Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 175 of 427
Found at i:48743498 original size:13 final size:13
Alignment explanation
Indices: 48743480--48743504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48743470 GTATTGATCA
48743480 TGTGTTCACACCT
1 TGTGTTCACACCT
48743493 TGTGTTCACACC
1 TGTGTTCACACC
48743505 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:48743861 original size:10 final size:10
Alignment explanation
Indices: 48743846--48743872 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48743836 TACTCCTTCA
48743846 AGCTCAAATC
1 AGCTCAAATC
48743856 AGCTCAAATC
1 AGCTCAAATC
48743866 AGCTCAA
1 AGCTCAA
48743873 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:48747924 original size:40 final size:39
Alignment explanation
Indices: 48747774--48747926 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
48747764 AAATGTTCGA
* *
48747774 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48747813 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48747852 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
48747891 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
48747927 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:48747942 original size:40 final size:39
Alignment explanation
Indices: 48747775--48747957 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
48747765 AATGTTCGAG
* * *
48747775 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48747814 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48747853 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
48747892 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
48747932 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48747958 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:48747993 original size:79 final size:79
Alignment explanation
Indices: 48747781--48747995 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
48747771 CGAGTGATAT
** * * * * * *
48747781 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
48747844 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
48747859 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
48747924 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
48747938 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
48747996 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:48755934 original size:40 final size:39
Alignment explanation
Indices: 48755784--48755936 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
48755774 AAATGTTCGA
* *
48755784 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48755823 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48755862 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
48755901 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
48755937 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:48755952 original size:40 final size:39
Alignment explanation
Indices: 48755785--48755967 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
48755775 AATGTTCGAG
* * *
48755785 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48755824 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48755863 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
48755902 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
48755942 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48755968 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:48756003 original size:79 final size:79
Alignment explanation
Indices: 48755791--48756005 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
48755781 CGAGTGATAT
** * * * * * *
48755791 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
48755854 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
48755869 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
48755934 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
48755948 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
48756006 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:48760593 original size:26 final size:24
Alignment explanation
Indices: 48760531--48760593 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
48760521 AGACATAATA
*
48760531 AAAACATGTAATGGACTAAGACATT
1 AAAACATGT-ATTGACTAAGACATT
**
48760556 AAAACAAATATTGACTAAGACTTATT
1 AAAACATGTATTGACTAAGAC--ATT
*
48760582 AAGACATGTATT
1 AAAACATGTATT
48760594 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 11 0.37
25 7 0.23
26 12 0.40
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.29
Consensus pattern (24 bp):
AAAACATGTATTGACTAAGACATT
Found at i:48762302 original size:30 final size:30
Alignment explanation
Indices: 48762268--48762364 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
48762258 TAAACTAAAA
*
48762268 TGAGCTAAGCTTTAGCTCGTGATCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
48762298 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
48762328 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
48762358 TGAGCTA
1 TGAGCTA
48762365 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:48770683 original size:31 final size:31
Alignment explanation
Indices: 48770647--48770709 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
48770637 AATTAAAGTA
48770647 AACTTTCAAATTGAGTAAAAACGCAGGATCG
1 AACTTTCAAATTGAGTAAAAACGCAGGATCG
48770678 AACTTTCAAATTGAGTAAAAACGCAGGATCG
1 AACTTTCAAATTGAGTAAAAACGCAGGATCG
48770709 A
1 A
48770710 TCACGATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (31 bp):
AACTTTCAAATTGAGTAAAAACGCAGGATCG
Found at i:48770862 original size:24 final size:24
Alignment explanation
Indices: 48770830--48770877 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48770820 TGACATTGTG
48770830 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
*
48770854 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
48770878 TGTGCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGGCAT
Found at i:48770968 original size:51 final size:51
Alignment explanation
Indices: 48770913--48771060 Score: 228
Period size: 51 Copynumber: 2.9 Consensus size: 51
48770903 TGAACCTTAG
48770913 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
48770964 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAAGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
48771015 GAATAAAATAGCTTTGG-CTACAAG-GATAGCACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
48771061 CGTGTCTCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
50 2 0.02
51 87 0.98
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:48773498 original size:29 final size:29
Alignment explanation
Indices: 48773453--48773512 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
48773443 AAGGATTCAA
*
48773453 AGATGGGTTTATAGATATGAAGTTTATGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
* *
48773482 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
48773511 AG
1 AG
48773513 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATAGATATAAAGTTTATGT
Found at i:48774532 original size:14 final size:14
Alignment explanation
Indices: 48774490--48774534 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
48774480 TTAAAGAAGC
48774490 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
48774504 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
48774517 AACTCATTTAATTA
1 AACTCATTAAATTA
48774531 AACT
1 AACT
48774535 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:48777035 original size:18 final size:18
Alignment explanation
Indices: 48777014--48777063 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
48777004 AAACTCTTTT
48777014 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
48777032 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
48777050 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
48777064 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:48777069 original size:24 final size:24
Alignment explanation
Indices: 48776989--48777066 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
48776979 CTTGTTCACA
*
48776989 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
48777013 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
48777037 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
48777061 TTCTTT
1 TTCTTT
48777067 TTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:48778415 original size:15 final size:15
Alignment explanation
Indices: 48778395--48778442 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
48778385 TCAAAGATGG
48778395 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
48778410 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
48778424 GTTTATGGATATAAA
1 GTTTATGGATATGAA
48778439 GTTT
1 GTTT
48778443 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:48778429 original size:14 final size:14
Alignment explanation
Indices: 48778389--48778432 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
48778379 AAGGATTCAA
48778389 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
48778403 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
48778418 AGATGGGTTTATGG
1 AGATGGGTTTATGG
48778432 A
1 A
48778433 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:48778458 original size:29 final size:29
Alignment explanation
Indices: 48778389--48778448 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
48778379 AAGGATTCAA
*
48778389 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
48778418 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
48778447 AG
1 AG
48778449 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:48779429 original size:14 final size:14
Alignment explanation
Indices: 48779387--48779431 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
48779377 TTAAAGAAGC
48779387 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
48779401 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
48779414 AACTCATTTAATTA
1 AACTCATTAAATTA
48779428 AACT
1 AACT
48779432 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:48781561 original size:50 final size:50
Alignment explanation
Indices: 48781506--48781640 Score: 193
Period size: 49 Copynumber: 2.7 Consensus size: 50
48781496 TTCAATATAG
48781506 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTG-
1 ATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGGCATCGATATGTGTGA
* * *
48781556 TTCCCATGTAAGACCATGTCTTGGAATGACATTGGCATCGATATGTGTGA
1 ATCCCATGTAAGACCATGTCTGGGAATGGCATTGGCATCGATATGTGTGA
**
48781606 AT-CCATGTAAGACCATAACTGGGATATGGCATTGG
1 ATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGG
48781641 TATCTTACTA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 42 0.56
50 33 0.44
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGAATGGCATTGGCATCGATATGTGTGA
Found at i:48784496 original size:48 final size:47
Alignment explanation
Indices: 48784377--48784783 Score: 338
Period size: 46 Copynumber: 8.7 Consensus size: 47
48784367 CAGTGCAGGT
* * *
48784377 GATATGTGTGCCAATGTAAGACATGTCTAGGACATGCATCGG-C-CA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA
* * * * *
48784422 CAT-TGCAAGAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGA
1 GATATG--TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-A
* *
48784471 GATATGTGTGCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCACA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA
* ** * *
48784518 -TTGCGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-A
*
48784565 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA
* * * * * * * *
48784610 CAT-TGCGAAAGCCAGTGCAAGACATGTCTAGGACTTGCATCAGCCTCGA
1 GATATGTG--TGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-A
*
48784659 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA
* * * * *
48784704 CAT-CGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCTTCGGCAT--
1 GATATGTG--TGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA
*
48784752 GATATGTGT-C-AGTGTAAGACCTGTCTGGGACA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACA
48784784 CGGCACAGAT
Statistics
Matches: 291, Mismatches: 50, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
44 20 0.07
45 17 0.06
46 113 0.39
47 20 0.07
48 107 0.37
49 9 0.03
50 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA
Found at i:48784507 original size:94 final size:93
Alignment explanation
Indices: 48784377--48784783 Score: 556
Period size: 94 Copynumber: 4.4 Consensus size: 93
48784367 CAGTGCAGGT
* * * *
48784377 GATATGTGTGCCAATGTAAGACATGTCTAGGACATGCATCGGCCACATTGCAAGAGCCAGTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCAA-AGCCAGTGTAA
*
48784442 GACATGTCTGGGACATGTATCGGCCTCGA
65 GACATGTCTGGGACATGCATCGGCCTCGA
* * * *
48784471 GATATGTGTGCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCACATTGCGAGAGCTAGTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGC-AAAGCCAGTGTAA
48784536 GACATGTCTGGGACATGCATCGGCCTCGA
65 GACATGTCTGGGACATGCATCGGCCTCGA
*
48784565 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGCAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGC-AAAGCCAGTGTAA
* * *
48784630 GACATGTCTAGGACTTGCATCAGCCTCGA
65 GACATGTCTGGGACATGCATCGGCCTCGA
*
48784659 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTG-AAAGCTAGTGTA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT--TGCAAAGCCAGTGTA
* *
48784723 AGACCATGTCTGGGACATGGCTTCGGCAT---
64 AGA-CATGTCTGGGACAT-GCATCGGCCTCGA
*
48784752 GATATGTGT-C-AGTGTAAGACCTGTCTGGGACA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACA
48784784 CGGCACAGAT
Statistics
Matches: 285, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
91 21 0.07
92 1 0.00
93 9 0.03
94 232 0.81
95 13 0.05
96 9 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (93 bp):
GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCAAAGCCAGTGTAAG
ACATGTCTGGGACATGCATCGGCCTCGA
Found at i:48788985 original size:2 final size:2
Alignment explanation
Indices: 48788978--48789007 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48788968 TGGCTCTAGC
48788978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48789008 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48789814 original size:40 final size:40
Alignment explanation
Indices: 48789716--48789895 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 40
48789706 TCGAATGGTG
* * *
48789716 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAA
* * *
48789757 TCCGGG-TCAATTCCCGAAGGCATTCGTGTGAGTTACCAAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGTGAGTTA-CTAAA
* *
48789798 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
* * * * *
48789837 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-AA
*
48789878 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
48789896 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
39 5 0.04
40 81 0.69
41 31 0.26
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
Found at i:48789891 original size:80 final size:81
Alignment explanation
Indices: 48789717--48789895 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
48789707 CGAATGGTGT
*
48789717 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTC
* * *
48789782 GTGTGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * * *
48789798 TCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGC-AT
* *
48789861 T-GTGCGAATCACTATAA
64 TCGTGCGAATCACCAAAA
*
48789878 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48789896 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 54 0.65
81 28 0.34
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTC
GTGCGAATCACCAAAA
Found at i:48792942 original size:14 final size:12
Alignment explanation
Indices: 48792913--48792951 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
48792903 TGGAAAAAAT
48792913 AAAAAAAAGTTC
1 AAAAAAAAGTTC
48792925 AAAAAAGAAGTTC
1 AAAAAA-AAGTTC
*
48792938 GAAAAAAA-TTC
1 AAAAAAAAGTTC
48792949 AAA
1 AAA
48792952 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.21
12 8 0.33
13 11 0.46
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (12 bp):
AAAAAAAAGTTC
Found at i:48794467 original size:30 final size:30
Alignment explanation
Indices: 48794433--48794529 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
48794423 AGCTCACTCC
48794433 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
48794463 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
48794493 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
48794523 TAGCTCA
1 TAGCTCA
48794530 TTTTTGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:48796753 original size:16 final size:17
Alignment explanation
Indices: 48796734--48796770 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
48796724 AGAAGATTGT
*
48796734 AAAAAAATAA-AAGAAG
1 AAAAAAATAAGAAAAAG
48796750 AAAAAAATAAGAAAAAG
1 AAAAAAATAAGAAAAAG
48796767 AAAA
1 AAAA
48796771 CAAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAATAAGAAAAAG
Found at i:48805711 original size:28 final size:28
Alignment explanation
Indices: 48805646--48805746 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48805636 ATAGTGAATC
*
48805646 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
48805675 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48805703 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
48805733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48805747 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48813661 original size:28 final size:28
Alignment explanation
Indices: 48813596--48813696 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48813586 ATAGTGAATC
*
48813596 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
48813625 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48813653 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
48813683 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48813697 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48819961 original size:49 final size:49
Alignment explanation
Indices: 48819895--48820073 Score: 214
Period size: 50 Copynumber: 3.6 Consensus size: 49
48819885 TAGCCAAAGC
* * *
48819895 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
48819944 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** *
48819994 CATCTGATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATCACATT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
48820045 TTTCGGGTACGCATAGTAGCCTGCACTTA
1 TATCTGGTACACATAGTAGCCTGCACTTA
48820074 TGATATGACC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 42 0.38
50 43 0.39
51 24 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:48820598 original size:17 final size:18
Alignment explanation
Indices: 48820566--48820600 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48820556 ATAATTTTTA
48820566 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
48820584 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
48820601 TGTGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:48820701 original size:24 final size:24
Alignment explanation
Indices: 48820674--48820728 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
48820664 GCCTAGACAG
* * *
48820674 ATTTAATGAGCTGCTGGTTGATGA
1 ATTTAATGAGCAGCTGGTGGACGA
48820698 ATTTAATGAGCAGCTGGTGGACGA
1 ATTTAATGAGCAGCTGGTGGACGA
48820722 ATTTAAT
1 ATTTAAT
48820729 ATGTCCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.35
Consensus pattern (24 bp):
ATTTAATGAGCAGCTGGTGGACGA
Found at i:48821681 original size:20 final size:21
Alignment explanation
Indices: 48821658--48821705 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
48821648 AGCTCCGTCC
48821658 AGCTCAACT-CAGCTCATTTG
1 AGCTCAACTCCAGCTCATTTG
** *
48821678 AGCTC-GTTCCAGCTCGTTTG
1 AGCTCAACTCCAGCTCATTTG
48821698 AGCTCAAC
1 AGCTCAAC
48821706 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (21 bp):
AGCTCAACTCCAGCTCATTTG
Found at i:48821711 original size:20 final size:19
Alignment explanation
Indices: 48821658--48821711 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48821648 AGCTCCGTCC
48821658 AGCTCAACTCAGCTCATTTG
1 AGCTCAAC-CAGCTCATTTG
** *
48821678 AGCTCGTTCCAGCTCGTTTG
1 AGCTC-AACCAGCTCATTTG
48821698 AGCTCAACCGAGCT
1 AGCTCAACC-AGCT
48821712 TACTTTCAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (19 bp):
AGCTCAACCAGCTCATTTG
Found at i:48824236 original size:18 final size:18
Alignment explanation
Indices: 48824188--48824237 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
48824178 GAAAGAAAAA
* *
48824188 GAAAAAGAGATTAAGAGT
1 GAAAAAGAGAATGAGAGT
* *
48824206 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
48824224 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
48824238 AAAAGAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:48824291 original size:18 final size:19
Alignment explanation
Indices: 48824255--48824293 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48824245 TTTGAGAGAG
*
48824255 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
48824274 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
48824292 AA
1 AA
48824294 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:48828296 original size:27 final size:27
Alignment explanation
Indices: 48828273--48828396 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
48828263 CAATTTACAG
48828273 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
48828300 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
48828327 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
48828354 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
48828381 AATTACTAAAATACCC
1 AATTACCAAAATACCC
48828397 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:48828332 original size:54 final size:54
Alignment explanation
Indices: 48828273--48828396 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
48828263 CAATTTACAG
* * *
48828273 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGAAA
* *
48828327 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGAAA
48828381 AATTACTAAAATACCC
1 AATTACTAAAATACCC
48828397 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTGAAA
Found at i:48828358 original size:81 final size:81
Alignment explanation
Indices: 48828273--48828425 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
48828263 CAATTTACAG
* **
48828273 AATTACCAAAATACCCTTGGTTT-ATAAAATCACCAAAATACCCCTGGT-TTGTAAAATTACTAA
1 AATTACCAAAATACCCATGGTTTGA-AAAATCACCAAAATACCCCT-GTAGGGTAAAATTACTAA
48828336 AATACCCTTTGTTTATAA
64 AATACCCTTTGTTTATAA
* * *
48828354 AATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGTAAAATTACTGAAA
1 AATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTAAAA
48828419 TACCCTT
66 TACCCTT
48828426 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:48828409 original size:27 final size:27
Alignment explanation
Indices: 48828379--48828440 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
48828369 CATGGTTTGA
48828379 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
48828406 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
48828433 AAAATTAC
1 AAAATTAC
48828441 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:48828409 original size:54 final size:54
Alignment explanation
Indices: 48828273--48828423 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
48828263 CAATTTACAG
* ** * * *
48828273 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
48828327 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
48828381 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
48828424 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:48829093 original size:28 final size:28
Alignment explanation
Indices: 48829060--48829156 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
48829050 GCGTAGATCA
48829060 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48829088 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48829116 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48829144 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
48829157 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48833595 original size:19 final size:19
Alignment explanation
Indices: 48833553--48833595 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48833543 ATTATGATTC
48833553 AAAAATAAGCTACAATACA
1 AAAAATAAGCTACAATACA
* *
48833572 TAAAATATGCTGA-AATACA
1 AAAAATAAGCT-ACAATACA
48833591 AAAAA
1 AAAAA
48833596 CATAATAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAAATAAGCTACAATACA
Found at i:48833959 original size:30 final size:30
Alignment explanation
Indices: 48833924--48833984 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
48833914 TCCTTAACTC
48833924 AAAC-TTTGACAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
48833954 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
48833984 A
1 A
48833985 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:48836827 original size:16 final size:16
Alignment explanation
Indices: 48836806--48836838 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48836796 ATGTAATGCC
48836806 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
48836822 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
48836838 C
1 C
48836839 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:48838082 original size:23 final size:23
Alignment explanation
Indices: 48838032--48838081 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
48838022 ATGAATCGGT
* * *
48838032 AAAAGCCAAAATGCTGAAATGCG
1 AAAAGCCAAAATACCGAAAAGCG
48838055 AAAAGCCAAAATACCGAAAAGCTG
1 AAAAGCCAAAATACCGAAAAGC-G
48838079 AAA
1 AAA
48838082 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.10
Consensus pattern (23 bp):
AAAAGCCAAAATACCGAAAAGCG
Found at i:48838329 original size:29 final size:28
Alignment explanation
Indices: 48838277--48838389 Score: 109
Period size: 29 Copynumber: 4.0 Consensus size: 28
48838267 GTGAGCATGA
* *
48838277 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
48838305 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * * *
48838334 ATGTACAGGTGATTTGGGACTAATGGGCT
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
48838363 ATATGAATATGAATGGGCTTAATGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
48838390 AGATATAGGT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
28 23 0.33
29 46 0.67
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:48841318 original size:34 final size:34
Alignment explanation
Indices: 48841274--48841341 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
48841264 GATTTCGTGT
48841274 AAGACCATATTTGGGATATAACATCGATATGAGA
1 AAGACCATATTTGGGATATAACATCGATATGAGA
* *
48841308 AAGACTATATTTGGGATATGACATCGATATGAGA
1 AAGACCATATTTGGGATATAACATCGATATGAGA
48841342 CTTCGTGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (34 bp):
AAGACCATATTTGGGATATAACATCGATATGAGA
Found at i:48846122 original size:16 final size:17
Alignment explanation
Indices: 48846092--48846128 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
48846082 CTCTCTTTTG
*
48846092 TTTTCTTTTTCTTATTT
1 TTTTCTTCTTCTTATTT
48846109 TTTTCTTCTT-TTATTT
1 TTTTCTTCTTCTTATTT
48846125 TTTT
1 TTTT
48846129 ACAATCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTCTTCTTATTT
Found at i:48848420 original size:30 final size:30
Alignment explanation
Indices: 48848335--48848431 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
48848325 TAAACAAAAA
* *
48848335 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
48848365 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
48848395 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
48848424 ATGAGCTA
1 -TGAGCTA
48848432 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:48849939 original size:13 final size:12
Alignment explanation
Indices: 48849909--48849947 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
48849899 CAAAAAAAAA
48849909 TTTGAA-TTTTT
1 TTTGAACTTTTT
*
48849920 TTCGAACTTCTTT
1 TTTGAACTT-TTT
48849933 TTTGAACTTTTT
1 TTTGAACTTTTT
48849945 TTT
1 TTT
48849948 TATTTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.21
12 8 0.33
13 11 0.46
ACGTcount: A:0.15, C:0.10, G:0.08, T:0.67
Consensus pattern (12 bp):
TTTGAACTTTTT
Found at i:48849972 original size:19 final size:20
Alignment explanation
Indices: 48849937--48850008 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 20
48849927 TTCTTTTTTG
*
48849937 AACTTTTTTTTTATTTTTTCC
1 AACTTTTTTTGT-TTTTTTCC
*
48849958 AA-TTTTTTTGTTTTTTT-G
1 AACTTTTTTTGTTTTTTTCC
*
48849976 AACTTTTTTTCGATTTTTTTCAA
1 AACTTTTTTT-G-TTTTTTTC-C
48849999 AACTTTTTTT
1 AACTTTTTTT
48850009 TCAATTACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 2 0.05
19 13 0.30
20 9 0.21
21 9 0.21
23 10 0.23
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (20 bp):
AACTTTTTTTGTTTTTTTCC
Found at i:48853021 original size:40 final size:40
Alignment explanation
Indices: 48852966--48853145 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
48852956 GCTCGATTGT
* * *
48852966 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
48853006 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
48853046 CTTCGGGACTTAACCC-GATTTTGGTAACTCACACGAATGC
1 CTTCGGGAATTAGCCCGGA-TTTAGTAACTCGCACAAATGC
* * *
48853086 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
48853127 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
48853146 CACCATTCGA
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 3 0.03
40 84 0.72
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:48853861 original size:2 final size:2
Alignment explanation
Indices: 48853854--48853885 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48853844 ATGTGCAAAC
48853854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48853886 GCTAGAGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48861562 original size:14 final size:14
Alignment explanation
Indices: 48861540--48861587 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48861530 ACCTAAACCG
* *
48861540 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
48861554 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
48861568 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
48861582 ACCATT
1 ACCATT
48861588 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:48867161 original size:19 final size:19
Alignment explanation
Indices: 48867137--48867176 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48867127 AGCTCCCATG
48867137 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
48867156 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
48867175 TA
1 TA
48867177 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:48868434 original size:14 final size:14
Alignment explanation
Indices: 48868412--48868459 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48868402 ACCTAAACCG
* *
48868412 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
48868426 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
48868440 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
48868454 ACCATT
1 ACCATT
48868460 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:48870294 original size:17 final size:18
Alignment explanation
Indices: 48870274--48870312 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
48870264 TGCACACACA
48870274 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
48870291 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
48870309 AATT
1 AATT
48870313 TTCGATTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:48873216 original size:30 final size:30
Alignment explanation
Indices: 48873130--48873227 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
48873120 TTAAACTAAA
* *
48873130 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
48873160 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
48873190 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
48873220 ATGAGCTA
1 ATGAGCTA
48873228 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:48875510 original size:30 final size:30
Alignment explanation
Indices: 48875439--48875521 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
48875429 CTTTTGTTTC
* *
48875439 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
48875470 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
48875499 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
48875522 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:48875521 original size:18 final size:18
Alignment explanation
Indices: 48875472--48875527 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
48875462 CACTCTCAAA
* *
48875472 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
48875489 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
48875507 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
48875526 TT
1 TT
48875528 CAAAGACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:48875528 original size:12 final size:12
Alignment explanation
Indices: 48875497--48875521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48875487 TTTTTCAATC
48875497 TCATTTTCTTTT
1 TCATTTTCTTTT
48875509 TCATTTTCTTTT
1 TCATTTTCTTTT
48875521 T
1 T
48875522 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:48875539 original size:12 final size:12
Alignment explanation
Indices: 48875524--48875554 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48875514 TTCTTTTTGC
48875524 TTTTCAAAGACT
1 TTTTCAAAGACT
*
48875536 TTTTCAAAGGCT
1 TTTTCAAAGACT
48875548 TTTTCAA
1 TTTTCAA
48875555 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:48875651 original size:16 final size:16
Alignment explanation
Indices: 48875632--48875670 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
48875622 TTTCGTTTTC
48875632 TTTTTCTTCT-TTTGT
1 TTTTTCTTCTCTTTGT
*
48875647 TTTTTCTTTTCTTTGT
1 TTTTTCTTCTCTTTGT
*
48875663 TTTCTCTT
1 TTTTTCTT
48875671 TACAAGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTTCTTCTCTTTGT
Found at i:48875665 original size:21 final size:22
Alignment explanation
Indices: 48875607--48875666 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
48875597 GCCTCTTGCC
*
48875607 TCTCTTTTCTTTTTATTTCGTTT
1 TCTCTTTTCTTTCT-TTTCGTTT
48875630 TCT-TTTTC-TTCTTTT-GTTT
1 TCTCTTTTCTTTCTTTTCGTTT
* *
48875649 TTTCTTTTCTTTGTTTTC
1 TCTCTTTTCTTTCTTTTC
48875667 TCTTTACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.19
20 8 0.26
21 9 0.29
22 5 0.16
23 3 0.10
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (22 bp):
TCTCTTTTCTTTCTTTTCGTTT
Found at i:48875671 original size:16 final size:16
Alignment explanation
Indices: 48875611--48875671 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
48875601 CTTGCCTCTC
*
48875611 TTTTCT-TTTTATTTCG
1 TTTTCTCTTTTCTTT-G
*
48875627 TTTTCTTTTTCTTCTTTTG
1 TTTTC-TCTT-TTC-TTTG
*
48875646 TTTTTTCTTTTCTTTG
1 TTTTCTCTTTTCTTTG
48875662 TTTTCTCTTT
1 TTTTCTCTTT
48875672 ACAAGAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 18 0.49
17 4 0.11
18 5 0.14
19 7 0.19
20 3 0.08
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTCTCTTTTCTTTG
Found at i:48876601 original size:13 final size:13
Alignment explanation
Indices: 48876583--48876626 Score: 74
Period size: 12 Copynumber: 3.5 Consensus size: 13
48876573 ACTCTTTTTC
48876583 TTTTTTTCG-ATT
1 TTTTTTTCGAATT
48876595 TTTTTTTC-AATT
1 TTTTTTTCGAATT
48876607 TTTTTTTCGAATT
1 TTTTTTTCGAATT
48876620 TTTTTTT
1 TTTTTTT
48876627 AACTTGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:48877895 original size:30 final size:31
Alignment explanation
Indices: 48877861--48877957 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
48877851 AGCTCACTCC
*
48877861 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
48877891 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
48877921 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
48877951 TAGCTCA
1 TAGCTCA
48877958 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:48879612 original size:68 final size:70
Alignment explanation
Indices: 48879540--48879737 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
48879530 ACACCCTGTA
* * * *
48879540 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
48879602 ATAAAT
65 ATAAAT
*
48879608 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
48879673 ATAAAT
65 ATAAAT
*
48879679 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
48879738 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:48879651 original size:41 final size:41
Alignment explanation
Indices: 48879606--48879723 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48879596 TGAAAGATAA
48879606 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48879647 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48879677 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48879718 ATGTAG
1 ATGTAG
48879724 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48879663 original size:71 final size:71
Alignment explanation
Indices: 48879574--48879737 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48879564 GAGATGTATC
48879574 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48879639 AGGACA
66 AGGACA
48879645 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48879710 AGGACA
66 AGGACA
48879716 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48879738 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48887175 original size:68 final size:70
Alignment explanation
Indices: 48887103--48887300 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
48887093 ACACCCTGTA
* * * *
48887103 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
48887165 ATAAAT
65 ATAAAT
*
48887171 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
48887236 ATAAAT
65 ATAAAT
*
48887242 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
48887301 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:48887214 original size:41 final size:41
Alignment explanation
Indices: 48887169--48887286 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48887159 TGAAAGATAA
48887169 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48887210 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48887240 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48887281 ATGTAG
1 ATGTAG
48887287 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48887226 original size:71 final size:71
Alignment explanation
Indices: 48887137--48887300 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48887127 GAGATGTATC
48887137 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48887202 AGGACA
66 AGGACA
48887208 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48887273 AGGACA
66 AGGACA
48887279 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48887301 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48889998 original size:11 final size:12
Alignment explanation
Indices: 48889975--48890027 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
48889965 ATAAGTCAAG
48889975 AAAAATTCGAAA
1 AAAAATTCGAAA
*
48889987 AAAAATTCAAAA
1 AAAAATTCGAAA
48889999 AAAAATTCGAAA
1 AAAAATTCGAAA
48890011 AAAAA-TCTGAAA
1 AAAAATTC-GAAA
48890023 AAAAA
1 AAAAA
48890028 AGTGTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 2 0.05
12 36 0.95
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAATTCGAAA
Found at i:48890002 original size:24 final size:25
Alignment explanation
Indices: 48889975--48890028 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
48889965 ATAAGTCAAG
48889975 AAAAATTCGAAAAAAAAT-TCAAAA
1 AAAAATTCGAAAAAAAATCTCAAAA
*
48889999 AAAAATTCGAAAAAAAATCTGAAAA
1 AAAAATTCGAAAAAAAATCTCAAAA
48890024 AAAAA
1 AAAAA
48890029 GTGTTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (25 bp):
AAAAATTCGAAAAAAAATCTCAAAA
Found at i:48890955 original size:9 final size:10
Alignment explanation
Indices: 48890948--48891004 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
48890938 AAGAGAAAAT
48890948 AAAGAAAAGA
1 AAAGAAAAGA
48890958 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
48890970 AAAGAAGA-A
1 AAAGAAAAGA
48890979 AAAGAAAATGA
1 AAAGAAAA-GA
48890990 AATA-AAAAGA
1 AA-AGAAAAGA
48891000 AAAGA
1 AAAGA
48891005 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:48890972 original size:6 final size:5
Alignment explanation
Indices: 48890948--48891004 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
48890938 AAGAGAAAAT
*
48890948 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
48890995 AAAGA AAAGA
1 AAAGA AAAGA
48891005 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:48890979 original size:15 final size:14
Alignment explanation
Indices: 48890948--48891004 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
48890938 AAGAGAAAAT
48890948 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
48890964 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
48890979 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
48890995 AAAGAAAAGA
1 AAAGAAAAGA
48891005 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:48891130 original size:30 final size:31
Alignment explanation
Indices: 48891096--48891166 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
48891086 AACAGAAAAT
* *
48891096 GAAAAAGAAA-ATGAGATTGAAAAA-AAGAAC
1 GAAAAAGAAATATGAGAGTAAAAAAGAAG-AC
* *
48891126 G-AAAAGAAATTTGAGAGTAAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTAAAAAAGAAGAC
48891156 GAAAAAGAAAT
1 GAAAAAGAAAT
48891167 TGAAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 8 0.24
30 14 0.41
31 12 0.35
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTAAAAAAGAAGAC
Found at i:48893314 original size:30 final size:31
Alignment explanation
Indices: 48893280--48893376 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
48893270 AGCTCACTCC
*
48893280 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
48893310 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
48893340 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
48893370 TAGCTCA
1 TAGCTCA
48893377 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:48895089 original size:11 final size:12
Alignment explanation
Indices: 48895066--48895118 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
48895056 ATAAGTCAAG
48895066 AAAAATTCGAAA
1 AAAAATTCGAAA
*
48895078 AAAAATTCAAAA
1 AAAAATTCGAAA
48895090 AAAAATTCGAAA
1 AAAAATTCGAAA
48895102 AAAAA-TCTGAAA
1 AAAAATTC-GAAA
48895114 AAAAA
1 AAAAA
48895119 AGTGTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 2 0.05
12 36 0.95
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAATTCGAAA
Found at i:48895093 original size:24 final size:25
Alignment explanation
Indices: 48895066--48895119 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
48895056 ATAAGTCAAG
48895066 AAAAATTCGAAAAAAAAT-TCAAAA
1 AAAAATTCGAAAAAAAATCTCAAAA
*
48895090 AAAAATTCGAAAAAAAATCTGAAAA
1 AAAAATTCGAAAAAAAATCTCAAAA
48895115 AAAAA
1 AAAAA
48895120 GTGTTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (25 bp):
AAAAATTCGAAAAAAAATCTCAAAA
Found at i:48896042 original size:9 final size:10
Alignment explanation
Indices: 48896035--48896091 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
48896025 AAGAGAAAAT
48896035 AAAGAAAAGA
1 AAAGAAAAGA
48896045 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
48896057 AAAGAAGA-A
1 AAAGAAAAGA
48896066 AAAGAAAATGA
1 AAAGAAAA-GA
48896077 AATA-AAAAGA
1 AA-AGAAAAGA
48896087 AAAGA
1 AAAGA
48896092 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:48896059 original size:6 final size:5
Alignment explanation
Indices: 48896035--48896091 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
48896025 AAGAGAAAAT
*
48896035 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
48896082 AAAGA AAAGA
1 AAAGA AAAGA
48896092 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:48896066 original size:15 final size:14
Alignment explanation
Indices: 48896035--48896091 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
48896025 AAGAGAAAAT
48896035 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
48896051 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
48896066 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
48896082 AAAGAAAAGA
1 AAAGAAAAGA
48896092 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:48896168 original size:12 final size:12
Alignment explanation
Indices: 48896139--48896168 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
48896129 TTGAGAGAAC
48896139 TTGAAAAAGCCT
1 TTGAAAAAGCCT
48896151 TT-AAAAAGCCT
1 TTGAAAAAGCCT
48896162 TTGAAAA
1 TTGAAAA
48896169 GCAAACAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:48896216 original size:30 final size:31
Alignment explanation
Indices: 48896182--48896252 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
48896172 AACAGAAAAT
* *
48896182 GAAAAAGAAA-ATGAGATTGAAAAA-AAGAAC
1 GAAAAAGAAATATGAGAGTAAAAAAGAAG-AC
* *
48896212 G-AAAAGAAATTTGAGAGTAAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTAAAAAAGAAGAC
48896242 GAAAAAGAAAT
1 GAAAAAGAAAT
48896253 TGAAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 8 0.24
30 14 0.41
31 12 0.35
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTAAAAAAGAAGAC
Found at i:48898461 original size:30 final size:30
Alignment explanation
Indices: 48898366--48898462 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
48898356 AGCTCACTCC
* *
48898366 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAAC-TTCAGCTCACGAGCTAAAGCT
* * **
48898396 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAG-CT
* **
48898426 CAGCTCAACTTTTGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
48898456 TAGCTCA
1 TAGCTCA
48898463 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.86
31 5 0.10
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAAGCT
Found at i:48898899 original size:14 final size:14
Alignment explanation
Indices: 48898876--48898912 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48898866 AGTAGAAGAG
*
48898876 GGGTACGAATGAAA
1 GGGTAGGAATGAAA
*
48898890 TGGTAGGAATGAAA
1 GGGTAGGAATGAAA
48898904 GGGTAGGAA
1 GGGTAGGAA
48898913 CAAAAGGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.41, T:0.16
Consensus pattern (14 bp):
GGGTAGGAATGAAA
Found at i:48905414 original size:9 final size:9
Alignment explanation
Indices: 48905400--48905444 Score: 72
Period size: 9 Copynumber: 4.8 Consensus size: 9
48905390 TAAATCACTC
48905400 TTTTTTTTA
1 TTTTTTTTA
48905409 TTTTTTTTTTA
1 --TTTTTTTTA
48905420 TTTTTTTTA
1 TTTTTTTTA
48905429 TTTTTTTTA
1 TTTTTTTTA
48905438 TTTTTTT
1 TTTTTTT
48905445 AACTTGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 25 0.74
11 9 0.26
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:48905464 original size:1 final size:1
Alignment explanation
Indices: 48905400--48905444 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
48905390 TAAATCACTC
* * * *
48905400 TTTTTTTTATTTTTTTTTTATTTTTTTTATTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
48905445 AACTTGTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:48905834 original size:14 final size:14
Alignment explanation
Indices: 48905817--48905856 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48905807 CGAATGGAAT
*
48905817 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
48905831 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
48905845 GATATGAACAAA
1 GGTAGGAACAAA
48905857 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:48909303 original size:15 final size:15
Alignment explanation
Indices: 48909283--48909317 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48909273 ATAAAACACC
*
48909283 TCTTTTTTTTTTAAT
1 TCTTTTTTTCTTAAT
48909298 TCTTTTTTTCTTAAT
1 TCTTTTTTTCTTAAT
48909313 T-TTTT
1 TCTTTT
48909318 CGATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (15 bp):
TCTTTTTTTCTTAAT
Found at i:48910153 original size:14 final size:14
Alignment explanation
Indices: 48910106--48910153 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48910096 GTACGAATGG
*
48910106 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
48910120 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
48910134 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
48910148 ATTGGT
1 AATGGT
48910154 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:48912411 original size:17 final size:18
Alignment explanation
Indices: 48912391--48912429 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
48912381 TACACACACA
48912391 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
48912408 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
48912426 AATT
1 AATT
48912430 TTCGGTTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:48913383 original size:27 final size:27
Alignment explanation
Indices: 48913353--48913415 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
48913343 TTGTGTCGTT
*
48913353 AATACCCCTAGT-TTGTAAAATTACCGA
1 AATACCCCTA-TAGTGTAAAATTACCGA
* *
48913380 AATACCCTTATAGTGTAAAATTATCGA
1 AATACCCCTATAGTGTAAAATTACCGA
*
48913407 GATACCCCT
1 AATACCCCT
48913416 GTAAGGTAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (27 bp):
AATACCCCTATAGTGTAAAATTACCGA
Found at i:48914944 original size:30 final size:30
Alignment explanation
Indices: 48914910--48915006 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
48914900 TAAACTAAAA
*
48914910 TGAGCTATGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
48914940 TGAGCTGAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
48914970 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
48915000 TGAGCTA
1 TGAGCTA
48915007 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.83
31 7 0.13
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:48916179 original size:14 final size:14
Alignment explanation
Indices: 48916160--48916204 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
48916150 AACTCATCTT
*
48916160 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
48916174 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
48916187 AATTTAATTTAATG
1 AGTTTAATTTAATG
48916201 AGTT
1 AGTT
48916205 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:48917450 original size:14 final size:14
Alignment explanation
Indices: 48917431--48917472 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
48917421 AACTCATCTT
*
48917431 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
48917445 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
48917458 AATTTAATTTAATG
1 AGTTTAATTTAATG
48917472 A
1 A
48917473 CTTGCTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:48920578 original size:3 final size:3
Alignment explanation
Indices: 48920570--48920606 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48920560 CTATGACTTG
48920570 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48920607 TCCATTTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48922119 original size:30 final size:30
Alignment explanation
Indices: 48922034--48922121 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
48922024 TGAGCTAAAA
* *
48922034 TGAGCTAAGCTTTAGC-CCTTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCC-TAAGCTGAAGT
*
48922064 TGAGCTGAGATTATA-CTCCTAAGCTGAAGT
1 TGAGCTAAGATT-TAGCTCCTAAGCTGAAGT
* * *
48922094 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGATTTAGCTCCTAAGCTGAA
48922122 TATAAGCTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 42 0.88
31 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCCTAAGCTGAAGT
Found at i:48922172 original size:20 final size:21
Alignment explanation
Indices: 48922147--48922191 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
48922137 AGCTCGGTTT
* *
48922147 AGCTCAGACAAGTTGGA-TTG
1 AGCTCAAACAAGCTGGATTTG
*
48922167 AGCTCAAATAAGCTGGATTTG
1 AGCTCAAACAAGCTGGATTTG
48922188 AGCT
1 AGCT
48922192 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (21 bp):
AGCTCAAACAAGCTGGATTTG
Found at i:48926651 original size:30 final size:30
Alignment explanation
Indices: 48926615--48926715 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
48926605 AGCTCACTCC
*
48926615 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
** * * * * *
48926645 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
* * *
48926675 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTC-ATTTTCAGCTCACGAGCTAAACCT
48926705 TAGCTCATTTT
1 TAGCTCATTTT
48926716 AGTTTAAACT
Statistics
Matches: 51, Mismatches: 19, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TAGCTCATTTTCAGCTCACGAGCTAAACCT
Found at i:48929404 original size:20 final size:21
Alignment explanation
Indices: 48929366--48929415 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
48929356 ACATTCTTGT
48929366 AAAGAGAAAACAAAGAGAAG-A
1 AAAGA-AAAACAAAGAGAAGAA
48929387 AAAGAAAAAGCAAA-AGAAGAA
1 AAAGAAAAA-CAAAGAGAAGAA
48929408 AAAGAAAA
1 AAAGAAAA
48929416 TGAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAAAACAAAGAGAAGAA
Found at i:48929528 original size:12 final size:12
Alignment explanation
Indices: 48929513--48929575 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
48929503 TTTGGAAAAC
*
48929513 AAAAAGGAAATG
1 AAAAAGAAAATG
48929525 AAAAAGAAAATG
1 AAAAAGAAAATG
* ** * *
48929537 AGATTGAGAGTG
1 AAAAAGAAAATG
*
48929549 AAAAAGAAGATG
1 AAAAAGAAAATG
*
48929561 AAAAAGAAATTG
1 AAAAAGAAAATG
48929573 AAA
1 AAA
48929576 CAAAAGGAAC
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:48931366 original size:13 final size:13
Alignment explanation
Indices: 48931348--48931372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48931338 TAACCTACAA
48931348 AATTAAATAACAT
1 AATTAAATAACAT
48931361 AATTAAATAACA
1 AATTAAATAACA
48931373 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:48935457 original size:30 final size:30
Alignment explanation
Indices: 48935423--48935519 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
48935413 TAAACTAAAA
48935423 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
48935453 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
48935483 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
48935513 TGAGCTA
1 TGAGCTA
48935520 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:48935605 original size:21 final size:21
Alignment explanation
Indices: 48935581--48935631 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
48935571 GATTTGAGCT
* *
48935581 AGACGGAGCTCGTGGAGTTGG
1 AGACGGAGCTCATGGAGCTGG
48935602 AGACGGAGCTCATGGAGCTGG
1 AGACGGAGCTCATGGAGCTGG
*
48935623 AAAC-GAGCT
1 AGACGGAGCT
48935632 TGGATCAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.25, C:0.18, G:0.41, T:0.16
Consensus pattern (21 bp):
AGACGGAGCTCATGGAGCTGG
Found at i:48937637 original size:13 final size:13
Alignment explanation
Indices: 48937619--48937643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48937609 TAACCTACAA
48937619 AATTAAATAACAT
1 AATTAAATAACAT
48937632 AATTAAATAACA
1 AATTAAATAACA
48937644 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:48941305 original size:24 final size:23
Alignment explanation
Indices: 48941269--48941322 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
48941259 ATTAAGACCT
*
48941269 AATTAACTAATTTAACTAACAGCA
1 AATTAAATAATTTAA-TAACAGCA
* * **
48941293 AATTAAATGATTTTATTCCAGCA
1 AATTAAATAATTTAATAACAGCA
48941316 AATTAAA
1 AATTAAA
48941323 CTTAAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (23 bp):
AATTAAATAATTTAATAACAGCA
Found at i:48942173 original size:30 final size:30
Alignment explanation
Indices: 48942139--48942235 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
48942129 AGCTCACTCC
48942139 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
48942169 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
48942199 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
48942229 TAGCTCA
1 TAGCTCA
48942236 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:48946162 original size:12 final size:12
Alignment explanation
Indices: 48946144--48946177 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48946134 TCCCTCGTTT
48946144 CTTTTCACTCAC
1 CTTTTCACTCAC
* *
48946156 TTTTTCACACAC
1 CTTTTCACTCAC
48946168 CTTTTCACTC
1 CTTTTCACTC
48946178 TTTTCTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTTTCACTCAC
Found at i:48948748 original size:46 final size:46
Alignment explanation
Indices: 48948695--48948870 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
48948685 TATTTGGGCA
*
48948695 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
48948741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
48948788 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
48948834 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48948871 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 69 0.64
47 38 0.36
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:48948850 original size:93 final size:93
Alignment explanation
Indices: 48948691--48948863 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
48948681 GGGATATTTG
* * *
48948691 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
48948756 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
48948784 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
48948849 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
48948864 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48952211 original size:14 final size:14
Alignment explanation
Indices: 48952164--48952211 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48952154 GTACGAATGG
*
48952164 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
48952178 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
48952192 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
48952206 ATTGGT
1 AATGGT
48952212 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:48954421 original size:24 final size:23
Alignment explanation
Indices: 48954385--48954438 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
48954375 ATTAAGACCT
*
48954385 AATTAACTAATTTAACTAACAGCA
1 AATTAAATAATTTAA-TAACAGCA
* * **
48954409 AATTAAATGATTTTATTCCAGCA
1 AATTAAATAATTTAATAACAGCA
48954432 AATTAAA
1 AATTAAA
48954439 CGTAAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (23 bp):
AATTAAATAATTTAATAACAGCA
Done.