Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 145 of 344
Found at i:48354251 original size:47 final size:47
Alignment explanation
Indices: 48354173--48354625 Score: 681
Period size: 47 Copynumber: 9.6 Consensus size: 47
48354163 CCCTTCGGGA
* * * * * * *
48354173 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48354220 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
48354267 CCCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48354314 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48354361 CTCATCACATAAATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48354408 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48354455 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48354504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48354551 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48354600 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
48354626 CACAATTATC
Statistics
Matches: 372, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 281 0.76
49 91 0.24
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48359648 original size:40 final size:40
Alignment explanation
Indices: 48359604--48359812 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 40
48359594 TACTTGCTCG
* * *
48359604 AATGCCTTCGGGGCATAGCCCGG-TTATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
48359644 AATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
48359684 AATGCCTTCGGGACTTAGCCC-GA-TTGGTAAC-CG-AC-
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
48359719 AATG-CTTC-GGA-TT-----GG-TTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
48359750 AATGCCTTCGGGACTTAGCCCAGATTTAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
48359790 AATACCTTTGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
48359813 TTATCATCCG
Statistics
Matches: 144, Mismatches: 10, Indels: 30
0.78 0.05 0.16
Matches are distributed among these distances:
28 8 0.06
29 2 0.01
30 2 0.01
31 4 0.03
32 6 0.04
33 6 0.04
34 6 0.04
35 4 0.03
36 2 0.01
37 2 0.01
38 8 0.06
39 3 0.02
40 89 0.62
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:48367713 original size:40 final size:40
Alignment explanation
Indices: 48367669--48367820 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
48367659 GGATATAGCT
* *
48367669 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
48367709 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
48367749 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
48367789 ACTCGCACAAATGCCTTCAGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
48367821 TTATCATCCG
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 102 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:48379885 original size:35 final size:34
Alignment explanation
Indices: 48379797--48379885 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 34
48379787 ATATGACCGG
48379797 ATATACCAAGTTCATTATATCATCACATATGGCAGA
1 ATATA-CAAGTTCA-TATATCATCACATATGGCAGA
* *
48379833 ATATACAAATTCAATATATCATCACATATGGCCGA
1 ATATACAAGTTC-ATATATCATCACATATGGCAGA
*
48379868 TTATACAAGGTTCATATA
1 ATATACAA-GTTCATATA
48379886 GCTCGATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 38 0.81
36 9 0.19
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (34 bp):
ATATACAAGTTCATATATCATCACATATGGCAGA
Found at i:48387596 original size:35 final size:35
Alignment explanation
Indices: 48387463--48387586 Score: 167
Period size: 35 Copynumber: 3.5 Consensus size: 35
48387453 ATACTTACCT
* * * * *
48387463 ATATGACCGGATATACCAAGTTCATTATATCCTCAC
1 ATATGGCCGAATATA-CAAATTCAATATATCATCAC
**
48387499 ATATAACCGAATATACAAATTCAATATATCATCAC
1 ATATGGCCGAATATACAAATTCAATATATCATCAC
48387534 ATATGGCCGAATATACAAATTCAATATATCATCAC
1 ATATGGCCGAATATACAAATTCAATATATCATCAC
*
48387569 ATATGGCCGATTATACAA
1 ATATGGCCGAATATACAA
48387587 GGTTCATATA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 67 0.84
36 13 0.16
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (35 bp):
ATATGGCCGAATATACAAATTCAATATATCATCAC
Found at i:48390739 original size:11 final size:10
Alignment explanation
Indices: 48390707--48390740 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
48390697 ATCACCTGAA
48390707 AAATGATTTT
1 AAATGATTTT
*
48390717 AAATGGTTTT
1 AAATGATTTT
48390727 AATATGATTTT
1 AA-ATGATTTT
48390738 AAA
1 AAA
48390741 GTCTCCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
AAATGATTTT
Found at i:48392015 original size:592 final size:587
Alignment explanation
Indices: 48390697--48393495 Score: 3229
Period size: 592 Copynumber: 4.7 Consensus size: 587
48390687 AACACCTACG
*
48390697 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
1 ATCACTTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
* * *
48390762 TAGATCTATAATTTTATTTAGGTTATTTAAGTTCTAATTCTTAGCAAAACTTTTAT-TTGTCTCA
66 TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTT-TCTCT
* * * * *
48390826 ACTCGTATAACCCTGAGTTAAACAAAGGAGCTTTAAATACTCAGTATAACTTTTAG-T-AGCTAA
130 ACTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
**
48390889 AGAGTTTTAAATATTCACTTTATGATTTGATAATGTCCATAAAATATTGTGAAATAAATATTTTT
195 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATT-TGAAATAAATATTTTT
** * * *
48390954 ATAAAAGAAA-ATTTCATCTTAAGTTTAAAAGTACTCTGATAACACCTTATAATGATACTGTAAG
259 ATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGT-AG
* * * * * ** *
48391018 GTAAAAAGGAGTTAGTTGTTTTACAATTTCAAGATTCCACTACCAC-ATCCGCTGTCATTATGCC
323 GTAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATTCGCTGTCGCTATACC
* * *
48391082 TCTACTGGACCAGTTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGTAGCTTA
388 TCTACTGGACTACTTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGCAGCTTA
* ** * **
48391147 GGGTGCTTTGTCGCGACTCAAAATCTTTAAAAAAAAGGAACAAAAATAAATATCAATACCTATCC
453 GGGTGCTTCGTAACGGCTCAAAATC-TTCCAAAAAA-GAACAAAAATAAATATCAATACCTATCC
* * * * *
48391212 CCTGGATAAAGCTCCTACGCTATTTTGGTTGTTTTGAGCTCACCGAAGTTCATACTCAACCTCA-
516 CCTGGACAAAGCTCCTACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTAG
48391276 AACATCTCA
581 AAC-TC-CA
* * *
48391285 GATCACCT-AAAAATGTTTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGGTTCTATC
1 -ATCACTTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATC
* * * *
48391349 TTATTTCTATAATTCTATTTAGGTTATTTAAGTTTCAATTCTTAGCAAAACTTTTATCTTTCTTT
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCT
* * * *
48391414 ACGTGTATAATCCTGAGTTAAATAAAGGAGCTTTAAATACTTTGTATAACTTTGAGTTAAAATAA
130 ACTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
* * * *
48391479 AAAGTTTTCAATATTTGTTTTATGATTTGATAATGTCCATAAAATATTTCAAAATAAATATTTTT
195 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTT-GAAATAAATATTTTT
* * *
48391544 ATAAAGGAAATATTTTTTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGACACTGTAGG
259 ATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGG
** * * *
48391609 TAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATGGCAGTACCCCTAGTTCGCTGCCGCTATACC
324 TAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTA-TTCGCTGTCGCTATACC
* * * ****
48391674 TCTACTGGGCTACTTTTTAAACCTATCTCAGAATATTTGAAAAAAAATATCTCACGTGGCAGCTT
388 TCTACTGGACTACTTTTT-AACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGCAGCTT
* * ** * * *
48391739 ATGGTGCTTCGTAACGGCTGAAAAGATTCCAAGAAAGAACAAAAATTAATATCAATACATATCCC
452 AGGGTGCTTCGTAACGGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCCC
* * *
48391804 CTAGACAAAGCTCATGCGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTAGA
517 CTGGACAAAGCTCCTACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTAGA
*
48391869 TTCTTCCA
582 -AC-TCCA
* * * *
48391877 ATCACTTGAAAACTGATTTTAAATGGTTTTAATATGATTTTAAAGTAC-CTAAATTAATTCCATC
1 ATCACTTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGT-CTCCAAATTGATTCTATC
* * * *
48391941 TCATATCTATAATTTGATTTTGGTTATTTAAGTTTTAATTCTTAGCAAAACATTTATCTTTCTCT
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCT
* * * * ** * *
48392006 ACTTGTATAACCTTGAGTTAAGTAAATGAGCTTCAAATACTCCGTATAACTTTGAGTTAAGTTGA
130 ACTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
* *
48392071 AGAGTTTTAAATATTCGTTTTATGATGTGATAATGTCCATAAAAAATTGTGAAATAAATATTTTT
195 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATT-TGAAATAAATATTTTT
* *
48392136 ATAAAAGAAA-ATTTTGGTCTTATGTTTAAATGTGCTCCGATAACACCTTGTAATGATACTGTAG
259 ATAAAAGAAATATTTT-GTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAG
* * ** * * * *
48392200 GT-AAAAAGAGTGAGGTGTTTTACAATTTCAAGATTTCACTATTGTTATTTTGCTGTCGGTATAT
323 GTAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTA-TTCGCTGTCGCTATAC
* * *
48392264 CTCTACTGGACCATTACTTTTTTTTTACCTATTTTAGAATATTAGAAATTTTTTATCTCACGTGG
387 CTCTACTGGA-C--TAC---TTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGG
** ** * * *
48392329 -A-AATAAAGTACTTC-T-ATGTGTCTCAAAATCTTCCAAAAAAGAATAAAAATAAATAAATAAC
446 CAGCTTAGGGTGCTTCGTAACG-G-CTCAAAATCTTCCAAAAAAGAACAAAAATAAAT--AT--C
* * * * * * *
48392390 AATACCTATCTCCTGGACAAAGCTCCTACATTGTTTTGGTTGTTTTTAGCTAGCTGAAATTCATG
505 AATACCTATCCCCTGGACAAAGCTCCTACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATA
*
48392455 CTCAACCTTAGACACCTACA
570 CTCAACCTTAGA-A-CTCCA
* * *
48392475 ATCACCTT-AAAAATTATTTTAAATGGTCTTAATATGATTTTAAAGTCTCCAAATTTATTCTATC
1 ATCA-CTTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATC
* * * * * * * **
48392539 TTAGATCTATAATTTTATTGAGGTTAATTAAGTTTTAGTTCTTAGTAGAACTTTTATTTTTCTAA
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCT
** ** * * *
48392604 ACTCATATAACCCTGAGTTAAGCAAAGGAACTTTAAATACTTAGTATAACTTTGAG-T-AGTTAC
130 ACTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
48392667 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTTGAAATAAATATTTTT
195 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATA-TTTGAAATAAATATTTTT
* * **
48392732 AT-AAA-AAATATTTTGTTTTAAGTTTAAAAGTAC-CCTGATAACACCTTGTAATGATACTACAG
259 ATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCC-GATAACACCTTGTAATGATACTGTAG
* * * * *
48392794 GT-AAAAAGAAGTGAGGTGTTTTACGATTTCAAGATTCCACTACCGTTATTCCACTGTCGCTATG
323 GTAAAAAAG-AGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATT-CGCTGTCGCTATA
* * * * *
48392858 TCTCTACAGGACCAGCTTTTTAACCTATCTTAAAATATTAGAAAATTTTTATCTCACGTTGCAGC
386 CCTCTACTGGACTA-CTTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGCAGC
*
48392923 TTAGGGTGCTTCATCAA-GGCTCAAAATCTT-CAAAAATAGAACAAAAATAAATATCAATACCTA
450 TTAGGGTGCTTCGT-AACGGCTCAAAATCTTCCAAAAA-AGAACAAAAATAAATATCAATACCTA
* * **
48392986 TCCCCTGGACAAAAGCTCCTGCGTTGTTTTGGTCGTTTTGAGCTCGCAAAAGTTCATACTCAA-C
513 TCCCCTGGAC-AAAGCTCCTACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACC
**
48393050 TTCAGACATCTCTG
577 TT-AGA-A-CTCCA
* *
48393064 ATCA-TCTGAAAAATGTTTTTAAATGATTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATC
1 ATCACT-TGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATC
* * *
48393128 TTATTTCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCATAACTTTTATTTTTCTCT
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCT
* * *** * *
48393193 ACCTATATAATATTGAGTTAAATAAAGGAGCTTTGAATACTTCGTATAACTTTGAGTTAAGATAA
130 ACTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
* * *
48393258 AGAGTTCTAAATATTTGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTT
195 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATT-TGAAATAAATATTTTT
* * * * *
48393323 ATAAAAGAAATATTTCGTCTTAAATTTAAAAGTGCTCTGATAACACCTTATAATGATACTGTAGT
259 ATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGG
* * * * * **
48393388 TAAAAAATAATAAGGTGTTTTACAATTTCAAGATGT-TAGTATCGCTAGTTCGCTACCGCTATAC
324 TAAAAAAGAGTAAGGTGTTTTACAATTTCAAGAT-TCCACTACCGCTA-TTCGCTGTCGCTATAC
* * *
48393452 CTCTATTGGACTACCTTTTTAACCTACCTTAGAATATTTGAAAA
387 CTCTACTGGACTA-CTTTTTAACCTATCTTAGAATATTAGAAAA
48393496 AAATTATCTT
Statistics
Matches: 1863, Mismatches: 293, Indels: 104
0.82 0.13 0.05
Matches are distributed among these distances:
587 1 0.00
588 180 0.10
589 218 0.12
590 156 0.08
591 269 0.14
592 348 0.19
593 193 0.10
594 101 0.05
595 64 0.03
596 99 0.05
597 9 0.00
598 221 0.12
599 4 0.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (587 bp):
ATCACTTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTA
CTTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAAA
GAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTGAAATAAATATTTTTAT
AAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTA
AAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATTCGCTGTCGCTATACCTCT
ACTGGACTACTTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGCAGCTTAGGG
TGCTTCGTAACGGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCCCCTGG
ACAAAGCTCCTACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTAGAACTC
CA
Found at i:48392727 original size:14 final size:15
Alignment explanation
Indices: 48392707--48392746 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
48392697 TAATGTCCAT
48392707 AAAATATTTTGA-AA
1 AAAATATTTTGATAA
* *
48392721 TAAATATTTTTATAA
1 AAAATATTTTGATAA
48392736 AAAATATTTTG
1 AAAATATTTTG
48392747 TTTTAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
AAAATATTTTGATAA
Found at i:48393100 original size:11 final size:10
Alignment explanation
Indices: 48393074--48393107 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
48393064 ATCATCTGAA
*
48393074 AAATGTTTTT
1 AAATGATTTT
48393084 AAATGATTTT
1 AAATGATTTT
48393094 AATATGATTTT
1 AA-ATGATTTT
48393105 AAA
1 AAA
48393108 GTCTCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (10 bp):
AAATGATTTT
Found at i:48401259 original size:27 final size:27
Alignment explanation
Indices: 48401229--48401406 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
48401219 ATATTGAGTC
* * * *
48401229 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48401256 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
48401283 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
48401311 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48401338 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48401365 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48401392 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48401407 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48401368 original size:82 final size:81
Alignment explanation
Indices: 48401250--48401405 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48401240 TGCTATATAA
* * *
48401250 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
48401315 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48401332 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48401396 CACTTAGTGC
65 CACTTAGTGC
48401406 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48409171 original size:27 final size:27
Alignment explanation
Indices: 48409141--48409318 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
48409131 ATATTGAGTC
* * * *
48409141 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48409168 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
48409195 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
48409223 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48409250 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48409277 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48409304 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48409319 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48409280 original size:82 final size:81
Alignment explanation
Indices: 48409162--48409317 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48409152 TGCTATATAA
* * *
48409162 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
48409227 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48409244 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48409308 CACTTAGTGC
65 CACTTAGTGC
48409318 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48418722 original size:40 final size:40
Alignment explanation
Indices: 48418678--48418982 Score: 458
Period size: 40 Copynumber: 7.7 Consensus size: 40
48418668 GCTCCTCGTT
* * *
48418678 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48418718 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48418758 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
48418798 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48418838 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48418878 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
48418918 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
48418959 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48418983 CAGCATTCAA
Statistics
Matches: 250, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
39 19 0.08
40 222 0.89
41 9 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48434489 original size:46 final size:46
Alignment explanation
Indices: 48434387--48434554 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
48434377 TATCTGTGCT
* * * *
48434387 GATGCCATGTCCCAGACATGGTCTTATACTA--ACACATGTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTC-AAGGCC
* * * *
48434433 GATGCATGTCCCAAACATGTCTTACACTGGC-TTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAAGGCC
* *
48434479 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGCC
*
48434525 GATGCCATGTCCCAGACATGTCCTACACTA
1 GATG-CATGTCCCAGACATGTCTTACACTA
48434555 CCTCACACAA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.09
45 14 0.14
46 54 0.53
47 25 0.25
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGCC
Found at i:48440257 original size:13 final size:13
Alignment explanation
Indices: 48440239--48440264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48440229 ATTTTTATTT
48440239 TTAACATAAAATA
1 TTAACATAAAATA
48440252 TTAACATAAAATA
1 TTAACATAAAATA
48440265 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:48441837 original size:29 final size:29
Alignment explanation
Indices: 48441805--48441906 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
48441795 GATTAAAGAA
48441805 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * * **
48441834 CTCGCCCACACAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* * **
48441862 CTCGTACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
48441891 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
48441907 TCGGTTGAAG
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:48441852 original size:57 final size:57
Alignment explanation
Indices: 48441778--48441938 Score: 214
Period size: 57 Copynumber: 2.8 Consensus size: 57
48441768 CTGACTGATT
* * *
48441778 TCGCCCACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * **
48441835 TCGCCCACACAGTGCTCGATTGAAGAACTCGTACACATAGTGCCTCAACTACTGATC
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
48441892 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
48441939 TGATTCCGGC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 90 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (57 bp):
TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:48441876 original size:28 final size:27
Alignment explanation
Indices: 48441778--48441934 Score: 107
Period size: 28 Copynumber: 5.6 Consensus size: 27
48441768 CTGACTGATT
* *
48441778 TCGCCCACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* **
48441806 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCGATTAAGAA-C
* *
48441835 TCGCCCACACAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* * * * *
48441863 TCGTACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTA-AGAAC
* *
48441892 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* *
48441920 TTGCACACACAGTGC
1 TCGCACACATAGTGC
48441935 CTCATGATTC
Statistics
Matches: 97, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
28 54 0.56
29 43 0.44
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCGATTAAGAAC
Found at i:48442013 original size:40 final size:40
Alignment explanation
Indices: 48441966--48442339 Score: 658
Period size: 40 Copynumber: 9.3 Consensus size: 40
48441956 CCATCGAGGT
*
48441966 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442006 TTAGCCCGGATATATCACTAGCACGAATGCTTTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442046 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442086 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442126 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48442166 TTAGCCCGGATATATCACCAGCACGAATGCTTTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442206 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442246 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
48442286 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48442326 TTAGTCCGGATATA
1 TTAGCCCGGATATA
48442340 ACATACTAAA
Statistics
Matches: 318, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 318 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:48443835 original size:46 final size:46
Alignment explanation
Indices: 48443782--48443872 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
48443772 TATATATACA
* * *
48443782 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATT
* * *
48443828 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
48443873 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATT
Found at i:48443917 original size:47 final size:47
Alignment explanation
Indices: 48443886--48444131 Score: 411
Period size: 47 Copynumber: 5.2 Consensus size: 47
48443876 CACTTCCACG
**
48443886 TTCATCACATTGGCCATTTTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
48443933 TTTATCACATTGGTCATTCAGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
48443980 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48444027 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
48444074 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48444121 TTCATCACATT
1 TTCATCACATT
48444132 AAATCCTAAA
Statistics
Matches: 186, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:48443959 original size:22 final size:22
Alignment explanation
Indices: 48443934--48444010 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
48443924 ATGTTCACAT
48443934 TTATCACATTGGTCATTCAGCC
1 TTATCACATTGGTCATTCAGCC
*
48443956 TTATCACATAT-GTGCATGTTCA-CA
1 TTATCACAT-TGGT-CA--TTCAGCC
* *
48443980 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGTCATTCAGCC
48444003 TTATCACA
1 TTATCACA
48444011 CATATGCATG
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
22 20 0.45
23 6 0.14
24 6 0.14
25 12 0.27
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (22 bp):
TTATCACATTGGTCATTCAGCC
Found at i:48444057 original size:22 final size:20
Alignment explanation
Indices: 48443934--48444105 Score: 58
Period size: 22 Copynumber: 7.5 Consensus size: 20
48443924 ATGTTCACAT
48443934 TTATCACATTGGTCATTCAGCC
1 TTATCACATTGG-CATTC-GCC
* *
48443956 TTATCACATATGTGCATGTTCACA
1 TTATCACAT-TG-GCA--TTCGCC
48443980 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGG-CATTC-GCC
* *
48444003 TTATCACACATAT-GCATGTTCACA
1 TTAT--CACAT-TGGCA--TTCGCC
48444027 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGG-CATTC-GCC
* * *
48444050 TTATCACATATATGCATGTTCACA
1 TTATCACAT-T-GGCA--TTCGCC
48444074 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGG-CATTC-GCC
48444097 TTATCACAT
1 TTATCACAT
48444106 ATGTACATGT
Statistics
Matches: 113, Mismatches: 14, Indels: 46
0.65 0.08 0.27
Matches are distributed among these distances:
22 35 0.31
23 26 0.23
24 26 0.23
25 26 0.23
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (20 bp):
TTATCACATTGGCATTCGCC
Found at i:48447828 original size:40 final size:40
Alignment explanation
Indices: 48447780--48447985 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
48447770 AGACTAAGAT
*
48447780 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
48447820 CCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
48447860 CCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
**
48447900 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAAC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
48447940 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAATTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
48447979 TCGAAGG
1 CCGAAGG
48447986 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.10
40 138 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:48450564 original size:15 final size:15
Alignment explanation
Indices: 48450544--48450573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48450534 CAACACGTGT
48450544 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
48450559 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
48450574 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:48455555 original size:56 final size:56
Alignment explanation
Indices: 48455469--48455588 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
48455459 ACAAGGGATG
*
48455469 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAAAATAAAATAAGAAGC
*
48455525 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAAAATAAAATAAGAAGC
48455581 ATGGGCAA
1 ATGGGCAA
48455589 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAAAATAAAATAAGAAGC
Found at i:48456851 original size:79 final size:81
Alignment explanation
Indices: 48456715--48456897 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
48456705 TCGAATGATG
* *
48456715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48456779 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
48456794 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
48456856 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
48456874 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48456898 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:48456913 original size:40 final size:41
Alignment explanation
Indices: 48456715--48456899 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
48456705 TCGAATGATG
* * *
48456715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
48456755 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48456795 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
48456834 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48456875 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48456900 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48456932 original size:79 final size:79
Alignment explanation
Indices: 48456754--48456924 Score: 179
Period size: 79 Copynumber: 2.2 Consensus size: 79
48456744 AAGTGACCAT
* *
48456754 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
**
48456818 GGTGCGAGTTACTAA
65 GGAACGAGTTACTAA
* * * * *
48456833 ATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
48456897 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
48456913 ATCC-GATTAAAT
1 ATCCGGATTAAAT
48456925 TCTGAAGGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 3 0.04
79 48 0.64
80 24 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
ATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTTACTAA
Found at i:48462555 original size:46 final size:46
Alignment explanation
Indices: 48462412--48462579 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
48462402 ATTGTGGGCT
* * * *
48462412 AGTGCAAGACATGTTTGGGACATGCATCGGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GACGAGAGCC
* *
48462458 AGTGTAAGACCATGTCTGGGACATGGC-TCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCC
* * * *
48462505 AGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCC
48462551 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
48462580 CCTGTGTCAG
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 63 0.62
47 34 0.33
48 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:48468005 original size:10 final size:9
Alignment explanation
Indices: 48467982--48468007 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48467972 TTTGGTGTTG
48467982 GTTTTTGAT
1 GTTTTTGAT
48467991 GTTTTTGAT
1 GTTTTTGAT
48468000 GTTTTTGA
1 GTTTTTGA
48468008 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:48468963 original size:47 final size:45
Alignment explanation
Indices: 48468902--48469028 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
48468892 TATGGGCTAG
* * * *
48468902 TGTAAGATATGTCTGGTACATGCATCGGCTACATTATAAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCTACA-GATAAGAGACAA
* ** * * *
48468948 TGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGATGAGAGATAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACAGATAAGAGACAA
48468996 TGTAAGACATGTCTGGGACATGCATCGGCTACA
1 TGTAAGACATGTCTGGGACATGCATCGGCTACA
48469029 AGATGTGTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
45 2 0.03
46 14 0.22
47 26 0.40
48 21 0.32
49 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACAGATAAGAGACAA
Found at i:48471264 original size:29 final size:29
Alignment explanation
Indices: 48471222--48471340 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
48471212 GTGAGCATGA
*
48471222 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
48471250 ATATAAAGGTGATTTGGGCGTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * * *
48471279 ATATGAATATGAATAGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
48471308 ATATAAATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
48471336 ATATA
1 ATATA
48471341 CATGTATGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.01
28 21 0.28
29 53 0.71
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:48472444 original size:17 final size:18
Alignment explanation
Indices: 48472411--48472445 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48472401 TTTTAAGAAG
48472411 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
48472429 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
48472446 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:48475565 original size:20 final size:21
Alignment explanation
Indices: 48475532--48475570 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
48475522 TTAAAATTAA
48475532 TTTTCAAAAATATT-TTTATT
1 TTTTCAAAAATATTATTTATT
* *
48475552 TTTTCCAAATTATTATTTA
1 TTTTCAAAAATATTATTTA
48475571 ATCTATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTCAAAAATATTATTTATT
Found at i:48488629 original size:27 final size:28
Alignment explanation
Indices: 48488587--48488699 Score: 144
Period size: 27 Copynumber: 4.2 Consensus size: 28
48488577 AGCATGGCTG
* *
48488587 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
48488613 CCAGATACAGAT-TTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
48488640 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
48488668 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
48488695 CCAGA
1 CCAGA
48488700 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.69
28 18 0.24
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:48488664 original size:55 final size:54
Alignment explanation
Indices: 48488587--48488700 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 54
48488577 AGCATGGCTG
*
48488587 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGAT-TTTGTGGTAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGAT-CAGATATTTGTGGTAGAGCCA
* *
48488640 CTAGAAACAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
48488695 CCAGAA
1 CCAGAA
48488701 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 3 0.06
54 13 0.24
55 38 0.70
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (54 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
Found at i:48494612 original size:16 final size:15
Alignment explanation
Indices: 48494588--48494617 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48494578 AACTGTTTTA
48494588 TTACAAATTTCACTC
1 TTACAAATTTCACTC
48494603 TTACATAATTTCACT
1 TTACA-AATTTCACT
48494618 TACTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:48496718 original size:39 final size:39
Alignment explanation
Indices: 48496657--48496847 Score: 174
Period size: 39 Copynumber: 4.9 Consensus size: 39
48496647 ATATTTGATG
* * *
48496657 TGTATCTGGACTTATGGTCCGCAGGCTAT-GTGCTGGAAT
1 TGTATCCGGACTTAAGGTCCGCAGGCT-TCGTGCTGGAAA
* * *
48496696 TATATCCGGACTTAGGGTCCGCAGGCTTCATGCTGGAAA
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
* *
48496735 TGTATCCGGGC-TAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGAAA
* * * *
48496774 TGTATCCGGGC-CAAAGTCCCGCAGGCTTCGTGCTAGAAA
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGAAA
* * * *
48496813 TGTATCTGG-GTTAAAGTCCCGCAGGCTTTGTGCTG
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTG
48496848 ATAATATAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 5 0.04
39 127 0.96
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
Found at i:48499566 original size:4 final size:4
Alignment explanation
Indices: 48499557--48499589 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
48499547 CCTAGTAAAA
48499557 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
48499590 CGGAACTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:48502318 original size:40 final size:40
Alignment explanation
Indices: 48502256--48502460 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
48502246 AAACCAAGTA
* * *
48502256 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48502295 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48502335 CCTTCGGGACTTAGCCTGAAGATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48502375 CCTTCGGGGCTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48502415 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48502455 CCTTCG
1 CCTTCG
48502461 TTATCATCCG
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 130 0.90
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48512222 original size:47 final size:47
Alignment explanation
Indices: 48512125--48512215 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
48512115 TATTACCCTG
* * * *
48512125 GGTTGCCTGGAATCGATGACTCAGTGTACATATAATCTACCATCTCA
1 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATCTCA
48512172 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATC
1 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATC
48512216 CTAGGTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (47 bp):
GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATCTCA
Found at i:48515572 original size:57 final size:56
Alignment explanation
Indices: 48515511--48515670 Score: 176
Period size: 57 Copynumber: 2.8 Consensus size: 56
48515501 TTTTTTTCAT
*
48515511 TTTTCATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATATCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCA-ATTCATTTCCAAATGATTCCATATCTCCA
* * * * * * *
48515568 TTTTCATTTCCATTTTTGAGAAAACCATAATAATTTCCAAATGTTTTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCA-ATTCATTTCCAAATGATTCCATATCTCCA
* * * * *
48515625 TTTTTATTTTCATTATGGTGAAAACCAGTATCACTTCCAAATGATT
1 TTTTCATTTTCATTTTGGAGAAAACCAAT-TCATTTCCAAATGATT
48515671 TCCAATTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
57 83 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (56 bp):
TTTTCATTTTCATTTTGGAGAAAACCAATTCATTTCCAAATGATTCCATATCTCCA
Found at i:48516595 original size:38 final size:37
Alignment explanation
Indices: 48516544--48516619 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
48516534 CTGATTTGAC
* * *
48516544 TAAGGATACGATTAGTTTCATCCTATTAATATAAGTTG
1 TAAGGACACGATTAGTTTCAT-CTACTAATATAAATTG
* *
48516582 TAAGGACATGATTAGTTTCGTCTACTAATATAAATTG
1 TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
48516619 T
1 T
48516620 CTTTCCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (37 bp):
TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
Found at i:48518979 original size:19 final size:19
Alignment explanation
Indices: 48518955--48519047 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
48518945 AATAAATTAC
*
48518955 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
48518974 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * * * *
48518993 T-GT-TGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
*
48519009 TCGTCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
48519028 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
48519047 T
1 T
48519048 GCTGGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.02
17 10 0.18
18 9 0.16
19 37 0.65
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:48518992 original size:54 final size:54
Alignment explanation
Indices: 48518929--48519057 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
48518919 TTTAGTTTAA
* *
48518929 TTAATTAAGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
* *
48518983 TTAATTAAGTTGTTGGAATAAATTACTCGTCTTAGTTAATTAAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
*
48519037 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
48519058 TTTATTGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:48520434 original size:18 final size:17
Alignment explanation
Indices: 48520413--48520486 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 17
48520403 ATTTCAAATA
48520413 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAATTTC
*
48520431 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAATTTC
*
48520448 ACAATTCAATTCAATTCTC
1 AC-TTTCAATTCAATT-TC
* *
48520467 A--TTCAAATCAAATTC
1 ACTTTCAATTCAATTTC
48520482 ACTTT
1 ACTTT
48520487 TCCACTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 11 0.23
18 20 0.43
19 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAATTTC
Found at i:48520443 original size:17 final size:17
Alignment explanation
Indices: 48520413--48520486 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
48520403 ATTTCAAATA
*
48520413 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAAATTC
48520431 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAAATTC
*
48520448 ACAATTCAATTC-AATTC
1 AC-TTTCAATTCAAATTC
* * *
48520465 TCATTCAAATCAAATTC
1 ACTTTCAATTCAAATTC
48520482 ACTTT
1 ACTTT
48520487 TCCACTTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 8 0.17
17 23 0.48
18 17 0.35
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAAATTC
Found at i:48521697 original size:16 final size:14
Alignment explanation
Indices: 48521666--48521713 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
48521656 TATATTAGTG
48521666 AATAATATTAATAAT
1 AATAATA-TAATAAT
*
48521681 AATACATTATGATAAT
1 AATA-A-TATAATAAT
48521697 -ATAATATAATAAT
1 AATAATATAATAAT
48521710 AATA
1 AATA
48521714 TTGAATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 7 0.25
16 7 0.25
17 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:48522124 original size:3 final size:3
Alignment explanation
Indices: 48522116--48522175 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
48522106 ATTTTATTTC
* * * **
48522116 ATA ATA ATA ATA ATA ATA ATA ATA TTT A-A ATA AAA ACC ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
48522163 ATT ATA ATA ATA A
1 ATA ATA ATA ATA A
48522176 ATTGATAACA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48522695 original size:48 final size:48
Alignment explanation
Indices: 48522640--48522732 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
48522630 GAGTGTGGCA
* *
48522640 TTCATATACCTTTTATTCCTATCATTTTTGATAGTGGGTCAAGGTTCG
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
* *
48522688 TTCATATACCTTTGGTTCCTATCATTTTTTATAGCGGGTCAAGGT
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGT
48522733 CCTTTGCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (48 bp):
TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
Found at i:48524256 original size:22 final size:24
Alignment explanation
Indices: 48524227--48524274 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
48524217 AGCATGTGAA
48524227 AAAGAAAA-AAAAG-GAT-GAAAG
1 AAAGAAAAGAAAAGAGATCGAAAG
48524248 AAAGCAAAAGGAAAAGAGATCGAAAG
1 AAAG-AAAA-GAAAAGAGATCGAAAG
48524274 A
1 A
48524275 GAATAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
24 5 0.23
25 3 0.14
26 6 0.27
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (24 bp):
AAAGAAAAGAAAAGAGATCGAAAG
Found at i:48524496 original size:21 final size:21
Alignment explanation
Indices: 48524472--48524511 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48524462 GGACTAAACT
* *
48524472 GAAAACTTTGAAAAGTTTTAG
1 GAAAACTTAGAAAAATTTTAG
48524493 GAAAACTTAGAAAAATTTT
1 GAAAACTTAGAAAAATTTT
48524512 CATGAAACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
GAAAACTTAGAAAAATTTTAG
Found at i:48529527 original size:26 final size:26
Alignment explanation
Indices: 48529498--48529605 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
48529488 TGGTACAAAT
48529498 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * **
48529524 TGATAATGGATTAGGTAAATATTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
48529550 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48529576 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48529602 TGAT
1 TGAT
48529606 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48535036 original size:4 final size:4
Alignment explanation
Indices: 48535027--48535058 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
48535017 TTAAACTAAG
48535027 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
48535059 AATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:48536470 original size:23 final size:22
Alignment explanation
Indices: 48536418--48536470 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48536408 TCCACGTCTT
*
48536418 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48536440 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48536463 TTTCTTTT
1 TTTCTTTT
48536471 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48541121 original size:45 final size:44
Alignment explanation
Indices: 48540956--48541121 Score: 111
Period size: 45 Copynumber: 3.7 Consensus size: 44
48540946 CATCCATTAT
* * * * * * * *
48540956 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAAATTTC-CACATATATCAC
* * *
48541000 GAACTCGGACTAACTCAACGAGCTCGAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAAAT--TTCCACATATATCAC
* * * * * * *
48541045 TAACTTGGACCAACTAAACAAGTTTAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAAATTT-CCACATATATCAC
*
48541090 GAACTCGGACCAACTCAATGAGCTCAAATTTC
1 GAACTCGGACCAACTCAACGAGCTCAAATTTC
48541122 TTAATTACTA
Statistics
Matches: 88, Mismatches: 29, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
43 2 0.02
44 25 0.28
45 60 0.68
47 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAAATTTCCACATATATCAC
Found at i:48541266 original size:24 final size:24
Alignment explanation
Indices: 48541234--48541281 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48541224 GTGCTATCCG
48541234 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
48541258 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
48541282 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:48541363 original size:14 final size:16
Alignment explanation
Indices: 48541331--48541369 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
48541321 ATTTTCATAA
*
48541331 CATATATCACATATTT
1 CATATATCACATATGT
48541347 CATATATCAC-T-TGT
1 CATATATCACATATGT
48541361 CATATATCA
1 CATATATCA
48541370 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:48542116 original size:12 final size:12
Alignment explanation
Indices: 48542099--48542123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48542089 AGAGATTGAT
48542099 AGTGAAAAAGAA
1 AGTGAAAAAGAA
48542111 AGTGAAAAAGAA
1 AGTGAAAAAGAA
48542123 A
1 A
48542124 AAAAAAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:48543732 original size:21 final size:21
Alignment explanation
Indices: 48543708--48543747 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48543698 TCAACCCATC
*
48543708 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
48543729 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
48543748 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:48543861 original size:54 final size:54
Alignment explanation
Indices: 48543800--48543928 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 54
48543790 TTTAGTTTAA
* *
48543800 TTAATTAATTTTCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
* ** * *
48543854 TTAATTAAGTCGCTGGAATAAATCACTCGTCTTAGTTCATTAAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
*
48543908 TTAATTTATTTGT-TGGAATAA
1 TTAATTAATTT-TCTGGAATAA
48543929 TTTATTGTTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (54 bp):
TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:48544005 original size:19 final size:19
Alignment explanation
Indices: 48543981--48544025 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48543971 TAAGTCTAAT
*
48543981 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
48544000 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
48544019 ATGTGTT
1 ATGTGTT
48544026 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:48544020 original size:10 final size:10
Alignment explanation
Indices: 48543990--48544026 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
48543980 TATGTGTTCA
48543990 AATGT-TTTT
1 AATGTGTTTT
48543999 AATGTG-TTT
1 AATGTGTTTT
*
48544008 AATGAGTTTT
1 AATGTGTTTT
48544018 AATGTGTTT
1 AATGTGTTT
48544027 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:48544698 original size:48 final size:48
Alignment explanation
Indices: 48544642--48544734 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
48544632 TCGAGTGTGG
* *
48544642 CGTTCATATACCTTTGATTCCTATCATTTTGTATAATGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAGGTT
* *
48544690 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGGGCCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAG
48544735 CTCCTTTGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAGGTT
Found at i:48545251 original size:28 final size:28
Alignment explanation
Indices: 48545211--48545268 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
48545201 TAAAGTTGCA
48545211 AAGCTGAAAATGATTAAATGAGTATATT
1 AAGCTGAAAATGATTAAATGAGTATATT
*
48545239 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTATATT
48545267 AA
1 AA
48545269 CATATAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTATATT
Found at i:48552730 original size:35 final size:35
Alignment explanation
Indices: 48552690--48552848 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
48552680 GTATGTACAT
48552690 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
48552725 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
48552760 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
48552795 ATATGATGATATATTGTACTTGTATGTTTGGCGAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
48552830 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
48552849 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:48576874 original size:14 final size:14
Alignment explanation
Indices: 48576855--48576882 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48576845 ATATGTTAGA
48576855 GTAGATGATACAGT
1 GTAGATGATACAGT
48576869 GTAGATGATACAGT
1 GTAGATGATACAGT
48576883 TTTTGGGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
GTAGATGATACAGT
Found at i:48579850 original size:28 final size:28
Alignment explanation
Indices: 48579808--48579922 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
48579798 TACCTGTATC
* *
48579808 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
48579836 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
48579865 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* * *
48579894 TGGCTCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
48579922 T
1 T
48579923 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:48579906 original size:58 final size:57
Alignment explanation
Indices: 48579799--48579909 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
48579789 AATTTCACAT
* * *
48579799 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
48579856 ACCTGTATATGGCCCATTAGGCCTAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCC-AAATCACATTCATATGGCCCATTAGGCCCA
48579910 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48580003 original size:17 final size:18
Alignment explanation
Indices: 48579981--48580014 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48579971 TGCCTATTAT
48579981 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
48579998 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
48580015 TTTGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:48580176 original size:16 final size:16
Alignment explanation
Indices: 48580133--48580184 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
48580123 GTAGCCAAAC
*
48580133 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGGCA
*
48580149 TTTTGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
48580165 TTTTGGCATTTCGGC-
1 TTTTGGCTTTTCGGCA
48580180 TTTTG
1 TTTTG
48580185 CCGATTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.10, C:0.17, G:0.21, T:0.52
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:48589277 original size:40 final size:41
Alignment explanation
Indices: 48589040--48589282 Score: 329
Period size: 40 Copynumber: 6.1 Consensus size: 41
48589030 GGATGATAAT
* *
48589040 CGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
* *
48589080 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
*
48589120 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
* *
48589160 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
* *
48589200 CGGGCTAAGTCTCGAAGGCATTTGTGCGAACT-ACTATA-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATTC
* *
48589240 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
48589280 CGG
1 CGG
48589283 TTAAAGCCGA
Statistics
Matches: 186, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
39 4 0.02
40 176 0.95
41 6 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTC
Found at i:48592075 original size:30 final size:30
Alignment explanation
Indices: 48592039--48592096 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
48592029 TAAATGAGTG
48592039 AATTTCATCATGTTAGATCAAGAAAATCAT
1 AATTTCATCATGTTAGATCAAGAAAATCAT
48592069 AATTTCATCATGTTAGATCAAGAAAATC
1 AATTTCATCATGTTAGATCAAGAAAATC
48592097 GAGATTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (30 bp):
AATTTCATCATGTTAGATCAAGAAAATCAT
Found at i:48592596 original size:47 final size:47
Alignment explanation
Indices: 48592536--48592852 Score: 185
Period size: 47 Copynumber: 6.6 Consensus size: 47
48592526 ATTGTGGGCT
* * *
48592536 AGTGCAAGACATGTTTGGGACAT-GCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGAGCC
48592582 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGA-GACGAGACC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATATGATGA-GAG-CC
* *
48592629 TAGTGTAAGACATGTCTAGGACAT-GCATTGGCC-TCGA-GATGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGCCAT--ATGATG-AGAGCC
* *
48592676 AGTGTAAGACATGTCTGGGACATGGCATCGGAACAGATATG-TGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGG--C-CATATGATGAGAGCC
* * * * * * *
48592725 AGTGTGTAAGACCATTTCTGGGACACGGCGTCGGCC-TCGAT-TTCAATAGTC
1 A--GTGTAAGA-CATGTCTGGGACATGGCATCGGCCAT--ATGAT-GAGAGCC
* * * *
48592776 AGTGTAAGACCAAGTCTGGGATATGGCATC-G--ATTTGATGGATGAACC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATATGAT-GA-GAGCC
*
48592823 AGTGTAAGACTATGTCTGGGTCATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATC
48592853 AGCATTATAC
Statistics
Matches: 210, Mismatches: 32, Indels: 57
0.70 0.11 0.19
Matches are distributed among these distances:
45 3 0.01
46 45 0.21
47 68 0.32
48 23 0.11
49 33 0.16
50 6 0.03
51 13 0.06
52 19 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGAGCC
Found at i:48592689 original size:46 final size:44
Alignment explanation
Indices: 48592536--48592706 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 44
48592526 ATTGTGGGCT
* * **
48592536 AGTGCAAGACATGTTTGGGACATGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CAT-CGA-GACGAGCC
*
48592582 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAG-CC
* * * *
48592629 TAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG--AGCC
48592676 AGTGTAAGACATGTCTGGGACATGGCATCGG
1 AGTGTAAGACATGTCTGGGACAT-GCATCGG
48592707 AACAGATATG
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.45
47 39 0.36
48 18 0.17
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGCC
Found at i:48598106 original size:10 final size:9
Alignment explanation
Indices: 48598084--48598108 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48598074 TTGGTGTTGA
48598084 TTTTTGATG
1 TTTTTGATG
48598093 TTTTTGATG
1 TTTTTGATG
48598102 TTTTTGA
1 TTTTTGA
48598109 GATCCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
TTTTTGATG
Found at i:48601329 original size:29 final size:29
Alignment explanation
Indices: 48601287--48601404 Score: 107
Period size: 29 Copynumber: 4.1 Consensus size: 29
48601277 GTGAGCATGA
*
48601287 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
48601315 ATATAAAGGTGATTTGGGCGTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * * *
48601344 ATATGAATATGAATAGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
***
48601373 ATATAAATAAGA-TTGGG-CTAAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
48601401 ATAT
1 ATAT
48601405 GCATGTTTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 3 0.04
28 18 0.24
29 54 0.72
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:48619577 original size:10 final size:9
Alignment explanation
Indices: 48619554--48619578 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48619544 TTTGGTGTTG
48619554 GTTTTTGAT
1 GTTTTTGAT
48619563 GTTTTTGAT
1 GTTTTTGAT
48619572 GTTTTTG
1 GTTTTTG
48619579 GATCCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:48620540 original size:46 final size:47
Alignment explanation
Indices: 48620466--48620591 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 47
48620456 TTATTGTGGT
* *
48620466 AGTGTAAGATATGTCTGGTACATGCATCGGCTACATT-ATA-A-AGCC
1 AGTGTAAGACATGTCTGG-ACATGCATCGGCTACATTGAGACAGAGCC
*
48620511 AGTGTAAGACCATGTCTGGACATGGCATCGG-T--ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGACAT-GCATCGGCTACATTGAGAC-AGAGCC
48620558 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC
1 AGTGTAAGACATGTCT-GGACATGCATCGGCTAC
48620592 GAGATGTGTC
Statistics
Matches: 68, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 14 0.21
46 30 0.44
47 19 0.28
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCTACATTGAGACAGAGCC
Found at i:48639901 original size:27 final size:28
Alignment explanation
Indices: 48639864--48639976 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 28
48639854 AGCATGGCTG
* *
48639864 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
48639890 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* * * *
48639917 CTAGAAATAGATATTTGTGCCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
48639945 CTAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
48639972 CCAGA
1 CCAGA
48639977 ACGCTTCCTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 50 0.69
28 17 0.24
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:48639962 original size:55 final size:54
Alignment explanation
Indices: 48639871--48639977 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
48639861 CTGCCAGAAC
* *
48639871 AGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCACTAGAAAT
1 AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
* *
48639925 AGATATTTGTGCCAGAGCCACTAGAT-CAGATATTTGTGGTAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGTAGAGCCACCAGAA
48639978 CGCTTCCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
54 11 0.23
55 36 0.77
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
Found at i:48642980 original size:1 final size:1
Alignment explanation
Indices: 48642974--48643019 Score: 92
Period size: 1 Copynumber: 46.0 Consensus size: 1
48642964 CTATACTATG
48642974 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
48643020 CTAATTTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:48645717 original size:16 final size:15
Alignment explanation
Indices: 48645693--48645722 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48645683 AACTGTTTTA
48645693 TTACAAATTTCACTC
1 TTACAAATTTCACTC
48645708 TTACATAATTTCACT
1 TTACA-AATTTCACT
48645723 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:48646151 original size:51 final size:51
Alignment explanation
Indices: 48646033--48646210 Score: 261
Period size: 51 Copynumber: 3.5 Consensus size: 51
48646023 CTGATACACG
* * * * * * *
48646033 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGCA
48646083 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
*
48646134 TAGTAGCCTACACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
48646185 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48646211 TGCAACCTAA
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
49 1 0.01
50 32 0.27
51 84 0.72
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
Found at i:48646269 original size:50 final size:50
Alignment explanation
Indices: 48645920--48646316 Score: 359
Period size: 50 Copynumber: 7.9 Consensus size: 50
48645910 GTAACAGAAG
* * *
48645920 CTATCTGGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * ** *
48645969 CAATCCGGTACACGTAATAGCCTGCACTTAGTACAACACACATGACGTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
48646019 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
48646069 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * * * *
48646119 GTTGTCGGGTACGCATAGTAGCCTACACTTAGTACTACACACGTGA-TTGAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * **
48646170 GTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
48646221 CTATCTGGTACATGTAGTACCCTACACTTAGTACTACACATGTGACCTAAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA
* *** * * * *
48646273 CCATCTTAAACACATAATAGCCTGCACATAGTACTAGACATGTG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
48646317 TTCTCACAAT
Statistics
Matches: 288, Mismatches: 54, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
49 38 0.13
50 126 0.44
51 88 0.31
52 36 0.12
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:48649232 original size:15 final size:15
Alignment explanation
Indices: 48649214--48649244 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48649204 ACTAGGATTA
*
48649214 AGAAGTCCAAGATAC
1 AGAAATCCAAGATAC
48649229 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
48649244 A
1 A
48649245 ATATCATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:48652543 original size:16 final size:15
Alignment explanation
Indices: 48652519--48652548 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48652509 ATTGTTTTTT
48652519 TTACAAATTTCACTG
1 TTACAAATTTCACTG
48652534 TTACATAATTTCACT
1 TTACA-AATTTCACT
48652549 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTG
Found at i:48652879 original size:50 final size:50
Alignment explanation
Indices: 48652746--48653340 Score: 463
Period size: 50 Copynumber: 11.8 Consensus size: 50
48652736 GTAACCGAAG
* * *
48652746 CTATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
48652795 CAAT-TAGGTACACGA-AATAGCCTGCACTTCGTACTACACATGTGACCTAA
1 CTATCT-GGTACAC-ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* ** * * * * *
48652845 CCATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * *
48652895 GTTGTCAGGTACGCATAGTAGCCTGCACTTATTACTACACATGTGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
48652946 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * * *
48652996 GT-TGTTGGGTATGCATAATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * *
48653047 GT-TGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
48653098 CTATCTAGTACACGTATTAGCCTGCTCTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
48653148 CCATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * *
48653198 GT-TGTTGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
48653249 CTATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* *** * **
48653300 ATCATCTTAAACACATAGTAGCCTACAAATAGTACTACACA
1 CT-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
48653341 TGTGTTCTCA
Statistics
Matches: 431, Mismatches: 94, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.00
49 43 0.10
50 197 0.46
51 154 0.36
52 36 0.08
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:48652935 original size:101 final size:101
Alignment explanation
Indices: 48652748--48653293 Score: 507
Period size: 101 Copynumber: 5.4 Consensus size: 101
48652738 AACCGAAGCT
* * * * * ** *
48652748 ATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAAT-T-AGGTACACGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAGGTACGC-A
* *
48652810 -AATAGCCTGCACTTCGTACTACACATGTGACCTAACC
64 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
48652847 ATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAAGTTGTCAGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* *
48652912 GTAGCCTGCACTTATTACTACACATGTGACCTAACT
66 GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
48652948 ATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* * * * *
48653013 ATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA-G
66 GTAGCCTGCACTTAGTACTACACATGTGACCT-AACC
* * * * * * * * *
48653048 TTGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTA-GTACAC
1 ATCT-GA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC-AGGTACGC
* * * *
48653111 GTATTAGCCTGCTCTTAGTACTACACACGTGACCTAACC
63 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
48653150 ATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCAT
1 ATCTGATACACA-TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCAT
* *
48653214 AGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
65 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
48653251 ATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA
48653294 CCTAAAATCA
Statistics
Matches: 356, Mismatches: 77, Indels: 26
0.78 0.17 0.06
Matches are distributed among these distances:
99 37 0.10
100 42 0.12
101 238 0.67
102 39 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:48657486 original size:13 final size:13
Alignment explanation
Indices: 48657468--48657492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48657458 ACATTGAAAG
48657468 TTGTGTAAAAAAT
1 TTGTGTAAAAAAT
48657481 TTGTGTAAAAAA
1 TTGTGTAAAAAA
48657493 AAGGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTGTAAAAAAT
Found at i:48659885 original size:40 final size:40
Alignment explanation
Indices: 48659830--48660016 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
48659820 AGCATTGGAT
48659830 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
48659870 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
48659910 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
48659950 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* *
48659990 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
48660017 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.21
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:48666498 original size:14 final size:15
Alignment explanation
Indices: 48666448--48666504 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
48666438 GAGATGACAT
*
48666448 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
48666463 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
48666478 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
48666493 -AAATCCAAGATA
1 GAAATCCAAGATA
48666505 CATTATCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:48670174 original size:26 final size:26
Alignment explanation
Indices: 48670135--48670242 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
48670125 ATGGTCAAAT
*
48670135 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48670161 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48670187 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48670213 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48670239 TGAT
1 TGAT
48670243 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48677118 original size:26 final size:26
Alignment explanation
Indices: 48677089--48677171 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
48677079 ATGGTACAAA
48677089 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
* * *
48677115 ATGATAATGGATTAGGTAAATATTCT
1 ATGATAATGGGTTAGGTAAATGTTCC
48677141 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
48677167 ATGAT
1 ATGAT
48677172 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTCC
Found at i:48682996 original size:47 final size:47
Alignment explanation
Indices: 48682942--48683442 Score: 813
Period size: 47 Copynumber: 10.6 Consensus size: 47
48682932 TATTTGAATA
*
48682942 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48682989 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48683036 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48683083 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGTTGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
48683132 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48683179 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48683226 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48683275 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48683322 AATGTGAAAGTGAATATATGTGATAAGGCCTGATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
48683369 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48683416 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48683443 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 334 0.79
49 89 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48683198 original size:143 final size:141
Alignment explanation
Indices: 48682942--48683442 Score: 806
Period size: 143 Copynumber: 3.5 Consensus size: 141
48682932 TATTTGAATA
*
48682942 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
48683007 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
*
48683072 CCAATGTGATG
131 CCGATGTGATG
*
48683083 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGTTGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
48683148 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
48683213 AGCCGATGTGATG
129 GGCCGATGTGATG
*
48683226 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
48683291 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGAATATATGTGATAAGGCCTG-A
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC-GAA
48683355 TGGCCGATGTGATG
128 TGGCCGATGTGATG
* * * * * * * *
48683369 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
48683434 TGTGATAAG
66 TGTGATAAG
48683443 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
141 65 0.19
143 271 0.81
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCGATGTGATG
Found at i:48683293 original size:190 final size:191
Alignment explanation
Indices: 48682942--48683442 Score: 814
Period size: 190 Copynumber: 2.6 Consensus size: 191
48682932 TATTTGAATA
*
48682942 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
48683007 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
*
48683070 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGTTGTGATG
131 GGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48683132 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
48683197 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
* *
48683262 GGCCGATGTGATGAATGTGGAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48683322 AATGTGAAAGTGAATATATGTGATAAGGCCTGATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
48683387 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
48683443 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 236 0.81
192 44 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (191 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48683699 original size:37 final size:37
Alignment explanation
Indices: 48683561--48683698 Score: 213
Period size: 37 Copynumber: 3.7 Consensus size: 37
48683551 CTGAGCTCTA
* *
48683561 AAGACCCGATGACTACGTGTGGAGATTATGTTCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
48683598 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
48683635 AAGACCCGATGACTACGTATGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
48683672 AAGACCCGATAACTTCATGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
48683699 TCATCTGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:48685034 original size:40 final size:40
Alignment explanation
Indices: 48684991--48685279 Score: 418
Period size: 40 Copynumber: 7.2 Consensus size: 40
48684981 GGCTAAATCT
*
48684991 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
48685031 CGAAGAGCATTCGTGCTGGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
48685071 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* * *
48685111 CGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
48685151 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
48685191 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * * *
48685231 CGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
48685271 CGAAGAGCA
1 CGAAGAGCA
48685280 ATCATGCTGG
Statistics
Matches: 228, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 1 0.00
40 226 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:48689395 original size:47 final size:47
Alignment explanation
Indices: 48689341--48689545 Score: 347
Period size: 47 Copynumber: 4.3 Consensus size: 47
48689331 TATTTGAATA
*
48689341 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48689388 AATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48689435 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48689484 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48689531 AATGTGAAAGTGTAT
1 AATGTGAAAGTGTAT
48689546 TATCAGTTGC
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 104 0.70
49 45 0.30
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48689467 original size:96 final size:96
Alignment explanation
Indices: 48689341--48689545 Score: 351
Period size: 96 Copynumber: 2.2 Consensus size: 96
48689331 TATTTGAATA
48689341 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
* *
48689404 TATGTGATAAGGCCTAACGGCCGATGTGATG
66 TATGTGATAAGGCCGAACGGCCAATGTGATG
* *
48689435 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
*
48689500 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAACGGCCAATGTGATG
48689531 AATGTGAAAGTGTAT
1 AATGTGAAAGTGTAT
48689546 TATCAGTTGC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
94 12 0.12
96 92 0.88
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAACGGCCAATGTGATG
Found at i:48693276 original size:40 final size:40
Alignment explanation
Indices: 48693163--48693308 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
48693153 TTGAATGATG
* * * * *
48693163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
48693203 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48693243 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
48693284 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
48693309 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48693315 original size:40 final size:40
Alignment explanation
Indices: 48693202--48693315 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
48693192 AGGTGACCAT
48693202 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
*
48693242 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA-A
* * *
48693283 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGT
48693316 AGCTATATCC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 64 0.96
41 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
Found at i:48695416 original size:20 final size:20
Alignment explanation
Indices: 48695391--48695433 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
48695381 ACATTTATGT
48695391 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
48695411 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
48695431 ATG
1 ATG
48695434 TACCATAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGATAATTCAATGCACTTC
Found at i:48698158 original size:45 final size:44
Alignment explanation
Indices: 48697993--48698151 Score: 117
Period size: 45 Copynumber: 3.6 Consensus size: 44
48697983 CATCCATTAT
* * * * * * *
48697993 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAGATTTC-CACATATATCAC
* *
48698037 GAACTCGGACCAACTCAACGATCTC-GAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAG-AT--TTCCACATATATCAC
* * * * *
48698082 TAACTTGGACCAACTAAACAAGTTCAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAGATTT-CCACATATATCAC
*
48698127 GAACTCGGACCAACTCAATGAGCTC
1 GAACTCGGACCAACTCAACGAGCTC
48698152 GAATTTCTTA
Statistics
Matches: 86, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
43 3 0.03
44 24 0.28
45 57 0.66
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAGATTTCCACATATATCAC
Found at i:48698303 original size:24 final size:24
Alignment explanation
Indices: 48698271--48698318 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48698261 GCGCTATCCA
48698271 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
48698295 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
48698319 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:48698400 original size:14 final size:16
Alignment explanation
Indices: 48698368--48698406 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
48698358 ATTTGCATAA
*
48698368 CATATATCACATATTT
1 CATATATCACATATGT
48698384 CATATATCAC-T-TGT
1 CATATATCACATATGT
48698398 CATATATCA
1 CATATATCA
48698407 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:48699153 original size:12 final size:12
Alignment explanation
Indices: 48699136--48699160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48699126 AGAGATTGAT
48699136 AGTGAAAAAGAA
1 AGTGAAAAAGAA
48699148 AGTGAAAAAGAA
1 AGTGAAAAAGAA
48699160 A
1 A
48699161 AAAAAAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:48700760 original size:46 final size:46
Alignment explanation
Indices: 48700710--48700882 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48700700 TGGTTGAGCA
*
48700710 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48700756 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
48700803 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
48700849 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48700883 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48700866 original size:93 final size:93
Alignment explanation
Indices: 48700707--48700877 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
48700697 GGATGGTTGA
* *
48700707 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48700772 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
48700800 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48700865 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48700878 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48701144 original size:19 final size:20
Alignment explanation
Indices: 48701107--48701144 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48701097 ATAAGGTGGT
48701107 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
48701127 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
48701145 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:48703558 original size:21 final size:21
Alignment explanation
Indices: 48703534--48703573 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48703524 TCAACCCATC
*
48703534 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
48703555 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
48703574 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:48703677 original size:35 final size:35
Alignment explanation
Indices: 48703626--48703702 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
48703616 TTTAGTTTAA
* * *
48703626 TTAATTAATTTTCTGGAATAAATTACTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
*
48703661 TTAATTAAGTTGCTGGAATAAATCACTCGTCTTAG
1 TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
*
48703696 TTCATTA
1 TTAATTA
48703703 TGTTCATCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (35 bp):
TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
Found at i:48703812 original size:19 final size:19
Alignment explanation
Indices: 48703788--48703832 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48703778 TAAGTCTAAT
*
48703788 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
48703807 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
48703826 ATGTGTT
1 ATGTGTT
48703833 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:48703827 original size:10 final size:10
Alignment explanation
Indices: 48703797--48703833 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
48703787 TATGTGTTCA
48703797 AATGT-TTTT
1 AATGTGTTTT
48703806 AATGTG-TTT
1 AATGTGTTTT
*
48703815 AATGAGTTTT
1 AATGTGTTTT
48703825 AATGTGTTT
1 AATGTGTTT
48703834 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:48704540 original size:48 final size:48
Alignment explanation
Indices: 48704449--48704541 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
48704439 TCGAGTGTGG
** *
48704449 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAGGTT
* *
48704497 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGAGTCAAG
1 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAG
48704542 CTCCTTTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAGGTT
Found at i:48705058 original size:28 final size:28
Alignment explanation
Indices: 48705018--48705075 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48705008 TAAAGTTGCA
48705018 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
48705046 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
48705074 AA
1 AA
48705076 CATATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTGTATT
Found at i:48718126 original size:27 final size:27
Alignment explanation
Indices: 48718082--48718354 Score: 341
Period size: 27 Copynumber: 10.1 Consensus size: 27
48718072 TGGATAAGTT
* *
48718082 GTAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
48718109 GTAGAATTACTGACATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
48718136 ATAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
48718163 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* ** * **
48718190 ATAGAATTACCAAAATACCCTTGTAAA
1 GTAGAATTACTGAAATACCCCTGTAGG
*
48718217 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
48718244 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
48718271 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
48718298 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * **
48718325 GTAGGACTACTGATTTACCCCTAG-AGG
1 GTAGAATTACTGAAATACCCCT-GTAGG
48718352 GTA
1 GTA
48718355 AAGTGACTAT
Statistics
Matches: 215, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 214 1.00
28 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Done.