Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 98 of 199
Found at i:27594241 original size:10 final size:10
Alignment explanation
Indices: 27594219--27594265 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
27594209 AAATCTGTCG
27594219 AAAA-TAATT
1 AAAATTAATT
*
27594228 AAAATTAATC
1 AAAATTAATT
*
27594238 AAAATTTGATAT
1 AAAA-TTAAT-T
27594250 AAAATTAATT
1 AAAATTAATT
27594260 AAAATT
1 AAAATT
27594266 GAACATGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 4 0.13
10 15 0.48
11 8 0.26
12 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:27595395 original size:25 final size:25
Alignment explanation
Indices: 27595362--27595499 Score: 124
Period size: 25 Copynumber: 5.5 Consensus size: 25
27595352 AATTCTTTGG
*
27595362 AAAGTCTTTGTGGCTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
27595387 AAAGCCTTTATAGCGTATTATC-TG-G-
1 AAAGCCTTTGTGGC-TA--ATCTTGTGA
*
27595412 AAAGCTTTTGTGGCTAATCTTGTGA
1 AAAGCCTTTGTGGCTAATCTTGTGA
* *
27595437 AAAGCCTTTGTGGCCT-AT-TATCTAA
1 AAAGCCTTTGTGG-CTAATCT-TGTGA
* *
27595462 AAAGCCTTTGTGTCTAATCTTGTAA
1 AAAGCCTTTGTGGCTAATCTTGTGA
27595487 AAAGCCTTTGTGG
1 AAAGCCTTTGTGG
27595500 AGTATTATCT
Statistics
Matches: 91, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 6 0.07
25 69 0.76
26 6 0.07
27 2 0.02
28 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGCTAATCTTGTGA
Found at i:27595434 original size:50 final size:50
Alignment explanation
Indices: 27595359--27595515 Score: 217
Period size: 50 Copynumber: 3.1 Consensus size: 50
27595349 GAGAATTCTT
* *
27595359 TGGAAAG-TCTTTGTGGCTAATCTTGTGAAAAGCCTTTATAGCGTATTATC
1 TGGAAAGCT-TTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
*
27595409 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCCTATTATC
1 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
** * * * *
27595459 TAAAAAGCCTTTGTGTCTAATCTTGTAAAAAGCCTTTGTGGAGTATTATC
1 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
27595509 TGGAAAG
1 TGGAAAG
27595516 ACTGTGTGCC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 93 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (50 bp):
TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTATC
Found at i:27595535 original size:50 final size:49
Alignment explanation
Indices: 27595359--27595536 Score: 194
Period size: 50 Copynumber: 3.6 Consensus size: 49
27595349 GAGAATTCTT
* * * *
27595359 TGGAAAGTCTTTGTGGCTAATCTTGTGAAAAGCCTTTATAGCGTATTATC
1 TGGAAAG-CTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
* * *
27595409 TGGAAAGCTTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCCTATTATC
1 TGGAAAGC-TTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
** * *
27595459 TAAAAAGCCTTTGTGTCTAATCTTGTAAAAAGCCTTTGTGGAGTATTATC
1 TGGAAAG-CTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
* * *
27595509 TGGAAAGACTGTGTGCCGAATTTTGTAA
1 TGGAAAG-CTTTGTGCCTAATCTTGTAA
27595537 CGCTTAAATG
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 108 0.98
51 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (49 bp):
TGGAAAGCTTTGTGCCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
Found at i:27597356 original size:16 final size:17
Alignment explanation
Indices: 27597335--27597380 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
27597325 TTTTTATGTA
27597335 TTTTTATATTT-TATAT
1 TTTTTATATTTATATAT
*
27597351 TTTTTATAATTTATGTAT
1 TTTTTAT-ATTTATATAT
27597369 TTTTTA-ATTTAT
1 TTTTTATATTTAT
27597381 TATCTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 13 0.48
17 4 0.15
18 10 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTATATTTATATAT
Found at i:27598516 original size:5 final size:5
Alignment explanation
Indices: 27598501--27598531 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
27598491 TGCAATTTAA
27598501 ATTTCC ATTTC ATTTC ATTTC ATTTC ATTTC
1 ATTT-C ATTTC ATTTC ATTTC ATTTC ATTTC
27598532 CACAACCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:27599909 original size:5 final size:5
Alignment explanation
Indices: 27599899--27599924 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27599889 TATGCATCTC
27599899 CAAAA CAAAA CAAAA CAAAA CAAAA C
1 CAAAA CAAAA CAAAA CAAAA CAAAA C
27599925 CCCATATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:27604580 original size:30 final size:30
Alignment explanation
Indices: 27604544--27604602 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27604534 TACGAGGACA
27604544 TTTAGGAACTT-GAGAAGAC-CTGATATCTCG
1 TTTAGGAACTTAG-GAAGACTC-GATATCTCG
*
27604574 TTTAGGAGCTTAGGAAGACTCGATATCTC
1 TTTAGGAACTTAGGAAGACTCGATATCTC
27604603 ATTCAAGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
TTTAGGAACTTAGGAAGACTCGATATCTCG
Found at i:27605723 original size:13 final size:13
Alignment explanation
Indices: 27605705--27605734 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27605695 ATTATATAAT
*
27605705 AATAAAACAAAGA
1 AATAAAAAAAAGA
27605718 AATAAAAAAAAGA
1 AATAAAAAAAAGA
27605731 AATA
1 AATA
27605735 GAGACAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (13 bp):
AATAAAAAAAAGA
Found at i:27608684 original size:14 final size:15
Alignment explanation
Indices: 27608665--27608697 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27608655 AGTGTTTATT
27608665 TTTAATATA-ATATG
1 TTTAATATATATATG
*
27608679 TTTAATATATATATT
1 TTTAATATATATATG
27608694 TTTA
1 TTTA
27608698 TTACACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAATATATATATG
Found at i:27610602 original size:71 final size:72
Alignment explanation
Indices: 27610516--27610672 Score: 181
Period size: 71 Copynumber: 2.2 Consensus size: 72
27610506 CTTCAGACCT
* * * * * *
27610516 AAAGGGAGAACATTCAGCCATCAATATTGCGATAACAACCACTTAATGTCGCGACAAC-AAATTT
1 AAAGGGAG--CATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTT
27610580 CAAACCTAG
64 CAAACCTAG
* * **
27610589 AAAGGGAGCATTCAGCCTTCAATGTCGCAACAACAACCACTCAATGTCACAACAACAAAATTTGT
1 AAAGGGAGCATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTTCA
*
27610654 AACCTAT
66 AACCTAG
*
27610661 AAAAGGAGCATT
1 AAAGGGAGCATT
27610673 TAGTCATCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
71 40 0.56
72 23 0.32
73 8 0.11
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (72 bp):
AAAGGGAGCATTCAGCCATCAATATCGCAACAACAACCACTCAATGTCACAACAACAAAATTTCA
AACCTAG
Found at i:27614500 original size:20 final size:20
Alignment explanation
Indices: 27614472--27614538 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
27614462 ACATGCCACT
*
27614472 ATCGTACTTTGGTACCCCTG
1 ATCGCACTTTGGTACCCCTG
** *
27614492 ATCGCACTTACGTGCCCCTG
1 ATCGCACTTTGGTACCCCTG
* *
27614512 -TCGTACTTTGGTA-CCTTG
1 ATCGCACTTTGGTACCCCTG
27614530 ATCGCACTT
1 ATCGCACTT
27614539 ACGTGCCTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 16 0.44
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (20 bp):
ATCGCACTTTGGTACCCCTG
Found at i:27614502 original size:39 final size:39
Alignment explanation
Indices: 27614448--27614623 Score: 178
Period size: 39 Copynumber: 4.5 Consensus size: 39
27614438 ATAATTATAT
* *
27614448 CCCTGATCGCACTTACATGCCACTATCGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
*
27614487 CCCTGATCGCACTTACGTGCCCCTGTCGTACTTTGGTA-
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
* * * * *
27614525 CCTTGATCGCACTTACGTGCCTCTGTCATACTTCGGCAC
1 CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
* * *
27614564 CTCTGATTGCACTTATGTGCC-CT-TGCTGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCACTGT-C-GTACTTTGGTAC
* * * *
27614603 TCTTGATAGCACTTTCGTGCC
1 CCCTGATCGCACTTACGTGCC
27614624 GTGGTAATGT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 36 0.32
39 76 0.67
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCACTGTCGTACTTTGGTAC
Found at i:27614578 original size:77 final size:78
Alignment explanation
Indices: 27614451--27614623 Score: 215
Period size: 77 Copynumber: 2.2 Consensus size: 78
27614441 ATTATATCCC
* * * *
27614451 TGATCGCACTTACATGCCACTATCGTACTTTGGTACCCCTGATCGCACTTACGTGCCCCTG-TCG
1 TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCT-G
27614515 TACTTTGGTAC-CT
65 TACTTTGGTACTCT
* * * * * *
27614528 TGATCGCACTTACGTGCCTCTGTCATACTTCGGCACCTCTGATTGCACTTATGTGCCCTTGCTGT
1 TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCTGT
27614593 ACTTTGGTACTCT
66 ACTTTGGTACTCT
* *
27614606 TGATAGCACTTTCGTGCC
1 TGATCGCACTTACGTGCC
27614624 GTGGTAATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
77 63 0.77
78 19 0.23
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.35
Consensus pattern (78 bp):
TGATCGCACTTACGTGCCACTATCATACTTCGGCACCCCTGATCGCACTTACGTGCCCCTGCTGT
ACTTTGGTACTCT
Found at i:27614774 original size:39 final size:39
Alignment explanation
Indices: 27614720--27614888 Score: 205
Period size: 39 Copynumber: 4.4 Consensus size: 39
27614710 TATATCCATT
* *
27614720 ATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* *
27614759 ATCGCACTTACGTGCCCCTGTTGTACTTTGGTA-CCCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* **
27614797 ATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* * * * *
27614836 ATTGCACTTACGTGCCCTTGTTGTACTTCGGTACTCTTG
1 ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
* *
27614875 ATAGCACTTTCGTG
1 ATCGCACTTACGTG
27614889 TCGTGGTTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
38 35 0.32
39 76 0.68
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (39 bp):
ATCGCACTTACGTGCCCCTGTCGTACTTCGGTACCCCTG
Found at i:27614824 original size:19 final size:19
Alignment explanation
Indices: 27614725--27614824 Score: 78
Period size: 19 Copynumber: 5.2 Consensus size: 19
27614715 CCATTATCGC
* *
27614725 ACTTACGTGCCACTATCGT
1 ACTTACGTGCCCCTGTCGT
* *
27614744 ACTT-CGGTACCCCTGATCGC
1 ACTTAC-GTGCCCCTG-TCGT
*
27614764 ACTTACGTGCCCCTGTTGT
1 ACTTACGTGCCCCTGTCGT
** * *
27614783 ACTTTGGT-ACCCTGATCGC
1 ACTTACGTGCCCCTG-TCGT
27614802 ACTTACGTGCCCCTGTCGT
1 ACTTACGTGCCCCTGTCGT
27614821 ACTT
1 ACTT
27614825 CGGAACATCT
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
18 6 0.10
19 33 0.55
20 20 0.33
21 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.32
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTCGT
Found at i:27614847 original size:77 final size:78
Alignment explanation
Indices: 27614720--27614888 Score: 232
Period size: 77 Copynumber: 2.2 Consensus size: 78
27614710 TATATCCATT
* *
27614720 ATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTGTAC
1 ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
*
27614785 TTTGGTAC-CCTG
66 TTCGGTACTCCTG
* * * * *
27614797 ATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTGATTGCACTTACGTGCCCTTGTTGTAC
1 ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
*
27614862 TTCGGTACTCTTG
66 TTCGGTACTCCTG
* *
27614875 ATAGCACTTTCGTG
1 ATCGCACTTACGTG
27614889 TCGTGGTTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 65 0.81
78 15 0.19
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (78 bp):
ATCGCACTTACGTGCCACTATCGTACTTCGGAACACCTGATCGCACTTACGTGCCCCTGTTGTAC
TTCGGTACTCCTG
Found at i:27614871 original size:267 final size:267
Alignment explanation
Indices: 27614387--27614918 Score: 920
Period size: 267 Copynumber: 2.0 Consensus size: 267
27614377 AAATTATATC
*
27614387 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCCT
1 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
*
27614452 GATCGCACTTACATGCCACTATCGTACTTTGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
66 GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
* * * * *
27614517 CTTTGGTACCTTGATCGCACTTACGTGCCTCTGTCATACTTCGGCACCTCTGATTGCACTTATGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
*
27614582 GCCCTTGCTGTACTTTGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
196 GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
27614647 ATTAATT
261 ATTAATT
*
27614654 ATTTTATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
1 ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
* * *
27614719 TATCGCACTTACGTGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTTGTA
66 GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
*
27614784 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCGTACTTCGGAACATCTGATTGCACTTACGT
131 CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
* * *
27614849 GCCCTTGTTGTACTTCGGTACTCTTGATAGCACTTTCGTGTCGTGGTTATGTTTCGGTAACATTT
196 GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
27614914 ATTAA
261 ATTAA
27614919 GAAAAATAAT
Statistics
Matches: 249, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
267 249 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (267 bp):
ATTTAATTTCCTTATGTATTTGTATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCAT
GATCGCACTTACATGCCACTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTGTCGTA
CTTTGGTACCCTGATCGCACTTACGTGCCCCTGTCATACTTCGGAACATCTGATTGCACTTACGT
GCCCTTGCTGTACTTCGGTACTCTTGATAGCACTTTCGTGCCGTGGTAATGTTTCGGTAACATTT
ATTAATT
Found at i:27627748 original size:28 final size:28
Alignment explanation
Indices: 27627716--27627774 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
27627706 AGGAAGAAGA
27627716 GTAGTCGAGGGGATTATCCAAGACCATT
1 GTAGTCGAGGGGATTATCCAAGACCATT
*
27627744 GTAGTCGAGGGGGTTATCCAAGACCATT
1 GTAGTCGAGGGGATTATCCAAGACCATT
27627772 GTA
1 GTA
27627775 AAATATGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
GTAGTCGAGGGGATTATCCAAGACCATT
Found at i:27638639 original size:38 final size:38
Alignment explanation
Indices: 27638595--27638667 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
27638585 TAAAATTGTG
* *
27638595 AAAATCACTTGAAGTAACTAGAGCCTTATCTTTAAAGA
1 AAAATCACTTAAAGTAACTAGAGCCTTATCATTAAAGA
*
27638633 AAAATCACTTAAAGTGACTAGAGCCTTATCATTAA
1 AAAATCACTTAAAGTAACTAGAGCCTTATCATTAA
27638668 GGCGGTAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (38 bp):
AAAATCACTTAAAGTAACTAGAGCCTTATCATTAAAGA
Found at i:27640932 original size:27 final size:27
Alignment explanation
Indices: 27640915--27641220 Score: 269
Period size: 27 Copynumber: 11.3 Consensus size: 27
27640905 GTATAACAAC
*
27640915 CATTTTACCCTATAGGGGTATTTCTGT
1 CATTTTACCCTATAGGGGTATTTCAGT
27640942 CATTTTACCCTAT-GAGGGTATTTCAGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* *
27640969 CATTTTACCTTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
* * * *
27640996 CACTTTACCATAT-GCAGGTATTTCGGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* * * *
27641023 CACTTTACCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
*** * **
27641050 CGCGTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
*
27641077 TATTTTACCCTAT-GAGGGTATTTCAGT
1 CATTTTACCCTATAG-GGGTATTTCAGT
* * *
27641104 TATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
** * *
27641131 CATTTTATACTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
**
27641158 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCAGT
** * *
27641185 CATTTTACTTTATGGGGGTA-TTCTGGT
1 CATTTTACCCTATAGGGGTATTTC-AGT
27641212 CATTTTACC
1 CATTTTACC
27641221 TGTTTTGGGG
Statistics
Matches: 238, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.02
27 231 0.97
28 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCAGT
Found at i:27640973 original size:54 final size:54
Alignment explanation
Indices: 27640915--27641220 Score: 348
Period size: 54 Copynumber: 5.7 Consensus size: 54
27640905 GTATAACAAC
* * *
27640915 CATTTTACCCTATAGGGGTATTTCTGTCATTTTACCCTATGAGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
* * * *
27640969 CATTTTACCTTATAGGGGTATTTCGGTCACTTTACCATATGCA-GGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-AGGGTATTTCGGT
* * *** * *
27641023 CACTTTACCTTATGGGGGTATTTCGGTCGCGTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
* * * * *
27641077 TATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
** *
27641131 CATTTTATACTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGA-GGGTATTTCGGT
**
27641185 CATTTTACTTTATGGGGGTA-TTCTGGTCATTTTACC
1 CATTTTACCCTATGGGGGTATTTC-GGTCATTTTACC
27641221 TGTTTTGGGG
Statistics
Matches: 214, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.02
54 209 0.98
55 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
Found at i:27641042 original size:81 final size:80
Alignment explanation
Indices: 27640915--27641221 Score: 330
Period size: 81 Copynumber: 3.8 Consensus size: 80
27640905 GTATAACAAC
* * *
27640915 CATTTTACCCTATAGGGGTATTTCTGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCTT
1 CATTTTACCCTAT-GAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
*
27640980 ATAGGGGTATTTCGGT
65 ATGGGGGTATTTCGGT
* * * * * *** *
27640996 CACTTTACCATATGCAGGTATTTCGGTCACTTTACCTTATGGGGGTATTTCGGTCGCGTTACCCT
1 CATTTTACCCTATG-AGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
*
27641061 ATGGGGGTATTTTGGT
65 ATGGGGGTATTTCGGT
* * * * *
27641077 TATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGGTCATTTTATAC-
1 CATTTTACCCTATGA-GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTA-CCT
27641141 TATGGGGGTATTTCGGT
64 TATGGGGGTATTTCGGT
* * ** *
27641158 CATTTTACCCTATAGGGGTATTTTGGTCATTTTACTTTATGGGGGTA-TTCTGGTCATTTTACCT
1 CATTTTACCCTAT-GAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTC-GGTCATTTTACCT
27641222 GTTTTGGGGT
Statistics
Matches: 182, Mismatches: 38, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
80 6 0.03
81 174 0.96
82 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (80 bp):
CATTTTACCCTATGAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTTA
TGGGGGTATTTCGGT
Found at i:27644214 original size:27 final size:26
Alignment explanation
Indices: 27644184--27644545 Score: 295
Period size: 27 Copynumber: 13.5 Consensus size: 26
27644174 GGGATATAAT
*
27644184 AGTCATTTTACCCTATGGGGTTATGTC
1 AGTCATTTTACCCTATGGGG-TATTTC
**
27644211 AGTCATTTTACATTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
* * *
27644238 -GATCATTCTACCTTATGGGGGTATTTT
1 AG-TCATTTTACCCTAT-GGGGTATTTC
* *
27644265 ATTCATTTAACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
27644292 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTAT-GGGGTATTTC
* * * *
27644319 GGTCACTTTACCCTATGGCGATATTTT
1 AGTCATTTTACCCTATGG-GGTATTTC
* *
27644346 GGTCACTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
*
27644373 AGTCATTTTA-CCTATAAGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
27644399 -GATCATTTTACCCTATGGGAGTATTTC
1 AG-TCATTTTACCCTATGGG-GTATTTC
* * * *
27644426 GGTCATTTTACCCTATGAAGTTATTTT
1 AGTCATTTTACCCTATG-GGGTATTTC
* * *
27644453 AATCATTTTACCCTATGGGGGTGTTCC
1 AGTCATTTTACCCTAT-GGGGTATTTC
*
27644480 GGTCATTTTACCCTATGAGGGTATTTTC
1 AGTCATTTTACCCTATG-GGGTA-TTTC
* *
27644508 -GTCATTTTACTCTATAGGGGTATTCTT
1 AGTCATTTTACCCTAT-GGGGTATT-TC
27644535 A-TCATTTTACC
1 AGTCATTTTACC
27644546 TATTTTAAGG
Statistics
Matches: 276, Mismatches: 39, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 30 0.11
27 232 0.84
28 13 0.05
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTC
Found at i:27644271 original size:54 final size:54
Alignment explanation
Indices: 27644186--27644545 Score: 395
Period size: 54 Copynumber: 6.7 Consensus size: 54
27644176 GATATAATAG
* * **
27644186 TCATTTTACCCTATGGGGTTATGTCAGTCATTTTACATTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * * *
27644240 TCATTCTACCTTATGGGGGTATTTTATTCATTTAACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * *
27644294 TCATTTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATG-GCGATATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAG-GGTATTTCGA
* * *
27644348 TCACTTTACCCTATGAGGGTATTTCAGTCATTTTA-CCTATAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * * * **
27644401 TCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGAAGTTATTTTAA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
* * *
27644455 TCATTTTACCCTATGGGGGTGTTCCGGTCATTTTACCCTATGAGGGTATTTTCG-
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTA-TTTCGA
* * *
27644509 TCATTTTACTCTATAGGGGTATTCTTA-TCATTTTACC
1 TCATTTTACCCTATGGGGGTATT-TCAGTCATTTTACC
27644546 TATTTTAAGG
Statistics
Matches: 251, Mismatches: 50, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
53 44 0.18
54 204 0.81
55 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGA
Found at i:27644283 original size:81 final size:81
Alignment explanation
Indices: 27644185--27644545 Score: 381
Period size: 81 Copynumber: 4.5 Consensus size: 81
27644175 GGATATAATA
* ** *
27644185 GTCATTTTACCCTATGGGGTTATGTCAGTCATTTTACATTATGAGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
* *
27644250 TTATGGGGGTATTTTA
66 CTATGGGGGTATTTTG
* * * * * *
27644266 TTCATTTAACCCTATGGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTCGGTCACTTTAC
1 GTCATTTTACCCTATGGGGTTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
* *
27644330 CCTATGGCGATATTTTG
65 CCTATGGGGGTATTTTG
* *
27644347 GTCACTTTACCCTATGAGGG-TATTTCAGTCATTTTA-CCTATAAGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTATG-GGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAC
* *
27644410 CCTATGGGAGTATTTCG
65 CCTATGGGGGTATTTTG
** * * * * * *
27644427 GTCATTTTACCCTATGAAGTTATTTTAATCATTTTACCCTATGGGGGTGTTCCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
* *
27644492 CTATGAGGGTATTTTC
66 CTATGGGGGTATTTTG
* *
27644508 GTCATTTTACTCTATAGGGG-TATTCTTA-TCATTTTACC
1 GTCATTTTACCCTAT-GGGGTTATT-TCAGTCATTTTACC
27644546 TATTTTAAGG
Statistics
Matches: 231, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.00
80 66 0.29
81 155 0.67
82 9 0.04
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGTTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
CTATGGGGGTATTTTG
Found at i:27644986 original size:27 final size:27
Alignment explanation
Indices: 27644956--27645340 Score: 468
Period size: 27 Copynumber: 14.3 Consensus size: 27
27644946 TATAATAGTT
* *
27644956 ATTTTACCCTATGGGGATATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
27644983 ATTTTACCCTATTGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
27645010 ATTTTACCCTATGGGGGTATTTCATTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
27645037 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
27645064 ATTTTACCTTATGAGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
27645091 ATTTTACCCTATGGGGGAATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
27645118 ACTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
27645145 ACTTTACCCTATGGGAGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
** * * *
27645172 ACCTTACGCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
27645199 ATTTTATCCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
27645226 ATTTTACCCTATGTGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
27645253 ATTTTACCCTGTAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
27645280 ATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
27645306 ATTTTACTTTATGGGGGTATTAT-GGTC
1 ATTTTACCCTATGGGGGTATT-TCGGTC
27645333 ATTTTACC
1 ATTTTACC
27645341 TATTTTGGGG
Statistics
Matches: 309, Mismatches: 47, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.07
27 286 0.93
28 1 0.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:27645665 original size:54 final size:53
Alignment explanation
Indices: 27645602--27645703 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
27645592 CACACGGCCC
* *
27645602 ATTTCGGTCATTTTATCCTATGTGGGTATTTCAGTCATTTTATCCTATGGGGCT
1 ATTTCGGTCATTTTATCCTACG-GGGTATTTCAGTCATTTTACCCTATGGGGCT
**
27645656 ATTTCGGTCATTTTATCCTACGGGGTATTTTGGTCATTTTACCCTATG
1 ATTTCGGTCATTTTATCCTACGGGGTATTTCAGTCATTTTACCCTATG
27645704 CAGGAGCTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 23 0.52
54 21 0.48
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.46
Consensus pattern (53 bp):
ATTTCGGTCATTTTATCCTACGGGGTATTTCAGTCATTTTACCCTATGGGGCT
Found at i:27645691 original size:26 final size:26
Alignment explanation
Indices: 27645602--27645703 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 26
27645592 CACACGGCCC
27645602 ATTTCGGTCATTTTATCCTATGTGGGT
1 ATTTCGGTCATTTTATCCTATG-GGGT
*
27645629 ATTTCAGTCATTTTATCCTATGGGGCT
1 ATTTCGGTCATTTTATCCTATGGGG-T
*
27645656 ATTTCGGTCATTTTATCCTACGGGGT
1 ATTTCGGTCATTTTATCCTATGGGGT
* *
27645682 ATTTTGGTCATTTTACCCTATG
1 ATTTCGGTCATTTTATCCTATG
27645704 CAGGAGCTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.34
27 45 0.66
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTTCGGTCATTTTATCCTATGGGGT
Found at i:27645765 original size:46 final size:46
Alignment explanation
Indices: 27645715--27645802 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 46
27645705 AGGAGCTGGG
* * *
27645715 AACCTAAACATGTATTCTCAAGTCTGCAACACATGTAGGAGCCCTA
1 AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGCCCTA
** * * *
27645761 AACCTATTCCTGTAATCTCGAGTCCGCAACATATGCAGGAGC
1 AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGC
27645803 TCAGAACTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (46 bp):
AACCTAAACATGTAATCTCAAGTCCGCAACACATGCAGGAGCCCTA
Found at i:27646841 original size:38 final size:40
Alignment explanation
Indices: 27646754--27646842 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 40
27646744 CATCGGAACA
* *
27646754 GACCAGTTTTTTTTGTAGATTTTTCAGCAACTGAAAGACT
1 GACCAGATTTTTTTATAGATTTTTCAGCAACTGAAAGACT
* *
27646794 GACTC-GATTTTTTTATAGA-TTTTCAGCGA-T-AGAAGATT
1 GAC-CAGATTTTTTTATAGATTTTTCAGCAACTGA-AAGACT
27646832 GACCAGATTTT
1 GACCAGATTTT
27646843 CAAAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 2 0.05
38 15 0.36
39 9 0.21
40 15 0.36
41 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (40 bp):
GACCAGATTTTTTTATAGATTTTTCAGCAACTGAAAGACT
Found at i:27648166 original size:17 final size:17
Alignment explanation
Indices: 27648144--27648180 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27648134 TATGAGATGG
27648144 ATGTTT-AATTCATATAT
1 ATGTTTCAATT-ATATAT
27648161 ATGTTTCAATTATATAT
1 ATGTTTCAATTATATAT
27648178 ATG
1 ATG
27648181 CATGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (17 bp):
ATGTTTCAATTATATAT
Found at i:27654214 original size:347 final size:348
Alignment explanation
Indices: 27653578--27654276 Score: 1303
Period size: 347 Copynumber: 2.0 Consensus size: 348
27653568 ATTTATAACC
27653578 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
1 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
*
27653643 GATTCCAACCGATTGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
66 GATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
*
27653708 TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAACATATTAAATTAAACAACAAACAT
131 TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACAT
27653773 ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
196 ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
*
27653838 TAACATTACATATAAGTTTCAAGTAAATCATGACATACATGTAATAAGGATTTAAGCTTTATATA
261 TAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATATA
27653903 TCATCCATCACATATATATATCA
326 TCATCCATCACATATATATATCA
27653926 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGC-TCTGATGA
1 ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTC-GATGA
* * *
27653990 AGATTCCAACCGATCGAGCCTT-TGATGATCTACAAAATAAGGAAAATAACTATATAAGAAACTA
65 AGATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTA
27654054 GTGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACA
130 GTGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACA
*
27654119 TACTTTCATCATGTCATATGCCAAACTTCTTTTCCTATACACACCACCTCATAAGGTTAGTAAGT
195 TACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGT
27654184 ATAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATAT
260 ATAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATAT
*
27654249 ATCATCCATCACATATATATATCC
325 ATCATCCATCACATATATATATCA
27654273 ATTA
1 ATTA
27654277 CACATTCTTC
Statistics
Matches: 342, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
347 260 0.76
348 82 0.24
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (348 bp):
ATTAGCCCAACTTATTCAAAAGCTACCAAAATAGTCAATGGATAGTGTGGTTGTGCTTCGATGAA
GATTCCAACCGATCGAGCCTTCCGATGATCTACAAAACAAGGAAAACAACTATATAAGAAACTAG
TGCTTAGTAAGGTAGTATAAAGGAAACTTAAACTTACCGAAAATATTAAATTAAACAACAAACAT
ACTTTCATCATGTCATATGCCAAACTTCCTTTCCTATACACACCACCTCATAAGGTTAGTAAGTA
TAACATTACATATAAGTTTCAAGTAAATCATGACATACACGTAATAAGGATTTAAGCTTTATATA
TCATCCATCACATATATATATCA
Found at i:27656656 original size:26 final size:26
Alignment explanation
Indices: 27656626--27656951 Score: 391
Period size: 26 Copynumber: 12.5 Consensus size: 26
27656616 GCTGGTATGG
* *
27656626 TTACCGAAATACCATCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
27656652 TTACCAAAATACCCTCAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
27656678 TTATCGAAATACCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
27656704 TTACTAAAATACCCTCGATGGATAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
27656730 TTACTAAAATACCCTCAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
27656756 CTACCGAACTACCCTCGATGGGAAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
27656782 TCATCGAGATACCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
27656808 TTACCAAAATACCCTTGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* * * *
27656834 TTATCGAAATACACTCGACGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* **
27656860 TTTCCAAAATACCCTTAATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
27656886 TTACCAAAATACCCTGGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
* *
27656912 TTACCGAAATTCCCTCGATGGGTAAA
1 TTACCAAAATACCCTCGATGGGTAAA
*
27656938 TTACTAAAATACCC
1 TTACCAAAATACCC
27656952 CGAGAAGGGT
Statistics
Matches: 250, Mismatches: 50, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 250 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (26 bp):
TTACCAAAATACCCTCGATGGGTAAA
Found at i:27664106 original size:26 final size:26
Alignment explanation
Indices: 27664070--27664187 Score: 191
Period size: 26 Copynumber: 4.5 Consensus size: 26
27664060 GCTCGCGTGG
* *
27664070 TTATTGAAATACCCTCAATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
27664096 TTATCGAAATACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
27664122 TTATCGAAATACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
* *
27664148 TTACCGAATTACCCTCGATGGGTAAA
1 TTATCGAAATACCCTCGATGGGTAAA
*
27664174 TTATTGAAATACCC
1 TTATCGAAATACCC
27664188 CAGAATGATA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
TTATCGAAATACCCTCGATGGGTAAA
Found at i:27664389 original size:27 final size:26
Alignment explanation
Indices: 27664345--27664400 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
27664335 GAGGAAATAT
27664345 TGTTTCTGTGGCTCTGCCACA-ATTAC
1 TGTTTCTGTGGCTCTGCCACATATT-C
*
27664371 TGTTTCTGGTGGCTTTGCCACATATTC
1 TGTTTCT-GTGGCTCTGCCACATATTC
27664398 TGT
1 TGT
27664401 ACTGGCAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 17 0.63
28 3 0.11
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (26 bp):
TGTTTCTGTGGCTCTGCCACATATTC
Found at i:27677271 original size:107 final size:107
Alignment explanation
Indices: 27677066--27677275 Score: 330
Period size: 107 Copynumber: 2.0 Consensus size: 107
27677056 AATCAATACA
* * *
27677066 AAAATAGAAGTGGATAAGGACCACAATCCGATTTCTATAACCCTTCATGGGGAAACCATCCAAAC
1 AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
** * *
27677131 TTTTCTTGGAATAATCAAGGAAATAAACCGAACAACAACACG
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
*
27677173 AAAATAGAAGTGGACAAGGACCACAGTCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
1 AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
* *
27677238 TTTTCTTAAAATAACCAAGAAAATGAACTGAACAACAA
66 TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAA
27677276 TTACATGCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (107 bp):
AAAATAGAAGTGGACAAGGACCACAATCCAATTTCTATAACCCTTCATGGGGAAACCATCCAAAA
TTTTCTTAAAATAACCAAGAAAATAAACCGAACAACAACACG
Found at i:27697767 original size:17 final size:17
Alignment explanation
Indices: 27697745--27697779 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27697735 AATGATAGAC
27697745 TGATTAGAAATTAGGGT
1 TGATTAGAAATTAGGGT
* *
27697762 TGATTATATATTAGGGT
1 TGATTAGAAATTAGGGT
27697779 T
1 T
27697780 ATGGTTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (17 bp):
TGATTAGAAATTAGGGT
Found at i:27700635 original size:54 final size:54
Alignment explanation
Indices: 27700553--27700663 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
27700543 CAGTCTGACC
* *
27700553 CTAAGCTAGCTAGCCCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
1 CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
*
27700607 CTAAGCTAGCTAGCTCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
1 CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
27700661 CTA
1 CTA
27700664 GCTCTATCCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (54 bp):
CTAAGCTAGCTAGCCCACTATTTACTTACCCCAAGCTTTAAATCAAAGACAACT
Found at i:27701623 original size:43 final size:44
Alignment explanation
Indices: 27701567--27701786 Score: 197
Period size: 43 Copynumber: 5.2 Consensus size: 44
27701557 ATATATGTGA
27701567 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCG-TTTCTCAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * **
27701610 AAAAACGCTGCTATAGAAGATGACCTTTAATGGCGCTTTC-C-C
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * * * *
27701652 TACAGACGCCACTATAGAACATGACCTTTAGCGACGCTTT-TCCC
1 -AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * * ** *
27701696 ACAAACGCCGCTAAAGAACATGACCTTCAGTAGCGCTTTC-CCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
* * * *
27701739 ACAAA---CGCTAAAAAACATGACCTTTAGCGGCGCTTTTTCA-
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
27701779 AAAAACGC
1 AAAAACGC
27701787 TTATAACTCC
Statistics
Matches: 142, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
40 31 0.22
41 1 0.01
42 1 0.01
43 104 0.73
44 5 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (44 bp):
AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCTCAC
Found at i:27701673 original size:86 final size:85
Alignment explanation
Indices: 27701569--27701787 Score: 257
Period size: 86 Copynumber: 2.6 Consensus size: 85
27701559 ATATGTGAAA
* *
27701569 AAACGCCGCTATAGAACATGACCTTTAGCGGCG-TTTCTCACAAAAACGCTGCTATAGAAGATGA
1 AAACGCC-CTATAGAACATGACCTTTAGCGGCGCTTT-TCACAAAAACGCTGCTAAAGAACATGA
* * *
27701633 CCTTTAATGGCGCTTTCCCTAC
64 CCTTCAATAGCGCTTTCCCCAC
* * * * *
27701655 AGACGCCACTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCC-CTATAGAACATGACCTTTAGCGGCGCTTTTCACAAAAACGCTGCTAAAGAACATGAC
*
27701720 CTTCAGTAGCGCTTTCCCCAC
65 CTTCAATAGCGCTTTCCCCAC
* *
27701741 AAACG--CTAAAAAACATGACCTTTAGCGGCGCTTTTTCA-AAAAACGCT
1 AAACGCCCTATAGAACATGACCTTTAGCGGCGC-TTTTCACAAAAACGCT
27701788 TATAACTCCC
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
83 30 0.27
84 5 0.04
86 74 0.66
87 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (85 bp):
AAACGCCCTATAGAACATGACCTTTAGCGGCGCTTTTCACAAAAACGCTGCTAAAGAACATGACC
TTCAATAGCGCTTTCCCCAC
Found at i:27701785 original size:40 final size:40
Alignment explanation
Indices: 27701669--27701787 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
27701659 GCCACTATAG
* ** *
27701669 AACATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
1 AACATGACCTTTAGCGGCGCTTTT-CCA-AAA-AACGCTAAAA
* ** * * *
27701712 AACATGACCTTCAGTAGCGCTTTCCCCACAAACGCTAAAA
1 AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCTAAAA
*
27701752 AACATGACCTTTAGCGGCGCTTTTTCAAAAAACGCT
1 AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCT
27701788 TATAACTCCC
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
40 36 0.61
41 2 0.03
42 2 0.03
43 19 0.32
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (40 bp):
AACATGACCTTTAGCGGCGCTTTTCCAAAAAACGCTAAAA
Found at i:27702794 original size:15 final size:15
Alignment explanation
Indices: 27702774--27702804 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27702764 CAAAGGTAAG
27702774 TATGTAGGCTAGCAT
1 TATGTAGGCTAGCAT
27702789 TATGTAGGCTAGCAT
1 TATGTAGGCTAGCAT
27702804 T
1 T
27702805 CTAAAGTGTA
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:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (15 bp):
TATGTAGGCTAGCAT
Found at i:27703774 original size:26 final size:26
Alignment explanation
Indices: 27703744--27703793 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27703734 AAGTATACTA
*
27703744 TACTGGAAACTTTGTTGCGATACTGT
1 TACTGGAAACTTTGCTGCGATACTGT
* **
27703770 TACTGGCAGTTTTGCTGCGATACT
1 TACTGGAAACTTTGCTGCGATACT
27703794 ATTATTGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (26 bp):
TACTGGAAACTTTGCTGCGATACTGT
Found at i:27703809 original size:26 final size:26
Alignment explanation
Indices: 27703753--27703817 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
27703743 ATACTGGAAA
* * *
27703753 CTTTGTTGCGATACTGTTACTGGCAG
1 CTTTGCTGCGATACTATTACTGACAG
* *
27703779 TTTTGCTGCGATACTATTATTGACAG
1 CTTTGCTGCGATACTATTACTGACAG
*
27703805 CTTTGCTACGATA
1 CTTTGCTGCGATA
27703818 TTGGTGTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
CTTTGCTGCGATACTATTACTGACAG
Found at i:27703971 original size:33 final size:33
Alignment explanation
Indices: 27703914--27703977 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
27703904 TGCATTATTG
* * *
27703914 CACTGTACTGATATTGTATTGGGCTAAGGCCCA
1 CACTGTACTGATACTGAATAGGGCTAAGGCCCA
* *
27703947 CACTGTACTGTTACTGAATAGGGCTCAGGCC
1 CACTGTACTGATACTGAATAGGGCTAAGGCC
27703978 AGACTATTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
CACTGTACTGATACTGAATAGGGCTAAGGCCCA
Found at i:27710559 original size:9 final size:9
Alignment explanation
Indices: 27710547--27710676 Score: 86
Period size: 9 Copynumber: 14.6 Consensus size: 9
27710537 TGATATATAT
27710547 TTATGTAAG
1 TTATGTAAG
*
27710556 TTATATAAG
1 TTATGTAAG
*
27710565 TTATGATATG
1 TTATG-TAAG
* ** *
27710575 ATACAT-AT
1 TTATGTAAG
27710583 TTATGTAAG
1 TTATGTAAG
27710592 TTATGTAAG
1 TTATGTAAG
** *
27710601 TTACATAAT
1 TTATGTAAG
*
27710610 TTATGATATG
1 TTATG-TAAG
* * *
27710620 ATATAT-AT
1 TTATGTAAG
27710628 TTATGTAA-
1 TTATGTAAG
27710636 TTATGTAAG
1 TTATGTAAG
*
27710645 TTATATAAG
1 TTATGTAAG
*
27710654 TTATATAAG
1 TTATGTAAG
27710663 TTATGTAAG
1 TTATGTAAG
27710672 TTATG
1 TTATG
27710677 ATCCAAAGTT
Statistics
Matches: 89, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
8 15 0.17
9 64 0.72
10 10 0.11
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27710566 original size:36 final size:36
Alignment explanation
Indices: 27710520--27710675 Score: 145
Period size: 36 Copynumber: 4.1 Consensus size: 36
27710510 ATCCAAAGTT
*
27710520 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATATAAGTTATGATATGATATATATTTATGTAAG
27710556 TTATATAAGTTATGATATGATACATATTTATGTAAGTTATGTAAG
1 TTATATAAGTTATGATATGAT--ATA--TA--T---TTATGTAAG
* *
27710601 TTACATAATTTATGATATGATATATATTTATGTAA-
1 TTATATAAGTTATGATATGATATATATTTATGTAAG
* * * *
27710636 TTATGTAAGTTAT-ATAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATGATATGATATAT-ATTTATGTAAG
27710672 TTAT
1 TTAT
27710676 GATCCAAAGT
Statistics
Matches: 100, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
34 9 0.09
35 19 0.19
36 32 0.32
38 3 0.03
39 1 0.01
40 2 0.02
41 2 0.02
42 1 0.01
43 3 0.03
45 28 0.28
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (36 bp):
TTATATAAGTTATGATATGATATATATTTATGTAAG
Found at i:27710573 original size:27 final size:26
Alignment explanation
Indices: 27710519--27710675 Score: 84
Period size: 27 Copynumber: 5.9 Consensus size: 26
27710509 GATCCAAAGT
* * *
27710519 TTTATGTAAGTTATGATATGATATATA
1 TTTATATAAGTTAT-ATAAGTTATATA
*
27710546 TTTATGTAAGTTATATAAGTTATGATA
1 TTTATATAAGTTATATAAGTTAT-ATA
* * * * *
27710573 -TGATACATATTTATGTAAGTTATGTAA
1 TTTATATA-AGTTATATAAGTTATAT-A
* * * * *
27710600 GTTACATAATTTATGATATGATATATA
1 TTTATATAAGTTAT-ATAAGTTATATA
* *
27710627 TTTATGTAA-TTATGTAAGTTATATAA
1 TTTATATAAGTTATATAAGTTATAT-A
* *
27710653 GTTATATAAGTTATGTAAGTTAT
1 TTTATATAAGTTATATAAGTTAT
27710676 GATCCAAAGT
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
25 8 0.08
26 24 0.24
27 57 0.57
28 11 0.11
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (26 bp):
TTTATATAAGTTATATAAGTTATATA
Found at i:27710596 original size:45 final size:44
Alignment explanation
Indices: 27710547--27710657 Score: 186
Period size: 45 Copynumber: 2.5 Consensus size: 44
27710537 TGATATATAT
27710547 TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
1 TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
* * *
27710591 GTTATGTAAGTTACATAATTTATGATATGATATATATTTATGTAA
1 -TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
27710636 TTATGTAAGTTATATAAGTTAT
1 TTATGTAAGTTATATAAGTTAT
27710658 ATAAGTTATG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 20 0.33
45 41 0.67
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (44 bp):
TTATGTAAGTTATATAAGTTATGATATGATACATATTTATGTAA
Found at i:27710746 original size:13 final size:13
Alignment explanation
Indices: 27710728--27710754 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27710718 TGATTATCAT
27710728 CTTTAAATTTTAA
1 CTTTAAATTTTAA
27710741 CTTTAAATTTTAA
1 CTTTAAATTTTAA
27710754 C
1 C
27710755 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:27712038 original size:27 final size:28
Alignment explanation
Indices: 27712008--27712063 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
27711998 TGTAATATAA
*
27712008 TAAAAAAAATTACATTAGATATA-ATTT
1 TAAAAAAAATTACATTAAATATATATTT
27712035 TAAAAAAAATTACATTAAATATATATTT
1 TAAAAAAAATTACATTAAATATATATTT
27712063 T
1 T
27712064 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAAAAAAATTACATTAAATATATATTT
Found at i:27714736 original size:18 final size:18
Alignment explanation
Indices: 27714713--27714755 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27714703 ATAGACAGTT
27714713 GAATAAGT-TGACTATTAA
1 GAATAAGTAT-ACTATTAA
*
27714731 GAATAAGTATCCTATTAA
1 GAATAAGTATACTATTAA
27714749 GAATAAG
1 GAATAAG
27714756 AGAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (18 bp):
GAATAAGTATACTATTAA
Found at i:27731303 original size:31 final size:32
Alignment explanation
Indices: 27731246--27731305 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
27731236 ATATATAAAA
**
27731246 AAAAGAATGAAAGAACAAAGGTAAGTTTGTTC
1 AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
27731278 AAAAGAAT-AAA-AAGCAAAGAAAAGTTTG
1 AAAAGAATGAAAGAA-CAAAGAAAAGTTTG
27731306 CCCAAAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (32 bp):
AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
Found at i:27748052 original size:66 final size:66
Alignment explanation
Indices: 27747954--27748079 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
27747944 GCTGTAGCTA
* * * * ** * *
27747954 GAGTTCGTCATATTTTCGGTTTGCCTTTTCTTTCCTCGTTGCTGCCTCCGCTTTAAGTTGTAGCG
1 GAGTTCATCATATTTTCGCTTAGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTGTAGCG
27748019 G
66 G
* *
27748020 GAGTTCATCATATTTTC-CTTGAGCCTCTTCTTTTCTCAATGATGCTTCCACTTTAAGTTG
1 GAGTTCATCATATTTTCGCTT-AGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTG
27748080 AGCAATTTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
65 2 0.04
66 47 0.96
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.44
Consensus pattern (66 bp):
GAGTTCATCATATTTTCGCTTAGCCTCTTCTTTCCTCAATGATGCCTCCACTTTAAGTTGTAGCG
G
Found at i:27756557 original size:61 final size:61
Alignment explanation
Indices: 27756492--27756682 Score: 214
Period size: 61 Copynumber: 3.2 Consensus size: 61
27756482 ATTTTATAGT
27756492 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
* ** * * * * * * *
27756553 ATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-TATTTTA-TAGT
1 ATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGAATTTTATTA-A
27756612 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
27756673 ATTATATATT
1 ATTATATATT
27756683 TTTGTTAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
58 11 0.11
59 26 0.26
60 16 0.16
61 36 0.36
62 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
Found at i:27756583 original size:120 final size:120
Alignment explanation
Indices: 27756442--27756763 Score: 617
Period size: 120 Copynumber: 2.7 Consensus size: 120
27756432 ATACTAAGAA
*
27756442 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
27756507 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
*
27756562 TTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
27756627 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
*
27756682 TTTTGTTAAATTATATTTAATAATTATTATTTTAAGTTATATTTTATAGTATTATATATTATGAT
1 TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
27756747 TTTAGTAAATTCATATA
66 TTTAGTAAATTCATATA
27756764 TTTTATTAAA
Statistics
Matches: 198, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 198 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
Found at i:27756685 original size:18 final size:17
Alignment explanation
Indices: 27756663--27756797 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
27756653 AATACTAAGA
27756663 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
27756680 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
*
27756696 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
* *
27756710 ATTTTAAGTTATATTTTAT
1 ATTTT-A-TTAAATTATAT
* * *
27756729 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
27756745 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
27756763 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
27756780 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
27756798 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 8 0.09
16 11 0.12
17 17 0.18
18 41 0.45
19 3 0.03
20 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:27756736 original size:15 final size:14
Alignment explanation
Indices: 27756691--27756747 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
27756681 TTTTTGTTAA
*
27756691 ATTATATTTAATA-
1 ATTATATTTTATAG
27756704 ATTATTATTTTA-AG
1 ATTA-TATTTTATAG
27756718 -TTATATTTTATAG
1 ATTATATTTTATAG
*
27756731 TATTATATATTAT-G
1 -ATTATATTTTATAG
27756745 ATT
1 ATT
27756748 TTAGTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.19
13 13 0.35
14 7 0.19
15 10 0.27
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
ATTATATTTTATAG
Found at i:27757022 original size:44 final size:46
Alignment explanation
Indices: 27756952--27757043 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
27756942 TTATTACACA
* * *
27756952 TCTATTCCATTCAACCGAACACAAGAA-TACC-ATTACGCCTCTAT
1 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
*
27756996 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCTTCTAT
1 TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
27757042 TC
1 TC
27757044 CATTACACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 25 0.60
45 4 0.10
46 13 0.31
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.29
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACAAAAGAATTACCTATCACGCCTCTAT
Found at i:27758409 original size:72 final size:71
Alignment explanation
Indices: 27758332--27758554 Score: 205
Period size: 72 Copynumber: 3.1 Consensus size: 71
27758322 AATAAAGGAT
* ** * * *
27758332 TTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATC-TTCTCAAAACATATAACTTGAA
1 TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAA-TTGAA
27758396 TAAACGG
65 TAAACGG
* * ** * *
27758403 CTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAACACATAATTGAA
1 -TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAA
27758468 TAAACGG
65 TAAACGG
* ** * * * **
27758475 TTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTTAAAAACTTATAATTGAA
1 TT-TACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAA
* *
27758540 CAAGCGG
65 TAAACGG
27758547 TTTTACTT
1 -TTTACTT
27758555 TGTATAACAG
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
71 2 0.02
72 109 0.87
73 15 0.12
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (71 bp):
TTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACACATAATTGAAT
AAACGG
Found at i:27758650 original size:99 final size:99
Alignment explanation
Indices: 27758465--27758653 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 99
27758455 ACACATAATT
* * * * *
27758465 GAATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTTAAAAACT
1 GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
* * * *
27758530 TATAATTGAACAAGCGGTTTTACTTTGTATAACA
66 CATAATTAAACAAACGATTTTACTTTGTATAACA
*
27758564 GAATAAATGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAA-T
1 GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
*
27758628 ACATAATTAAATAAACGATTTTACTT
66 -CATAATTAAACAAACGATTTTACTT
27758654 GATAATTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (99 bp):
GAATAAACGGTGCCACTTAATATCAAAACTCAATAAATAGAACTAAATTAACCTTTTTAAAAACT
CATAATTAAACAAACGATTTTACTTTGTATAACA
Found at i:27760854 original size:37 final size:37
Alignment explanation
Indices: 27760804--27760887 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
27760794 TGTATCAAAT
* *
27760804 AAAAGGGAATTGGGAAAAATGGCACCGTTTGCGGAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
*
27760841 AAAAGGGAATTGGGAAAAACGGCATCGTTTGCGAAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
27760878 AAAAGGGAAT
1 AAAAGGGAAT
27760888 CAGTTTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.33, T:0.15
Consensus pattern (37 bp):
AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
Found at i:27769087 original size:17 final size:18
Alignment explanation
Indices: 27769051--27769105 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
27769041 ATTATAAAAA
**
27769051 AAATT-ATAAATAATAAT
1 AAATTAATAAATTTTAAT
*
27769068 AAA-TAATAAATTTTATT
1 AAATTAATAAATTTTAAT
*
27769085 AAATTATTAAATTTTAAT
1 AAATTAATAAATTTTAAT
27769103 AAA
1 AAA
27769106 AATTTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 15 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAATAAATTTTAAT
Found at i:27769110 original size:12 final size:12
Alignment explanation
Indices: 27769093--27769122 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27769083 TTAAATTATT
27769093 AAATTTTAATAA
1 AAATTTTAATAA
*
27769105 AAATTTTATTAA
1 AAATTTTAATAA
27769117 AAATTT
1 AAATTT
27769123 GAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTTAATAA
Found at i:27772364 original size:12 final size:12
Alignment explanation
Indices: 27772349--27772374 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27772339 GAAGATAATT
27772349 GAGAAGAAAACA
1 GAGAAGAAAACA
27772361 GAGAAGAAAACA
1 GAGAAGAAAACA
27772373 GA
1 GA
27772375 TAGAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGAAGAAAACA
Found at i:27775729 original size:40 final size:40
Alignment explanation
Indices: 27775654--27776003 Score: 630
Period size: 40 Copynumber: 8.8 Consensus size: 40
27775644 GTTATGATTA
27775654 TTGATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
27775693 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
27775733 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
27775773 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
27775813 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
27775853 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
27775893 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
27775933 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
* *
27775973 TTGATATGTTCGGGCTAAGACCCGAAGGCAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAA
27776004 ATGTGTTTGC
Statistics
Matches: 302, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 19 0.06
40 283 0.94
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
Found at i:27790302 original size:17 final size:17
Alignment explanation
Indices: 27790277--27790319 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
27790267 ATAAATGGAT
*
27790277 CTTTGTAGCTTGCATAC
1 CTTTCTAGCTTGCATAC
27790294 CTTTCTAGCTTGCATAC
1 CTTTCTAGCTTGCATAC
27790311 CTTTCTAGC
1 CTTTCTAGC
27790320 ATCCTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (17 bp):
CTTTCTAGCTTGCATAC
Found at i:27793807 original size:12 final size:13
Alignment explanation
Indices: 27793790--27793818 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27793780 CTCATACATA
27793790 AATAAATAAA-GC
1 AATAAATAAATGC
27793802 AATAAATAAATGC
1 AATAAATAAATGC
27793815 AATA
1 AATA
27793819 GTTATAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:27796355 original size:47 final size:47
Alignment explanation
Indices: 27796283--27796876 Score: 858
Period size: 47 Copynumber: 12.6 Consensus size: 47
27796273 CCCTTTGGGA
* * *
27796283 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27796330 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27796377 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTC-GC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27796423 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
27796470 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27796517 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
27796564 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
27796611 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27796660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
27796707 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
27796754 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
27796801 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27796850 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27796877 TATTCAAATA
Statistics
Matches: 512, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 43 0.08
47 379 0.74
49 89 0.17
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:27796720 original size:190 final size:190
Alignment explanation
Indices: 27796283--27796876 Score: 889
Period size: 190 Copynumber: 3.1 Consensus size: 190
27796273 CCCTTTGGGA
* * * *
27796283 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
27796348 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATT
* *
27796413 GGCCATTC-GCCTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
27796470 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCA-GCCTTATCTCATATATGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATAC
* *
27796533 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCAC
64 ACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCAC
27796597 ATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
128 ATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
27796660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * *
27796725 TTTCACATTCATCACATCGACTATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACAT
* * *
27796789 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
130 TGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
27796850 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27796877 TATTCAAATA
Statistics
Matches: 368, Mismatches: 28, Indels: 19
0.89 0.07 0.05
Matches are distributed among these distances:
186 2 0.01
187 121 0.33
188 10 0.03
189 1 0.00
190 230 0.62
191 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATT
GGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:27798268 original size:85 final size:85
Alignment explanation
Indices: 27798139--27798317 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
27798129 TATTTTATTG
*
27798139 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
27798204 TAGCCATAACATCTTGTCCA
66 CAGCCATAACATCTTGTCCA
27798224 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
27798289 CAGCCATAACATCTTGTCCA
66 CAGCCATAACATCTTGTCCA
27798309 CCCATGCTC
1 CCCATGCTC
27798318 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
CAGCCATAACATCTTGTCCA
Found at i:27802488 original size:37 final size:38
Alignment explanation
Indices: 27802447--27802529 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
27802437 CTCCTATACC
27802447 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAAT-
1 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
* ** ** *
27802484 TCAAATTTTACAATTTTTATGATTTAGTCCTTAAAATA
1 TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
27802522 TCAAATTT
1 TCAAATTT
27802530 ACACAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 31 0.79
38 8 0.21
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (38 bp):
TCAAATTTTAAAATTTTTACAAAATAGTCCCTAAAATA
Found at i:27803113 original size:61 final size:61
Alignment explanation
Indices: 27803036--27803156 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
27803026 TCAATTAGAA
*
27803036 CATAGAAAATAGTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
1 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
27803097 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAA
1 CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAA
27803157 TAAACATAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (61 bp):
CATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAAAC
Found at i:27814330 original size:25 final size:25
Alignment explanation
Indices: 27814301--27814351 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27814291 ATAGCGGAGT
27814301 TTGCCTACAATAATAGCTTCCAGTC
1 TTGCCTACAATAATAGCTTCCAGTC
27814326 TTGCCTACAATAATAGCTTCCAGTC
1 TTGCCTACAATAATAGCTTCCAGTC
27814351 T
1 T
27814352 AACATCCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (25 bp):
TTGCCTACAATAATAGCTTCCAGTC
Found at i:27818325 original size:50 final size:50
Alignment explanation
Indices: 27818250--27818533 Score: 263
Period size: 50 Copynumber: 5.7 Consensus size: 50
27818240 CATTTGGGTA
* *
27818250 AAGAGTTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
27818300 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
27818350 AAGAGGTCCCATGTAAGACCATATCTGAGACATGGTGTTAGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * * *
27818400 GAGAGGTCTCC-CGTAAGATCATGTCT-GGACATGACATGGGCACCGATG-T
1 AAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GAT
* ** * * * * * *
27818449 GAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** *
27818498 AAAACATCCCATGTAAGACCATGTCTGGGATATGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
27818534 CCAAGTATTC
Statistics
Matches: 195, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.01
49 64 0.33
50 127 0.65
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:27824978 original size:50 final size:50
Alignment explanation
Indices: 27824903--27825194 Score: 345
Period size: 50 Copynumber: 5.9 Consensus size: 50
27824893 CATTTGGGTA
*
27824903 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27824953 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27825003 AAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
27825053 GAGAGGTCCCCCGTAAGACCATGTCTCGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * *
27825103 GAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** * *
27825152 AAAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
27825195 TGTTATCATC
Statistics
Matches: 211, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
48 1 0.00
49 38 0.18
50 172 0.82
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:27848190 original size:40 final size:40
Alignment explanation
Indices: 27848145--27848527 Score: 645
Period size: 40 Copynumber: 9.8 Consensus size: 40
27848135 CAAGCTCAAT
* * * *
27848145 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
27848185 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848225 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
27848265 TGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
27848305 TGCCTTCGGGTCTTAGCCTGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848345 TGCCTTCGGGT-TTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848384 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848424 TGCCTTCGGGTCTTAGCCCGGATATA-CAACT-GCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848462 TGCCTTC-GGT-TTAG-CCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
27848499 TGCCTTCGGGT-TTAGCCCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
27848528 TTGCTCATGC
Statistics
Matches: 326, Mismatches: 12, Indels: 11
0.93 0.03 0.03
Matches are distributed among these distances:
35 9 0.03
36 9 0.03
37 17 0.05
38 21 0.06
39 56 0.17
40 214 0.66
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:27848540 original size:119 final size:118
Alignment explanation
Indices: 27848145--27848527 Score: 648
Period size: 119 Copynumber: 3.3 Consensus size: 118
27848135 CAAGCTCAAT
* * * *
27848145 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
27848210 ATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
66 ATCAAC-TGCACAAATGCCTTCGGGT-TTAGCCCGGATATATCAACTCGCACAAA
* *
27848265 TGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCTGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
27848330 ATCAACTCGCACAAATGCCTTCGGGTTTAGCCCGGATATATCAACTCGCACAAA
66 ATCAACT-GCACAAATGCCTTCGGGTTTAGCCCGGATATATCAACTCGCACAAA
27848384 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
27848449 A-CAACTGCACAAATGCCTTC-GGTTTAG-CCGGATATATCAACTCGCACAAA
66 ATCAACTGCACAAATGCCTTCGGGTTTAGCCCGGATATATCAACTCGCACAAA
27848499 TGCCTTCGGGT-TTAGCCCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
27848528 TTGCTCATGC
Statistics
Matches: 253, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
114 18 0.07
115 34 0.13
116 7 0.03
117 14 0.06
118 5 0.02
119 93 0.37
120 82 0.32
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (118 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTGCACAAATGCCTTCGGGTTTAGCCCGGATATATCAACTCGCACAAA
Found at i:27852142 original size:14 final size:14
Alignment explanation
Indices: 27852123--27852152 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27852113 TGGAGGAAGA
27852123 TTGAGAGGTTCCAT
1 TTGAGAGGTTCCAT
27852137 TTGAGAGGTTCCAT
1 TTGAGAGGTTCCAT
27852151 TT
1 TT
27852153 ATTTTTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (14 bp):
TTGAGAGGTTCCAT
Found at i:27854577 original size:68 final size:67
Alignment explanation
Indices: 27854468--27854607 Score: 226
Period size: 68 Copynumber: 2.1 Consensus size: 67
27854458 TAATTTATGT
* * *
27854468 ATGATTTTGTAGCTGCCTAATTATGATTTTGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGA-
*
27854533 GAA
65 AAA
*
27854536 ATGATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAA
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAA
27854601 AA
66 AA
27854603 ATGAT
1 ATGAT
27854608 ACATCATATT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 7 0.10
68 60 0.90
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (67 bp):
ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAA
AA
Found at i:27856249 original size:19 final size:19
Alignment explanation
Indices: 27856225--27856304 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
27856215 TATTAAGAAT
27856225 TTTATTAAATTATATATTA
1 TTTATTAAATTATATATTA
27856244 TTTATTAAATTATAT-TTA
1 TTTATTAAATTATATATTA
* * * * *
27856262 ATAATTATTATTTTAAATTA
1 TTTATTA-AATTATATATTA
*
27856282 -TTATTAAATTATTTATTA
1 TTTATTAAATTATATATTA
27856300 TTTAT
1 TTTAT
27856305 ATTAATAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 16 0.33
19 29 0.60
20 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTAAATTATATATTA
Found at i:27856255 original size:24 final size:23
Alignment explanation
Indices: 27856232--27856299 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
27856222 AATTTTATTA
27856232 AATTATATATTATTTATTAAATT
1 AATTATATATTATTTATTAAATT
*
27856255 ATATT-TAATAATTATTATTTTAAATT
1 A-ATTAT-AT-ATTATT-TATTAAATT
*
27856281 -ATTATTAAATTATTTATTA
1 AATTA-TATATTATTTATTA
27856300 TTTATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
23 6 0.17
24 14 0.39
25 7 0.19
26 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTATATATTATTTATTAAATT
Found at i:27856280 original size:13 final size:13
Alignment explanation
Indices: 27856248--27856294 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
27856238 ATATTATTTA
27856248 TTAAATTA-TATT
1 TTAAATTATTATT
*
27856260 TAATAATTATTATT
1 TTA-AATTATTATT
27856274 TTAAATTATTA--
1 TTAAATTATTATT
27856285 TTAAATTATT
1 TTAAATTATT
27856295 TATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 10 0.32
12 2 0.06
13 13 0.42
14 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAATTATTATT
Found at i:27856510 original size:16 final size:16
Alignment explanation
Indices: 27856489--27856527 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27856479 AATTGAATTA
*
27856489 CTATTATGCCTCTATT
1 CTATTACGCCTCTATT
27856505 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
27856521 CTATTAC
1 CTATTAC
27856528 AGCGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.05, T:0.46
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:27866413 original size:12 final size:12
Alignment explanation
Indices: 27866396--27866423 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27866386 TCTAAATAAC
27866396 ATTAAACCAACA
1 ATTAAACCAACA
27866408 ATTAAACCAACA
1 ATTAAACCAACA
27866420 ATTA
1 ATTA
27866424 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:27866484 original size:51 final size:51
Alignment explanation
Indices: 27866408--27866522 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
27866398 TAAACCAACA
27866408 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTA-AATAAC
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGG-ACAATAAC
*
27866459 ATTAAACCAACAATTATACGTACACCAACAATGTTTTTTAGGGACAATAAC
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAAC
27866510 ATTAAACCAACAA
1 ATTAAACCAACAA
27866523 GTAATTTTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (51 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAAC
Found at i:27866531 original size:33 final size:34
Alignment explanation
Indices: 27866468--27866578 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 34
27866458 CATTAAACCA
* * *
27866468 ACAATTATACGTACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
27866502 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
27866534 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
27866567 TCAATTATACAT
1 ACAATTATACAT
27866579 GCTTTATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
32 9 0.13
33 51 0.76
34 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:27867041 original size:18 final size:17
Alignment explanation
Indices: 27867013--27867047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27867003 ATTATTAAAC
*
27867013 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27867030 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27867048 TCAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27867261 original size:44 final size:45
Alignment explanation
Indices: 27867212--27867302 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27867202 ACCTCTATTC
* * *
27867212 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27867256 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27867301 CA
1 CA
27867303 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27867304 original size:16 final size:16
Alignment explanation
Indices: 27867283--27867351 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
27867273 GATTAGCTAT
27867283 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27867299 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
27867316 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
27867332 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
27867348 TACA
1 TACA
27867352 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27867325 original size:33 final size:32
Alignment explanation
Indices: 27867283--27867351 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
27867273 GATTAGCTAT
27867283 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
27867316 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
27867348 TACA
1 TACA
27867352 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:27882753 original size:23 final size:23
Alignment explanation
Indices: 27882705--27882755 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
27882695 CCACTACCTA
**
27882705 AAGCCTAGGTGCCCCAAATTCTT
1 AAGCCTAGGTGCCCCAAATTAGT
*
27882728 AAGCCTAGGTGCCCCAACTTAGT
1 AAGCCTAGGTGCCCCAAATTAGT
27882751 AAGCC
1 AAGCC
27882756 CATTTCCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (23 bp):
AAGCCTAGGTGCCCCAAATTAGT
Found at i:27893307 original size:14 final size:14
Alignment explanation
Indices: 27893288--27893319 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27893278 GAGTAGGTAT
27893288 GTACTCTGAGGATC
1 GTACTCTGAGGATC
27893302 GTACTCTGAGGATC
1 GTACTCTGAGGATC
27893316 GTAC
1 GTAC
27893320 CCAAGGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (14 bp):
GTACTCTGAGGATC
Found at i:27898752 original size:25 final size:25
Alignment explanation
Indices: 27898735--27898892 Score: 128
Period size: 25 Copynumber: 6.3 Consensus size: 25
27898725 TGGCGTATCA
**
27898735 TTTGGAAATACTTTGTGGCGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
**
27898760 TTTGGAAAGCCCTTT-TGGCCTA-TC
1 TTTGGAAAG-CCTTTGTGGCGAATTC
*
27898784 ATTTGGAAAGCCTATGTGGCGAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* *
27898810 TCTGGAAAGCCTTTGTGGTGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* *
27898835 TATGGAAA-ACTTCTGTGGC--ATATC
1 TTTGGAAAGCCTT-TGTGGCGAAT-TC
* *
27898859 ATTTGGAAAGCCTTTGTGGAGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
*
27898885 TCTGGAAA
1 TTTGGAAA
27898893 TTCTTTATGG
Statistics
Matches: 105, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
23 2 0.02
24 11 0.10
25 80 0.76
26 10 0.10
27 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
TTTGGAAAGCCTTTGTGGCGAATTC
Found at i:27898784 original size:50 final size:50
Alignment explanation
Indices: 27898725--27898820 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
27898715 AAATCCCTCG
* * * *
27898725 TGGCGTATCATTTGGAAATACTTTGTGGCGAATTCTTTGGAAAGCCCTTT
1 TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCCCTTT
*
27898775 TGGCCTATCATTTGGAAAGCCTATGTGGCGAATTCTCTGGAAAGCC
1 TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCC
27898821 TTTGTGGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (50 bp):
TGGCCTATCATTTGGAAAGACTATGTGGCGAATTCTCTGGAAAGCCCTTT
Found at i:27898803 original size:75 final size:75
Alignment explanation
Indices: 27898737--27898892 Score: 199
Period size: 75 Copynumber: 2.1 Consensus size: 75
27898727 GCGTATCATT
* * * *
27898737 TGGAAATACTTTGTGGCGAATTCTTTGGAAAGCCCTT-T-TGGCCTATCATTTGGAAAGCCTATG
1 TGGAAAGACTTTGTGGCGAATTCTATGGAAA--ACTTCTGTGGCATATCATTTGGAAAGCCTATG
27898800 TGGCGAATTCTC
64 TGGCGAATTCTC
* * *
27898812 TGGAAAGCCTTTGTGGTGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTTTGTG
1 TGGAAAGACTTTGTGGCGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTATGTG
* *
27898877 GAGAATTATC
66 GCGAATTCTC
27898887 TGGAAA
1 TGGAAA
27898893 TTCTTTATGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 3 0.04
74 1 0.01
75 66 0.94
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (75 bp):
TGGAAAGACTTTGTGGCGAATTCTATGGAAAACTTCTGTGGCATATCATTTGGAAAGCCTATGTG
GCGAATTCTC
Found at i:27914421 original size:10 final size:10
Alignment explanation
Indices: 27914406--27914445 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
27914396 TCGAAAATAA
27914406 AAAATTAATT
1 AAAATTAATT
27914416 AAAATTAATTAT
1 AAAATTAA-T-T
27914428 AAAATTAATT
1 AAAATTAATT
*
27914438 AATATTAA
1 AAAATTAA
27914446 ACATGTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 16 0.59
11 2 0.07
12 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:27914430 original size:12 final size:12
Alignment explanation
Indices: 27914406--27914438 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27914396 TCGAAAATAA
27914406 AAAATTAA-T-T
1 AAAATTAATTAT
27914416 AAAATTAATTAT
1 AAAATTAATTAT
27914428 AAAATTAATTA
1 AAAATTAATTA
27914439 ATATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 1 0.05
12 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:27918080 original size:22 final size:19
Alignment explanation
Indices: 27918041--27918082 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
27918031 TGCAAAGTTG
27918041 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
27918060 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
27918082 A
1 A
27918083 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:27918203 original size:30 final size:30
Alignment explanation
Indices: 27918145--27918203 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27918135 CTTTTGAAAA
* * *
27918145 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAAATTTTAG
27918175 TATTTACAAAAAGAG-CAACCAAAATTTTA
1 TATTTACAAAAAGAGAC-ACCAAAATTTTA
27918204 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAAATTTTAG
Found at i:27926271 original size:11 final size:11
Alignment explanation
Indices: 27926252--27926289 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
27926242 AAGAGAGAAT
*
27926252 GATGATTGATG
1 GATGATTGAGG
*
27926263 GATGCTTGAGG
1 GATGATTGAGG
27926274 GATGATTGAGG
1 GATGATTGAGG
27926285 GATGA
1 GATGA
27926290 GAGGGTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.42, T:0.29
Consensus pattern (11 bp):
GATGATTGAGG
Found at i:27933285 original size:25 final size:25
Alignment explanation
Indices: 27933253--27933311 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
27933243 ATGAACGATA
*
27933253 AACGGTAAGTTCCTCCAAGTTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
*
27933278 AACGGTAAGTTTCTCCAAGCTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
*
27933303 AACGATAAG
1 AACGGTAAG
27933312 CTCATACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (25 bp):
AACGGTAAGTTCCTCCAAGCTGAAT
Found at i:27935224 original size:21 final size:22
Alignment explanation
Indices: 27935183--27935224 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
27935173 GATTTTTATG
*
27935183 ATTTTCTTTCTTTGTTGTTTTA
1 ATTTTCTTTCTTTGTTATTTTA
27935205 ATTTT-TTTCTTT-TTAATTTT
1 ATTTTCTTTCTTTGTT-ATTTT
27935225 TCTTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (22 bp):
ATTTTCTTTCTTTGTTATTTTA
Found at i:27938031 original size:50 final size:50
Alignment explanation
Indices: 27937869--27938110 Score: 353
Period size: 50 Copynumber: 4.8 Consensus size: 50
27937859 GATAATAACA
* ** * *
27937869 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCTTGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * *
27937920 TGCCCATGCCATGTCCCAGACATGGTCTT--ATGGGGGCCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTCGG
* *
27937969 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
27938019 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
27938069 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27938111 TTACCCAAAA
Statistics
Matches: 172, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
49 36 0.21
50 107 0.62
51 29 0.17
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:27944595 original size:20 final size:20
Alignment explanation
Indices: 27944570--27944610 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27944560 TTAAAAACAC
27944570 TAATTACCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
*
27944590 TAATTATCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
27944610 T
1 T
27944611 GCAGATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTACCAACCTCTTTATT
Found at i:27947625 original size:39 final size:39
Alignment explanation
Indices: 27947558--27947637 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
27947548 TGAAACTGCT
* * *
27947558 ATCAGGAGTACCGAAGTACAAAAAGGGCACGTAATTGCG
1 ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
* * *
27947597 ATCACGAGTATCGAAGCACAACAGGGGCACGTAAGTGCG
1 ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
27947636 AT
1 AT
27947638 TAGGGGAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (39 bp):
ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
Found at i:27947692 original size:39 final size:39
Alignment explanation
Indices: 27947614--27947695 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
27947604 GTATCGAAGC
**
27947614 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACTGAAGT
1 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
* * * *
27947653 ACAACAGGGGCATGTATGTGTGATTAGGGGTACCAAAGT
1 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
27947692 ACAA
1 ACAA
27947696 TAGTTGTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (39 bp):
ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
Found at i:27952009 original size:37 final size:37
Alignment explanation
Indices: 27951939--27952030 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
27951929 ATATGTGTGG
* *
27951939 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGA
1 AATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTGA
*
27951976 AATTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
* *
27952013 AATTAAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
27952031 ATTTGGAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 21 0.44
38 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (37 bp):
AATTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:27956840 original size:39 final size:39
Alignment explanation
Indices: 27956783--27956891 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 39
27956773 CATGGCATGA
* * *
27956783 AAGTGCTATCAAGAGTACCGAAGTACAACAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * *
27956822 AAGTGCAATTAGTGGTACCGAAGTACAATAGGGGCACTT
1 AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
* *
27956861 AAGTGCGATCAGGGGTACCTAAGTACAACAG
1 AAGTGCAATCAGGGGTACCGAAGTACAACAG
27956892 TTATATACTA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (39 bp):
AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
Found at i:27956883 original size:20 final size:20
Alignment explanation
Indices: 27956811--27956884 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
27956801 CGAAGTACAA
*
27956811 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACCTAAGTGCAAT
* * * * *
27956831 TAGTGGTACCGAAGTACAAT
1 CAGGGGCACCTAAGTGCAAT
* *
27956851 -AGGGGCACTTAAGTGCGAT
1 CAGGGGCACCTAAGTGCAAT
*
27956870 CAGGGGTACCTAAGT
1 CAGGGGCACCTAAGT
27956885 ACAACAGTTA
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
CAGGGGCACCTAAGTGCAAT
Found at i:27959717 original size:24 final size:24
Alignment explanation
Indices: 27959688--27959736 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27959678 ATGAAATGAA
27959688 TGTTTTAATGTTCTGTTTGTACGG
1 TGTTTTAATGTTCTGTTTGTACGG
27959712 TGTTTTAATGTTCTGTTTGTACGG
1 TGTTTTAATGTTCTGTTTGTACGG
27959736 T
1 T
27959737 AATGCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.55
Consensus pattern (24 bp):
TGTTTTAATGTTCTGTTTGTACGG
Found at i:27972073 original size:9 final size:10
Alignment explanation
Indices: 27972059--27972096 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
27972049 TGGGACGATT
27972059 CCCTAT-TTA
1 CCCTATATTA
27972068 CCCTATATTA
1 CCCTATATTA
27972078 -CCTAT-TTA
1 CCCTATATTA
27972086 CCCTATATTA
1 CCCTATATTA
27972096 C
1 C
27972097 AGCTACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.12
9 16 0.62
10 7 0.27
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (10 bp):
CCCTATATTA
Found at i:27972083 original size:18 final size:18
Alignment explanation
Indices: 27972060--27972096 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27972050 GGGACGATTC
27972060 CCTATTTACCCTATATTA
1 CCTATTTACCCTATATTA
27972078 CCTATTTACCCTATATTA
1 CCTATTTACCCTATATTA
27972096 C
1 C
27972097 AGCTACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (18 bp):
CCTATTTACCCTATATTA
Found at i:27982547 original size:27 final size:27
Alignment explanation
Indices: 27982517--27982640 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
27982507 CCAAAAATAA
* *
27982517 GGTAAGATGACTAAAATACCCTCGAAG
1 GGTAAAATGACTAAAATACCCTCAAAG
*
27982544 GGTAAAATGACCAAAATACCC-CTAAAG
1 GGTAAAATGACTAAAATACCCTC-AAAG
*
27982571 GGTAAAATGA-TCGAAATACCCTCAAAG
1 GGTAAAATGACT-AAAATACCCTCAAAG
** *
27982598 GGTAAAATGACCGAAATACCCCCAAAG
1 GGTAAAATGACTAAAATACCCTCAAAG
27982625 GGTAAAATGACATAAA
1 GGTAAAATGAC-TAAA
27982641 CACCTCCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 79 0.95
28 3 0.04
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCTCAAAG
Found at i:27982599 original size:54 final size:54
Alignment explanation
Indices: 27982530--27982634 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
27982520 AAGATGACTA
* *
27982530 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCG
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
*
27982584 AAATACCCTCAAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGA
27982635 CATAAACACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (54 bp):
AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
Found at i:27982655 original size:27 final size:27
Alignment explanation
Indices: 27982541--27982672 Score: 119
Period size: 27 Copynumber: 4.9 Consensus size: 27
27982531 AATACCCTCG
* *
27982541 AAGGGTAAAATGACCA-AAATACCCCTA
1 AAGGGTAAAATGA-CAGAAACACCCCCA
* *
27982568 AAGGGTAAAATGATC-GAAATACCCTCA
1 AAGGGTAAAATGA-CAGAAACACCCCCA
* *
27982595 AAGGGTAAAATGACCGAAATACCCCCA
1 AAGGGTAAAATGACAGAAACACCCCCA
* *
27982622 AAGGGTAAAATGACATAAACACCTCCGA
1 AAGGGTAAAATGACAGAAACACC-CCCA
* *
27982650 AA-GGT-AAATCACAGAAATACCCC
1 AAGGGTAAAATGACAGAAACACCCC
27982673 TGTAAGGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 70 0.77
28 5 0.05
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (27 bp):
AAGGGTAAAATGACAGAAACACCCCCA
Found at i:27982656 original size:54 final size:54
Alignment explanation
Indices: 27982530--27982672 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 54
27982520 AAGATGACTA
* * *
27982530 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCG
1 AAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
27982584 AAATACCCTC-AAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA-C-
1 AAATACCCTCGAAA-GGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
* *
27982636 ATAA-ACACCTCCGAAAGGT-AAATCACAGAAATACCCC
1 A-AATAC-CCT-CGAAAGGTAAAATGACCGAAATACCCC
27982673 TGTAAGGTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
52 3 0.04
53 24 0.30
54 49 0.62
55 3 0.04
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (54 bp):
AAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
Found at i:27982708 original size:27 final size:27
Alignment explanation
Indices: 27982678--27982737 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
27982668 ACCCCTGTAA
**
27982678 GGTAAAACGACTTTAATGCCCCTAGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
* *
27982705 GGTAAAATGACCGTAATGCCCCTGGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
27982732 GGTAAA
1 GGTAAA
27982738 TGACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
GGTAAAACGACCGTAATGCCCCTAGAG
Found at i:27982750 original size:26 final size:26
Alignment explanation
Indices: 27982691--27982766 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
27982681 AAAACGACTT
*
27982691 TAATGCCCCTAGAGGGTAAAATGACCG
1 TAATGCCCCTAGAGGGT-AAATGACCA
* *
27982718 TAATGCCCCTGGAGGGTAAATGACTA
1 TAATGCCCCTAGAGGGTAAATGACCA
** * *
27982744 TTTTGCCCCTCGAGGTTAAATGA
1 TAATGCCCCTAGAGGGTAAATGA
27982767 TTGATTTGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 26 0.62
27 16 0.38
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
TAATGCCCCTAGAGGGTAAATGACCA
Done.