGAATGGTAAGGAGTTCAACCACACTC
Found at i:27279857 original size:11 final size:10
Alignment explanation
Indices: 27279821--27279863 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
27279811 TAACATGTTG
*
27279821 AATTTTATTT
1 AATTTTATTA
27279831 AATTTTATAATA
1 AATTTTAT--TA
27279843 AATTTTGATTA
1 AATTTT-ATTA
27279854 AATTTTATTA
1 AATTTTATTA
27279864 TTTTCGGCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 12 0.41
11 8 0.28
12 7 0.24
13 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTATTA
Found at i:27283472 original size:12 final size:12
Alignment explanation
Indices: 27283451--27283485 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
27283441 ATAATCCTTG
27283451 TTATTATTATTAT
1 TTATTATTATT-T
27283464 TTA-TATTATTT
1 TTATTATTATTT
27283475 TTATTATTATT
1 TTATTATTATT
27283486 GTTAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 14 0.67
13 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:27283532 original size:18 final size:18
Alignment explanation
Indices: 27283509--27283549 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27283499 CTGTTATAAT
*
27283509 TATTAGTATTATAA-TTTG
1 TATTAGT-TTATAAGTTTA
27283527 TATTAGTTTATAAGTTTA
1 TATTAGTTTATAAGTTTA
27283545 TATTA
1 TATTA
27283550 TTATCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TATTAGTTTATAAGTTTA
Found at i:27305444 original size:30 final size:31
Alignment explanation
Indices: 27305389--27305455 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
27305379 ACCCTTAAAA
** * **
27305389 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
27305420 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
27305450 TATTTA
1 TATTTA
27305456 ATCTTGGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:27322011 original size:20 final size:19
Alignment explanation
Indices: 27321983--27322033 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
27321973 TATCAATTCA
27321983 AATATTAAAAAAATTAAAT
1 AATATTAAAAAAATTAAAT
* *
27322002 AATAATTAAAAAATTTATAT
1 AAT-ATTAAAAAAATTAAAT
*
27322022 CATATTAAAAAA
1 AATATTAAAAAA
27322034 TCGATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATTAAAAAAATTAAAT
Found at i:27322012 original size:19 final size:18
Alignment explanation
Indices: 27321983--27322034 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
27321973 TATCAATTCA
27321983 AATATTAAAAAAATTAAAT
1 AATATT-AAAAAATTAAAT
*
27322002 AATAATTAAAAAATTTATAT
1 AAT-ATTAAAAAA-TTAAAT
*
27322022 CATATTAAAAAAT
1 AATATTAAAAAAT
27322035 CGATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.62
20 10 0.34
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATTAAAAAATTAAAT
Found at i:27322523 original size:22 final size:22
Alignment explanation
Indices: 27322495--27322544 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
27322485 ACAAATCCTA
* *
27322495 TCTCAATTTCTTTTCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
27322517 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
27322539 TCTCAA
1 TCTCAA
27322545 ACTCTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:27322550 original size:30 final size:30
Alignment explanation
Indices: 27322516--27322575 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
27322506 TTTCAAAATC
*
27322516 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
27322546 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
27322576 TTTCTTCCAA
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:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (30 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAA
Found at i:27322573 original size:52 final size:52
Alignment explanation
Indices: 27322495--27322594 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
27322485 ACAAATCCTA
* * *
27322495 TCTCAATTTCTTTTCAAAATCCTCTC-AATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAAATTT-CTTCCAAAAATCTCTCAAAC
27322547 TCTCAATTTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTC
1 TCTCAATTTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTC
27322595 TAATCCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 39 0.89
53 5 0.11
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAAATTTCTTCCAAAAATCTCTCAAAC
Found at i:27322588 original size:23 final size:23
Alignment explanation
Indices: 27322546--27322595 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
27322536 TTCTCTCAAA
27322546 CTCTCAATTTCCTTCCAAAATC-
1 CTCTCAATTTCCTTCCAAAATCT
27322568 CTCTCAAATTT-CTTCCAAAAATCT
1 CTCTC-AATTTCCTTCC-AAAATCT
27322592 CTCT
1 CTCT
27322596 AATCCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.40
23 11 0.44
24 4 0.16
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (23 bp):
CTCTCAATTTCCTTCCAAAATCT
Found at i:27322594 original size:22 final size:22
Alignment explanation
Indices: 27322546--27322587 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
27322536 TTCTCTCAAA
27322546 CTCTCAATTTCCTTCCAAAATC
1 CTCTCAATTTCCTTCCAAAATC
27322568 CTCTCAAATTT-CTTCCAAAA
1 CTCTC-AATTTCCTTCCAAAA
27322588 ATCTCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATC
Found at i:27322667 original size:31 final size:31
Alignment explanation
Indices: 27322630--27322697 Score: 118
Period size: 32 Copynumber: 2.2 Consensus size: 31
27322620 CCTCAATTTC
*
27322630 ATTTTTTAAAAATAATTTTATATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTA-AATTTTTTTAT
27322662 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
27322693 ATTTT
1 ATTTT
27322698 CATCAATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 15 0.43
32 20 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:27325048 original size:29 final size:29
Alignment explanation
Indices: 27325004--27325847 Score: 1294
Period size: 29 Copynumber: 28.9 Consensus size: 29
27324994 ATAAAAAAAT
* *
27325004 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
27325034 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325063 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27325092 CCTAATTTAATTAAAAGCCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27325121 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
**
27325150 CCTAATTTTTTTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
* * *
27325180 CCTAATTTATTTTAAAACCCTAAACTCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
27325210 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325239 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325268 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27325297 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
27325327 CCTAATTTAATT-AAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325355 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * * *
27325384 CCTAATTTATTTTAAAACCCTAAACTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
27325413 CTTAATTTATTTTAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325442 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
27325472 CCTAATTTAATAAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27325501 CCTAATTTAATTAAAAACCCTAACACTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325530 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
27325559 CCTAATTTATTTTAGAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
27325589 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27325618 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
** * *
27325648 CCTAATTTAATTAAAAACTTTAACTCTAC
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325677 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27325706 CCTAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27325735 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
27325764 CCTAATTTATTTTAAAACCCTAAACTCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
27325794 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27325823 CCTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
27325848 ATTAACAAAA
Statistics
Matches: 746, Mismatches: 61, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
28 20 0.03
29 530 0.71
30 196 0.26
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:27325141 original size:117 final size:116
Alignment explanation
Indices: 27325004--27325847 Score: 1312
Period size: 117 Copynumber: 7.2 Consensus size: 116
27324994 ATAAAAAAAT
* *
27325004 CCTAATTTATTTTAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
* * *
27325069 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAGCCCTAACCCTAA
65 TTATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* **
27325121 CTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTTTTTAAAAACCCTAAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAT
* *
27325186 TTATTTTAAAACCCTAAACTCTAACTTAATTTAATTAAAAACCCTAACCCTAA
65 TTATTTTAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
27325239 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
27325304 TATTTTAAAACCCTAAACCCTAACCTAATTTAATT-AAAACCCTAACCCTAA
66 TATTTTAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * * *
27325355 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTATTTTAAAACCCTAAACTTAACTTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
27325420 TATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
66 TATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAA
* *
27325472 CCTAATTTAATAAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACACTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* * * * *
27325537 TAATTAAAAACCCTAACCCTAACCTAATTTATTTTAGAACCCTAAACCCTAA
66 TATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAA
* *
27325589 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAT
* * ** * *
27325654 TTAATTAAAAACTTTAACTCTACCCTAATTTAATTAAAAACCCTAACCCTAA
65 TTATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
27325706 CCTAATTTAATTAAAAACTCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
*
27325771 TATTTTAAAACCCTAAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
66 TATTTTAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
27325823 CCTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
27325848 ATTAACAAAA
Statistics
Matches: 668, Mismatches: 53, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
115 20 0.03
116 150 0.22
117 367 0.55
118 131 0.20
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (116 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:27329142 original size:123 final size:124
Alignment explanation
Indices: 27328922--27329200 Score: 490
Period size: 123 Copynumber: 2.3 Consensus size: 124
27328912 CCACGAGGGC
*
27328922 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATCATTTCTTACATGACCAACTGTAGCG
27328987 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
*
27329046 GCGATTTTATACTATTTTCTCAGAAACGT-AAAAAAAATCATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATCATTTCTTACATGACCAACTGTAGCG
* *
27329110 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCTTGGTAGGA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
*
27329169 GCGATTTTATACTATTTGAC-CAGAAAAGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
27329201 CTCAAAATAA
Statistics
Matches: 147, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
123 116 0.79
124 31 0.21
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATCATTTCTTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:27331420 original size:27 final size:26
Alignment explanation
Indices: 27331380--27331430 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
27331370 TCATATTGGT
*
27331380 AAATAGAATGTGTAAGAAAATGTGATG
1 AAATAGAATATGTAAGAAAA-GTGATG
* *
27331407 AAATAGTATATGTATGAAAAGTGA
1 AAATAGAATATGTAAGAAAAGTGA
27331431 AAGAGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (26 bp):
AAATAGAATATGTAAGAAAAGTGATG
Found at i:27337827 original size:14 final size:14
Alignment explanation
Indices: 27337808--27337846 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
27337798 TACCACAGGC
27337808 GGATTGGTATTTGT
1 GGATTGGTATTTGT
27337822 GGATTGGTATTTGT
1 GGATTGGTATTTGT
27337836 GGATTGGTATT
1 GGATTGGTATT
27337847 CATTGTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (14 bp):
GGATTGGTATTTGT
Found at i:27344246 original size:27 final size:26
Alignment explanation
Indices: 27344200--27344253 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
27344190 TGACATCTAT
27344200 GAATAGCCTTTGTGACGAACTCTGAAA
1 GAATAGCCTTTGTGACGAACT-TGAAA
*
27344227 GAATAGCCTTTGTTG-TGAACTTGAAA
1 GAATAGCCTTTG-TGACGAACTTGAAA
27344253 G
1 G
27344254 GAATTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 6 0.24
27 17 0.68
28 2 0.08
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (26 bp):
GAATAGCCTTTGTGACGAACTTGAAA
Found at i:27349575 original size:178 final size:178
Alignment explanation
Indices: 27349269--27349623 Score: 566
Period size: 178 Copynumber: 2.0 Consensus size: 178
27349259 CATTCCCAAC
*
27349269 ATCATTTCTTGATTCACCACACATTTTCAGCTATAAAATAGAAACATTTTATAATCAACATCAAA
1 ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
** * * * *
27349334 ATCCTGACTCAACTCAAATTAACTTGGCATGTACCTCTAGACTTAATTCTGAACTTGATTTTAGT
66 ATCCCAACTCAACTCAAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
* * *
27349399 CTAAGAATCGGCTAAACCAATAGCTCTGACACCATTAACTGTAACACT
131 CCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACACT
* * *
27349447 ATCATTTCTTGATTCACCATACATTTTCAACTATACAATAGAAACATTTTATAATCAACATCCAA
1 ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
* *
27349512 ATCCCAACTTAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
66 ATCCCAACTCAACTCAAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
*
27349577 CCAAGAATTAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
131 CCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
27349624 CACATACCCG
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
178 161 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (178 bp):
ATCATTTCTTGATTCACCACACATTTTCAACTATAAAATAGAAACATTTTATAATCAACATCAAA
ATCCCAACTCAACTCAAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAGT
CCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACACT
Found at i:27350194 original size:21 final size:20
Alignment explanation
Indices: 27350153--27350197 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
27350143 CCTTACCAAT
* *
27350153 CATAACTTAAACAACTAATG
1 CATAACTTAAAAAAATAATG
*
27350173 CATAACATTAAAAAAATTATG
1 CATAAC-TTAAAAAAATAATG
27350194 CATA
1 CATA
27350198 CATACCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (20 bp):
CATAACTTAAAAAAATAATG
Found at i:27355917 original size:20 final size:20
Alignment explanation
Indices: 27355892--27355931 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27355882 GTTTGAAACA
27355892 AAATCACTAACAACAATCTT
1 AAATCACTAACAACAATCTT
27355912 AAATCACTAACAACAATCTT
1 AAATCACTAACAACAATCTT
27355932 TCTCATGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATCACTAACAACAATCTT
Found at i:27360628 original size:16 final size:16
Alignment explanation
Indices: 27360607--27360637 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27360597 TTGATACACT
27360607 TTTGGCGAACTCCCCC
1 TTTGGCGAACTCCCCC
27360623 TTTGGCGAACTCCCC
1 TTTGGCGAACTCCCC
27360638 AGTTCGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.42, G:0.19, T:0.26
Consensus pattern (16 bp):
TTTGGCGAACTCCCCC
Found at i:27366937 original size:23 final size:20
Alignment explanation
Indices: 27366911--27366959 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
27366901 TTACAATTTG
27366911 TAATTATAAGTAATACATTCAAA
1 TAATTATAAGTAA-A-A-TCAAA
*
27366934 TAATTATAATTAAAATCAAA
1 TAATTATAAGTAAAATCAAA
27366954 TAATTA
1 TAATTA
27366960 CAAAACACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 1 0.04
22 1 0.04
23 12 0.48
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TAATTATAAGTAAAATCAAA
Found at i:27367343 original size:20 final size:21
Alignment explanation
Indices: 27367308--27367351 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
27367298 TTAAACGCAT
27367308 AATTTAATCTATTTTTAAATA
1 AATTTAATCTATTTTTAAATA
*
27367329 AATTTAATTTA-TTTTAAATA
1 AATTTAATCTATTTTTAAATA
27367349 AAT
1 AAT
27367352 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTAATCTATTTTTAAATA
Found at i:27368082 original size:22 final size:22
Alignment explanation
Indices: 27368034--27368084 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
27368024 GTATCTAACG
27368034 AAAATT-AAATAAATAAAAATA
1 AAAATTAAAATAAATAAAAATA
* *
27368055 ATAATTAAAATAAA-AATAATTA
1 AAAATTAAAATAAATAA-AAATA
27368077 AAAATTAA
1 AAAATTAA
27368085 CGCACTATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATTAAAATAAATAAAAATA
Found at i:27374842 original size:30 final size:29
Alignment explanation
Indices: 27374786--27374853 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
27374776 TTTAAGAACG
27374786 CCTTTATGGCAAATCTCTACAAGGAAATA
1 CCTTTATGGCAAATCTCTACAAGGAAATA
* *
27374815 CCTTTGTGGC-AATCTCTATCAAAGGAAA-G
1 CCTTTATGGCAAATCTCTA-C-AAGGAAATA
27374844 CCTTTATGGC
1 CCTTTATGGC
27374854 GCAAAGGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.24
29 19 0.56
30 7 0.21
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (29 bp):
CCTTTATGGCAAATCTCTACAAGGAAATA
Found at i:27378308 original size:19 final size:19
Alignment explanation
Indices: 27378284--27378320 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27378274 ATGCTAGAAT
*
27378284 CATGTTGGAATCAGATTTA
1 CATGTTAGAATCAGATTTA
*
27378303 CATGTTAGAATTAGATTT
1 CATGTTAGAATCAGATTT
27378321 GCATTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (19 bp):
CATGTTAGAATCAGATTTA
Found at i:27399631 original size:21 final size:23
Alignment explanation
Indices: 27399584--27399632 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
27399574 TAAATTGACT
**
27399584 TTTAATTTTTTATCATAATTATT
1 TTTAATTTTTTATCATAATTACA
*
27399607 TTTAA-TTTTTCT-ATAATTACA
1 TTTAATTTTTTATCATAATTACA
27399628 TTTAA
1 TTTAA
27399633 AATTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 6 0.26
23 5 0.22
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAATTTTTTATCATAATTACA
Found at i:27399710 original size:16 final size:17
Alignment explanation
Indices: 27399689--27399726 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27399679 TTTTAAAACT
27399689 TATATTTACATATA-AA
1 TATATTTACATATATAA
* *
27399705 TATATTTGCATGTATAA
1 TATATTTACATATATAA
27399722 TATAT
1 TATAT
27399727 AATTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (17 bp):
TATATTTACATATATAA
Found at i:27406191 original size:3 final size:3
Alignment explanation
Indices: 27406183--27406215 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27406173 TCTATTTCTC
27406183 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27406216 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27406719 original size:10 final size:10
Alignment explanation
Indices: 27406693--27406723 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
27406683 GTTAAGAAAT
27406693 ATTTTAAAAA
1 ATTTTAAAAA
27406703 ATCTTTAAAAA
1 AT-TTTAAAAA
27406714 ATTTTAAAAA
1 ATTTTAAAAA
27406724 TCATAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:27407819 original size:22 final size:21
Alignment explanation
Indices: 27407773--27407826 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
27407763 GGGTGAGAAG
27407773 TAAAAG-TTT-AGGGGGAAAA
1 TAAAAGTTTTGAGGGGGAAAA
*
27407792 TAAAAAGTTTTGAGGGAGTAAAA
1 T-AAAAGTTTTGAGGG-GGAAAA
27407815 TAAAAGTTTTGA
1 TAAAAGTTTTGA
27407827 CGGTTTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
21 3 0.10
22 15 0.50
23 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (21 bp):
TAAAAGTTTTGAGGGGGAAAA
Found at i:27412831 original size:16 final size:15
Alignment explanation
Indices: 27412795--27412833 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27412785 TAAAGAGAGC
*
27412795 TAATGTTCATGTATG
1 TAATGTGCATGTATG
27412810 TAAATGTGCATGTATGG
1 T-AATGTGCATGTAT-G
27412827 TAATGTG
1 TAATGTG
27412834 ATAAGCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (15 bp):
TAATGTGCATGTATG
Found at i:27419963 original size:22 final size:22
Alignment explanation
Indices: 27419937--27419981 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27419927 AACAAATAAC
27419937 TTAGGTATATGCTCATAACCAA
1 TTAGGTATATGCTCATAACCAA
27419959 TTAGGTATATGCTCATAACCAA
1 TTAGGTATATGCTCATAACCAA
27419981 T
1 T
27419982 CACTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (22 bp):
TTAGGTATATGCTCATAACCAA
Found at i:27424016 original size:20 final size:20
Alignment explanation
Indices: 27423991--27424028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27423981 CCTATGATTG
*
27423991 ATTAAATCACTAATTATCTA
1 ATTAAATAACTAATTATCTA
*
27424011 ATTAAATAATTAATTATC
1 ATTAAATAACTAATTATC
27424029 CTAAATTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAATAACTAATTATCTA
Found at i:27424403 original size:21 final size:21
Alignment explanation
Indices: 27424369--27424409 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27424359 AATGCTAATT
*
27424369 AATAAAGTTAATGAAAATATA
1 AATAAAGCTAATGAAAATATA
* *
27424390 AATAAAGCTCATGAACATAT
1 AATAAAGCTAATGAAAATAT
27424410 TGAATTGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (21 bp):
AATAAAGCTAATGAAAATATA
Found at i:27425592 original size:17 final size:16
Alignment explanation
Indices: 27425558--27425596 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27425548 AACATCAATT
*
27425558 AATCTAATTAACCTAAA
1 AATC-AATTAAACTAAA
27425575 AATCAATTAAACTAAA
1 AATCAATTAAACTAAA
27425591 AATCAA
1 AATCAA
27425597 CCAATTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AATCAATTAAACTAAA
Found at i:27440737 original size:22 final size:21
Alignment explanation
Indices: 27440712--27441025 Score: 295
Period size: 22 Copynumber: 14.2 Consensus size: 21
27440702 AGCAATTATC
*
27440712 CAACATTCAGACAGCATTTAAT
1 CAACATT-GGACAGCATTTAAT
* *
27440734 CAACAATTGGATAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
*
27440756 CAACATTTGGACAACATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
27440778 CAACAATTGGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
27440800 CAATATTTGGACAACATTTAAT
1 CAACA-TTGGACAGCATTTAAT
**
27440822 CAACAACAGGACAGCATTTAAT
1 CAAC-ATTGGACAGCATTTAAT
* * *
27440844 CAACAATTGGGCATCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
*
27440866 CAATATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
27440888 CAACAATTGGACAACATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
27440910 CAATATTTGGACAACATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
27440932 CAACAATTGGACAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
*
27440954 CAACATTTGGACAACATTTTAAT
1 CAACA-TTGGACAGCA-TTTAAT
*
27440977 CAACAATTGGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
27440999 CAATATTTGGAAAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
27441021 CAACA
1 CAACA
27441026 ATTTTTACTT
Statistics
Matches: 239, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
21 6 0.03
22 207 0.87
23 25 0.10
24 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.28
Consensus pattern (21 bp):
CAACATTGGACAGCATTTAAT
Found at i:27440791 original size:66 final size:66
Alignment explanation
Indices: 27440721--27441028 Score: 409
Period size: 66 Copynumber: 4.7 Consensus size: 66
27440711 CCAACATTCA
* * * * * *
27440721 GACAGCATTTAATCAACAATTGGATAGCATTAAATCAACATTTGGACAACATTTAATCAACAATT
1 GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACATTTAATCAACAATT
27440786 G
66 G
* ** *
27440787 GACAGCATTCAATCAATATTTGGACAACATTTAATCAACAACAGGACAGCATTTAATCAACAATT
1 GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACATTTAATCAACAATT
27440852 G
66 G
* * * * *
27440853 GGCATCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAATATTT
1 GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACATTTAATCAACAATT
27440918 G
66 G
* * * * * *
27440919 GACAACATTTAATCAACAATTGGACAGCATTAAATCAACATTTGGACAACATTTTAATCAACAAT
1 GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACA-TTTAATCAACAAT
27440984 TG
65 TG
*
27440986 GACAGCATTCAATCAATATTTGGAAAGCATTTAATCAACAATT
1 GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATT
27441029 TTTACTTCAA
Statistics
Matches: 205, Mismatches: 36, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
66 157 0.77
67 48 0.23
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.29
Consensus pattern (66 bp):
GACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATTGGACAACATTTAATCAACAATT
G
Found at i:27441912 original size:42 final size:43
Alignment explanation
Indices: 27441804--27441921 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 43
27441794 AGCTCGTACA
* * * * *
27441804 ATGCCAACGTTCCAAACGTGGTCTTTCATGTAATCAAACAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
* * * *
27441847 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCATA-AATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
*
27441889 ACT-CCAATGTCCCAGACATGGTCTTACACGTAA
1 A-TGCCAATGTCCCAGACATGGTCTTACATGTAA
27441922 ATTTAAAATT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
Found at i:27444614 original size:113 final size:112
Alignment explanation
Indices: 27444404--27444614 Score: 298
Period size: 113 Copynumber: 1.9 Consensus size: 112
27444394 TTACAACAAA
* * * *
27444404 GCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTTGCCTTGATGTATACAAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACACAGCGTTTTTGCATTAATGTATACAAGAATTAGTGGCG
* *
27444469 CTTAGGAGAAAACGCCGCTAAAGCATATTAGCGGCGTTTTGCGAGAT
66 CTTACGAGAAAACGCCGCTAAAGCATAGTAGCGGCGTTTTGCGAGAT
* * * *
27444516 GCGCCGCAAAATATCTTAACCAAAACACATCGTTTTTGGTATTAATGTATCCTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACACAGCGTTTTT-GCATTAATGTATACAAGAATTAGTGGC
*
27444581 GCTTACCG-GAAAACGCCGCTAACGCATAGTAGCG
65 GCTTA-CGAGAAAACGCCGCTAAAGCATAGTAGCG
27444615 CCGCAAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
112 34 0.40
113 51 0.59
114 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (112 bp):
GCGCCGCAAAATATCTTAACCAAAACACAGCGTTTTTGCATTAATGTATACAAGAATTAGTGGCG
CTTACGAGAAAACGCCGCTAAAGCATAGTAGCGGCGTTTTGCGAGAT
Found at i:27444887 original size:115 final size:114
Alignment explanation
Indices: 27444611--27445252 Score: 587
Period size: 115 Copynumber: 5.6 Consensus size: 114
27444601 AACGCATAGT
* *
27444611 AGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTCGGTCTTGA-GCTATGTTAGAATTAGTGG
1 AGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATG-TATATTAGAATTAGTGG
* * * * *
27444674 CGCTTATAGGAAAACACCGC-AAACGGATAGTATTAGCGG-AACT-TTTGAAA
65 CGCTTA-CGGAAAACGCCGCTAAA-GCATAGTATTAGCGGCGATTCTTTG-AA
* ** *
27444724 AGCGCCGCAAAATAT-TTGAACCAAAATGCATTGTTTTGGTATTGATGTATATTAGAATTAGTGG
1 AGCGCCGCAAAATATCTT-AACCAAAACGCAGAGTTTTGGTCTTGATGTATATTAGAATTAGTGG
* * **
27444788 CGTTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCAGCGATTCTTTGCT
65 CGCTTACGG-AAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGAA
* * * * *
27444839 AGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGC
1 AGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
* * * * * *
27444904 ACTTACGGGAAACCACCGCTAAAGAATAGTATTAGCGGCGCTT-TCTGAAA
66 GCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTG-AA
* * ** *
27444954 AGTGCCGCAAAATATCTTAACCAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGTGGC
1 AGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
* *
27445019 GCTTACTAGAAAACGCCGTTAAAGCATAGTATTAGCGGCG---CTTTGCAAAA
66 GCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTG---AA
* * * * *
27445069 AGTGCCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGT
1 AGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
* * * * ** *
27445132 GCTTATAGGAAAACGCCGC-AACTGGATAGTATTAGCGGCGCTT-TACGGA
66 GCTTA-CGGAAAACGCCGCTAA-AGCATAGTATTAGCGGCGATTCTTTGAA
* * * *
27445181 AGCGCCGCAAAATATCTGAACCAAAACGCATCA-TTTTGGTCTCGATGTATACTT-CAATTAGTG
1 AGCGCCGCAAAATATCTTAACCAAAACGCA-GAGTTTTGGTCTTGATGTATA-TTAGAATTAGTG
27445244 GCGCTTACG
64 GCGCTTACG
27445253 TTGAAACACC
Statistics
Matches: 432, Mismatches: 75, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
112 22 0.05
113 98 0.23
114 95 0.22
115 210 0.49
116 7 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (114 bp):
AGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
GCTTACGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGAA
Found at i:27445012 original size:230 final size:223
Alignment explanation
Indices: 27444610--27445252 Score: 758
Period size: 230 Copynumber: 2.8 Consensus size: 223
27444600 TAACGCATAG
*
27444610 TAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTCGGTCTTGAGCTATGTTAGAATTAGTGGC
1 TAGCGCCGCAAAATATCTTAA-CAAAACGCAGAGTTTGGTCTTGAG-TATGTTAGAATTAGTGGC
**
27444675 GCTTATAGGAAAACACCGCAAACGGATAGTATTAGCGGAACTTT-TGAAAAGCGCCGCAAAATAT
64 GCTTATAGGAAAACACCGCAAA-GGATAGTATTAGCGGCGCTTTCTGAAAAGCGCCGCAAAATAT
* * * * *
27444739 -TTGAACCAAAATGCATTGTTTTGGTATTGATGTATATTAGAATTAGTGGCGTTTACGGTAAAAC
128 CTT-AACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGG-AAAAC
27444803 GCCGCTAAAGCATAGTATTAGCAGCGATTCTTTGC-
191 GCCGCTAAAGCATAGTATTAGCAGCG---CTTTGCA
* * ** *
27444838 TAGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGG
1 TAGCGCCGCAAAATATCTTAAC-AAAACGCAGAG-TTTGGTCTTGA-GTATGTTAGAATTAGTGG
* ** * * *
27444903 CACTTACGGGAAACCACCGCTAAAGAATAGTATTAGCGGCGCTTTCTGAAAAGTGCCGCAAAATA
63 CGCTTATAGGAAAACACCGC-AAAGGATAGTATTAGCGGCGCTTTCTGAAAAGCGCCGCAAAATA
** *
27444968 TCTTAACCAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGTGGCGCTTACTAGAAAAC
127 TCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTAC-GGAAAAC
* *
27445033 GCCGTTAAAGCATAGTATTAGCGGCGCTTTGCAAA
191 GCCGCTAAAGCATAGTATTAGCAGCGCTTTGC--A
* * * *
27445068 AAGTGCCGCAACATATCTTAACAAAACGCAGAGTTTGGTCTTGAGGTATGTTAGAATTAGTGGTG
1 TAGCGCCGCAAAATATCTTAACAAAACGCAGAGTTTGGTCTTGA-GTATGTTAGAATTAGTGGCG
* * *
27445133 CTTATAGGAAAACGCCGCAACTGGATAGTATTAGCGGCGCTTTAC-G-GAAGCGCCGCAAAATAT
65 CTTATAGGAAAACACCGCAA-AGGATAGTATTAGCGGCGCTTT-CTGAAAAGCGCCGCAAAATAT
* * **
27445196 CTGAACCAAAACGCATCA-TTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTTACG
128 CTTAACCAAAACGCAT-AGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACG
27445253 TTGAAACACC
Statistics
Matches: 352, Mismatches: 50, Indels: 28
0.82 0.12 0.07
Matches are distributed among these distances:
227 72 0.20
228 92 0.26
229 69 0.20
230 116 0.33
231 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (223 bp):
TAGCGCCGCAAAATATCTTAACAAAACGCAGAGTTTGGTCTTGAGTATGTTAGAATTAGTGGCGC
TTATAGGAAAACACCGCAAAGGATAGTATTAGCGGCGCTTTCTGAAAAGCGCCGCAAAATATCTT
AACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGAAAACGCCGC
TAAAGCATAGTATTAGCAGCGCTTTGCA
Found at i:27446724 original size:23 final size:22
Alignment explanation
Indices: 27446696--27446769 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 22
27446686 CCCCACTCTG
*
27446696 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCC-ATTTCATTTCCCCA
27446719 ATTT-CCCATTTCATATTCCCCCA
1 ATTTCCCCATTTCAT-TT-CCCCA
*
27446742 ACTTCCCCGATTTCATTTCTCGCCA
1 ATTTCCCC-ATTTCATTTC-C-CCA
27446767 ATT
1 ATT
27446770 CCTTTTCCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
21 7 0.17
22 5 0.12
23 12 0.29
24 6 0.14
25 12 0.29
ACGTcount: A:0.20, C:0.36, G:0.03, T:0.41
Consensus pattern (22 bp):
ATTTCCCCATTTCATTTCCCCA
Found at i:27446737 original size:22 final size:23
Alignment explanation
Indices: 27446696--27446760 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
27446686 CCCCACTCTG
27446696 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCCAATTTCATTTCCCTA
*
27446719 ATTT-CCC-ATTTCATATTCCCCCA
1 ATTTCCCCAATTTCAT-TT-CCCTA
* *
27446742 ACTTCCCCGATTTCATTTC
1 ATTTCCCCAATTTCATTTC
27446761 TCGCCAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
21 7 0.19
22 5 0.14
23 12 0.33
24 5 0.14
25 7 0.19
ACGTcount: A:0.20, C:0.37, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTCCCCAATTTCATTTCCCTA
Found at i:27448303 original size:15 final size:15
Alignment explanation
Indices: 27448283--27448315 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
27448273 AAGTTTTCTA
27448283 TATTAGTATTAAATT
1 TATTAGTATTAAATT
27448298 TATTAGTATTAAATT
1 TATTAGTATTAAATT
27448313 TAT
1 TAT
27448316 AAGTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TATTAGTATTAAATT
Found at i:27448312 original size:43 final size:45
Alignment explanation
Indices: 27448264--27448375 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
27448254 ATAAGTTTTC
* *
27448264 TAAATTTATAAGTTTTCTATATTAGT-AT-TAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAT
*
27448307 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAT
* *
27448352 TAATTTTTTAAGTTTTCTAAATAA
1 TAAATTTATAAGTTTTCTAAATAA
27448376 TTATATCACC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 24 0.39
44 1 0.02
45 37 0.60
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (45 bp):
TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAT
Found at i:27448503 original size:17 final size:17
Alignment explanation
Indices: 27448483--27448566 Score: 122
Period size: 17 Copynumber: 5.2 Consensus size: 17
27448473 TTAATATCTA
27448483 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
27448500 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
27448517 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
27448534 TATAAGTTTTCT--A--
1 TATAAGTTTTCTAAATT
*
27448547 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
27448564 TAT
1 TAT
27448567 TAGTAATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.18
15 2 0.03
17 47 0.78
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:27448662 original size:24 final size:25
Alignment explanation
Indices: 27448635--27448681 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
27448625 TTATATATCT
*
27448635 TACATAATACATAAC-TACATAACA
1 TACATAATACAGAACTTACATAACA
27448659 TACATAATACAGAACTTACATAA
1 TACATAATACAGAACTTACATAA
27448682 TAAGCATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (25 bp):
TACATAATACAGAACTTACATAACA
Found at i:27448678 original size:16 final size:16
Alignment explanation
Indices: 27448641--27448683 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
27448631 ATCTTACATA
*
27448641 ATACATAACTACATAAC
1 ATACATAA-TACAGAAC
27448658 ATACATAATACAGAAC
1 ATACATAATACAGAAC
*
27448674 TTACATAATA
1 ATACATAATA
27448684 AGCATACCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (16 bp):
ATACATAATACAGAAC
Found at i:27448717 original size:9 final size:9
Alignment explanation
Indices: 27448693--27448903 Score: 79
Period size: 9 Copynumber: 24.8 Consensus size: 9
27448683 AAGCATACCG
27448693 TACATAAAT
1 TACATAAAT
* *
27448702 TAAATAAGT
1 TACATAAAT
27448711 TACAT-AA-
1 TACATAAAT
*
27448718 TACACAAA-
1 TACATAAAT
* *
27448726 AACAAAAACT
1 TACATAAA-T
*
27448736 TACATAACT
1 TACATAAAT
27448745 TACAT-AA-
1 TACATAAAT
* *
27448752 TACACAACT
1 TACATAAAT
* *
27448761 GACATAACT
1 TACATAAAT
27448770 TACAT-AA-
1 TACATAAAT
* *
27448777 TACACAACT
1 TACATAAAT
*
27448786 TACATAACT
1 TACATAAAT
27448795 TACAT-AA-
1 TACATAAAT
*
27448802 TACATAATT
1 TACATAAAT
*
27448811 TACATAACT
1 TACATAAAT
27448820 TACAT-AA-
1 TACATAAAT
* *
27448827 GACATAAGT
1 TACATAAAT
*
27448836 TTCAT-AA-
1 TACATAAAT
* *
27448843 TACACAACT
1 TACATAAAT
* *
27448852 TACACAACT
1 TACATAAAT
*
27448861 TACATAACT
1 TACATAAAT
* *
27448870 TACACAACT
1 TACATAAAT
*
27448879 TACATAACT
1 TACATAAAT
*
27448888 TACATAACT
1 TACATAAAT
27448897 TACATAA
1 TACATAA
27448904 TAAATAACTT
Statistics
Matches: 154, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
7 24 0.16
8 19 0.12
9 106 0.69
10 5 0.03
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (9 bp):
TACATAAAT
Found at i:27448760 original size:16 final size:17
Alignment explanation
Indices: 27448732--27448903 Score: 151
Period size: 16 Copynumber: 10.1 Consensus size: 17
27448722 CAAAAACAAA
27448732 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAT
*
27448750 AA--TACACAACTGACAT
1 AACTTACATAACT-ACAT
*
27448766 AACTTACATAA-TACAC
1 AACTTACATAACTACAT
27448782 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAT
*
27448800 AA--TACATAATTTACAT
1 AACTTACATAA-CTACAT
*
27448816 AACTTACATAA-GACAT
1 AACTTACATAACTACAT
* * *
27448832 AAGTTTCATAA-TACAC
1 AACTTACATAACTACAT
*
27448848 AACTTACACAACTTACAT
1 AACTTACATAAC-TACAT
*
27448866 AACTTACACAACTTACAT
1 AACTTACATAAC-TACAT
27448884 AACTTACATAACTTACAT
1 AACTTACATAAC-TACAT
27448902 AA
1 AA
27448904 TAAATAACTT
Statistics
Matches: 129, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.01
16 65 0.50
17 1 0.01
18 62 0.48
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (17 bp):
AACTTACATAACTACAT
Done.