Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 191 of 438
Found at i:59296786 original size:69 final size:69
Alignment explanation
Indices: 59296708--59297021 Score: 314
Period size: 69 Copynumber: 4.5 Consensus size: 69
59296698 AGTTCTTCGT
* * * * * *
59296708 TTGCGAGCCTTAATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGC-AGCTT
1 TTGC-AGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTACGA-CTC
*
59296772 TTTG-C
64 TTCGCC
* *
59296777 TTGCAAGCCTTGATCTTACAATTGGGAGCTTTACTCTCGCTAACTATTTTGGAGGCTACGACTCT
1 TTGC-AGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTACGACTCT
59296842 TCGCC
65 TCGCC
* * *
59296847 TATG-AGCCTTGGTCTTACAGTTGGGAGCTTTGCTCTCGCTAACTTTTTTGGAGGCTACAACTCT
1 T-TGCAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTACGACTCT
**
59296911 TCAAC
65 TCGCC
* * * * * *
59296916 TATG-AGCCTTGATATTATAGCTGGGAGTTTTGCTCTTGCTAACTATTTTGGAGGCTCCGACTCT
1 T-TGCAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTACGACTCT
*
59296980 TC-AC
65 TCGCC
* * **
59296984 TTGCGAGCCTTGATATTACAATTGAAAGCTTTGCTCTC
1 TTGC-AGCCTTGATCTTACAGTTGGGAGCTTTGCTCTC
59297022 CTACAAGCCT
Statistics
Matches: 207, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
67 2 0.01
68 3 0.01
69 197 0.95
70 3 0.01
71 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (69 bp):
TTGCAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTACGACTCTT
CGCC
Found at i:59296992 original size:138 final size:137
Alignment explanation
Indices: 59296708--59297021 Score: 360
Period size: 138 Copynumber: 2.3 Consensus size: 137
59296698 AGTTCTTCGT
* * * *
59296708 TTGCGAGCCTTAATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGTTGCAGCTTT
1 TTGCGAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTACAACTTT
*** * *
59296773 TTGCTTGCAAGCCTTGATCTTACAATTGGGAGCTTTACTCTCGCTAACTATTTTGGAGGCTACGA
66 CAACTTG-AAGCCTTGATATTACAACTGGGAGCTTTACTCTCGCTAACTATTTTGGAGGCTACGA
*
59296838 CTCTTCGC
130 CTCTTCAC
* ** * * *
59296846 CTATGAGCCTTGGTCTTACAGTTGGGAGCTTTGCTCTCGCTAACTTTTTTGGAGGCTACAACTCT
1 TTGCGAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTACAACT-T
* * * * * *
59296911 TCAACTATG-AGCCTTGATATTATAGCTGGGAGTTTTGCTCTTGCTAACTATTTTGGAGGCTCCG
65 TCAACT-TGAAGCCTTGATATTACAACTGGGAGCTTTACTCTCGCTAACTATTTTGGAGGCTACG
59296975 ACTCTTCAC
129 ACTCTTCAC
* * **
59296984 TTGCGAGCCTTGATATTACAATTGAAAGCTTTGCTCTC
1 TTGCGAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTC
59297022 CTACAAGCCT
Statistics
Matches: 144, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
138 138 0.96
139 4 0.03
140 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (137 bp):
TTGCGAGCCTTGATCTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTACAACTTT
CAACTTGAAGCCTTGATATTACAACTGGGAGCTTTACTCTCGCTAACTATTTTGGAGGCTACGAC
TCTTCAC
Found at i:59302433 original size:4 final size:4
Alignment explanation
Indices: 59302424--59302548 Score: 126
Period size: 4 Copynumber: 31.5 Consensus size: 4
59302414 ACTGGTTCGT
* * * *
59302424 TATA TATA TATA TAT- TATA TAGA TACA TACA TATA TATA TACA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * *
59302471 TATA TATG TATA TATA CATA CATA TATA CATA CATA TATA TATA CATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
59302519 TATA TATG TATA TATA TGTA TATA TCTA TA
1 TATA TATA TATA TATA TATA TATA TATA TA
59302549 ACCAGCAACC
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
3 3 0.03
4 98 0.97
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:59303953 original size:20 final size:19
Alignment explanation
Indices: 59303886--59303964 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
59303876 ATTTTCAAAT
*
59303886 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
59303904 TATTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
59303923 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
59303942 TTTTAGAAAATTACTTTG-A
1 TTTTA-AAAATTATTTTGAA
59303961 TTTT
1 TTTT
59303965 GTTTTGTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
18 7 0.13
19 37 0.67
20 11 0.20
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:59317382 original size:19 final size:17
Alignment explanation
Indices: 59317345--59317387 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
59317335 GTGGTATTAT
* *
59317345 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
59317362 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
59317381 CATAAAT
1 CATAAAT
59317388 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:59328809 original size:63 final size:68
Alignment explanation
Indices: 59328742--59328934 Score: 270
Period size: 71 Copynumber: 2.8 Consensus size: 68
59328732 ACACCCTGTA
*
59328742 GTAGCTAGGTCACATGCGTGAT-A-CG-A-GAC-CCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCGCATGCGTGATCAGCGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGATA
59328802 AAT
66 AAT
*
59328805 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGA-T-C-AGCGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
59328870 ATAAAT
63 ATAAAT
*
59328876 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGA-T-C-AGCGAAGGACACCATGTAGACAAGAGAGCTACG
59328935 AGACAAATCG
Statistics
Matches: 120, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
63 20 0.17
64 1 0.01
67 1 0.01
68 1 0.01
69 1 0.01
70 3 0.03
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (68 bp):
GTAGCTAGGTCGCATGCGTGATCAGCGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGATA
AAT
Found at i:59328848 original size:41 final size:41
Alignment explanation
Indices: 59328803--59328920 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59328793 TGAAAGATAA
59328803 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59328844 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59328874 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59328915 ATGTAG
1 ATGTAG
59328921 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:59328887 original size:71 final size:71
Alignment explanation
Indices: 59328771--59328934 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59328761 GATACGAGAC
59328771 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59328836 AGGACA
66 AGGACA
59328842 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59328907 AGGACA
66 AGGACA
59328913 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59328935 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:59335244 original size:19 final size:17
Alignment explanation
Indices: 59335207--59335249 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
59335197 GTGGTATTAT
* *
59335207 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
59335224 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
59335243 CATAAAT
1 CATAAAT
59335250 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:59339320 original size:55 final size:55
Alignment explanation
Indices: 59339237--59339340 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 55
59339227 TGCGACATGG
* * * * *
59339237 CCATGGGTGAACTTGCCAAAATAGCACGGGCGTGCGATACGCCCGTGCCTTGAAC
1 CCATGGCTGAACCTGCCAAAATAACACGGGCATGCGACACGCCCGTGCCTTGAAC
* * * *
59339292 CCATGGCTGAACCTGTCAAATTAACACGGGCATGTGACACGCCTGTGCC
1 CCATGGCTGAACCTGCCAAAATAACACGGGCATGCGACACGCCCGTGCC
59339341 AAGCAACCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 40 1.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (55 bp):
CCATGGCTGAACCTGCCAAAATAACACGGGCATGCGACACGCCCGTGCCTTGAAC
Found at i:59348545 original size:93 final size:93
Alignment explanation
Indices: 59348433--59348604 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59348423 CGCCCATAAG
* *
59348433 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59348498 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59348526 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59348591 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59348605 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59348601 original size:46 final size:46
Alignment explanation
Indices: 59348426--59348601 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59348416 TGTAACCCGC
* * *
59348426 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59348472 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59348522 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59348565 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59348602 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59356116 original size:93 final size:93
Alignment explanation
Indices: 59356004--59356175 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59355994 CGCCCATAAG
* *
59356004 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59356069 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59356097 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59356162 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59356176 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59356172 original size:46 final size:46
Alignment explanation
Indices: 59355997--59356172 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59355987 TGTAACCCGC
* * *
59355997 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59356043 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59356093 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59356136 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59356173 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59360587 original size:40 final size:40
Alignment explanation
Indices: 59360542--59360708 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59360532 CGGAATATAA
59360542 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59360582 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59360622 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59360662 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59360701 CCGGATAT
1 CCGGATAT
59360709 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59361554 original size:17 final size:19
Alignment explanation
Indices: 59361531--59361576 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59361521 AAGAAGCATG
59361531 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59361549 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59361567 AATCATGCTC
1 AATCATGCTC
59361577 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59368593 original size:40 final size:40
Alignment explanation
Indices: 59368548--59368714 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59368538 CGGAATATAA
59368548 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59368588 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59368628 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59368668 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59368707 CCGGATAT
1 CCGGATAT
59368715 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59369558 original size:17 final size:19
Alignment explanation
Indices: 59369535--59369580 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59369525 AAGAAGCATG
59369535 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59369553 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59369571 AATCATGCTC
1 AATCATGCTC
59369581 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59373941 original size:29 final size:31
Alignment explanation
Indices: 59373890--59373962 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
59373880 CACACACATA
* * *
59373890 ATATATTATATGTATAACCA-CCC-ATGCCT
1 ATATATTATATATATAACAACCCCTATACCT
*
59373919 ATATATTATATATA-ATACAACCCCTATACGT
1 ATATATTATATATATA-ACAACCCCTATACCT
59373950 ATATATTATATAT
1 ATATATTATATAT
59373963 TATATGAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 16 0.43
30 3 0.08
31 17 0.46
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (31 bp):
ATATATTATATATATAACAACCCCTATACCT
Found at i:59381064 original size:2 final size:2
Alignment explanation
Indices: 59381057--59381092 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59381047 AATGCTTAAC
59381057 AT AT 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 AT AT
59381093 GTCAGCTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59381677 original size:18 final size:18
Alignment explanation
Indices: 59381654--59381689 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59381644 TGAATAGGGG
59381654 AATCCGAATTCATTCTGA
1 AATCCGAATTCATTCTGA
59381672 AATCCGAATTCATTCTGA
1 AATCCGAATTCATTCTGA
59381690 CTCTGTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
AATCCGAATTCATTCTGA
Found at i:59386696 original size:43 final size:43
Alignment explanation
Indices: 59386593--59386709 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
59386583 GTTCAACTCA
* * **
59386593 GGATTACCCGTATGGGCTAAATCCTTTATATACTGACATCAAT
1 GGATTACCTGTATGGGCTAAATCCATTCCATACTGACATCAAT
** *
59386636 GGATTACCCT-TCCGGGCTAAATCCATTCCATACTGAGATCAAT
1 GGATTA-CCTGTATGGGCTAAATCCATTCCATACTGACATCAAT
*
59386679 GGATTACCTGTTTGGGCTAAATCCATTCCAT
1 GGATTACCTGTATGGGCTAAATCCATTCCAT
59386710 CACATTCACT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.05
43 58 0.92
44 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
GGATTACCTGTATGGGCTAAATCCATTCCATACTGACATCAAT
Found at i:59386725 original size:146 final size:144
Alignment explanation
Indices: 59386446--59386761 Score: 368
Period size: 146 Copynumber: 2.2 Consensus size: 144
59386436 CTAGTCAATT
* * **
59386446 AGGATTACCCATCCGGGCTAAATCCTTTATATACAGAGATTGATGGATTACCCGTCCCAGGCTAA
1 AGGATTACCCATACGGGCTAAATCCTTTATATACAGACATCAATGGATTACCCGTCCCAGGCTAA
* * * *
59386511 ATCCTTTACAATATAAACCAATGGATTACCCGTCTGGGCTAAATCCATTCTATCATATTTATTCG
66 ATCCATTACAATATAAACCAATGGATTACCCGTCTGGGCTAAATCCATTCCATCACATTCATTCG
59386576 AGAGGAAGTTCAACTC
131 AGA-G-AGTTCAACTC
* * * * *
59386592 AGGATTACCCGTATGGGCTAAATCCTTTATATACTGACATCAATGGATTACCC-TTCCGGGCTAA
1 AGGATTACCCATACGGGCTAAATCCTTTATATACAGACATCAATGGATTACCCGTCCCAGGCTAA
* * * * *
59386656 ATCCATT-CCATACTGAGATCAATGGATTACCTGTTTGGGCTAAATCCATTCCATCACATTCACT
66 ATCCATTACAATA-T-AAACCAATGGATTACCCGTCTGGGCTAAATCCATTCCATCACATTCA-T
*
59386720 T-GAGAGAGTTTAACTC
128 TCGAGAGAGTTCAACTC
* * *
59386736 GGGATTACCCATCCAGGCTAAATCCT
1 AGGATTACCCATACGGGCTAAATCCT
59386762 ATTTTACATT
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
144 34 0.24
145 17 0.12
146 90 0.63
147 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (144 bp):
AGGATTACCCATACGGGCTAAATCCTTTATATACAGACATCAATGGATTACCCGTCCCAGGCTAA
ATCCATTACAATATAAACCAATGGATTACCCGTCTGGGCTAAATCCATTCCATCACATTCATTCG
AGAGAGTTCAACTC
Found at i:59392810 original size:16 final size:17
Alignment explanation
Indices: 59392780--59392812 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59392770 TCACACCATG
*
59392780 AATTTCACAAGTGAATT
1 AATTTCACAAATGAATT
59392797 AATTT-ACAAATGAATT
1 AATTTCACAAATGAATT
59392813 CAGAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTTCACAAATGAATT
Found at i:59395979 original size:18 final size:18
Alignment explanation
Indices: 59395958--59395998 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
59395948 TCTTTACTTT
59395958 CCTCCAAAACTTTTATTC
1 CCTCCAAAACTTTTATTC
*
59395976 CCTCTAAAACTTTTATTC
1 CCTCCAAAACTTTTATTC
59395994 CCTCC
1 CCTCC
59395999 CACATTCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (18 bp):
CCTCCAAAACTTTTATTC
Found at i:59396025 original size:18 final size:18
Alignment explanation
Indices: 59395961--59396026 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
59395951 TTACTTTCCT
*
59395961 CCAAAACTTTTATTCCCT
1 CCAAAACTTTTATTCCCC
*
59395979 CTAAAACTTTTATTCCCTC
1 CCAAAACTTTTATTCCC-C
59395998 CC---AC----ATTCCCC
1 CCAAAACTTTTATTCCCC
59396009 CCAAAACTTTTATTCCCC
1 CCAAAACTTTTATTCCCC
59396027 TCGTATCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
11 3 0.08
12 6 0.16
14 2 0.05
16 2 0.05
18 23 0.62
19 1 0.03
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (18 bp):
CCAAAACTTTTATTCCCC
Found at i:59405970 original size:13 final size:13
Alignment explanation
Indices: 59405952--59405976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59405942 GAAAGAGATT
59405952 TTGATGATTTTTC
1 TTGATGATTTTTC
59405965 TTGATGATTTTT
1 TTGATGATTTTT
59405977 GCACTTTTAG
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:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:59406782 original size:48 final size:47
Alignment explanation
Indices: 59406679--59407090 Score: 219
Period size: 46 Copynumber: 8.7 Consensus size: 47
59406669 TCATTTGTGT
* * *
59406679 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGA-GA-GAGA
* * *
59406725 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA-GAGA
* * * * *
59406773 GCTAGTGTAAGA-CATGTGTAGGACAT-GCATCGGCCTCAACAG-GTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAGAG--A
* * * *
59406819 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTGC-TACGAGA-TGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGAGAGA
* * * * *
59406863 G-TCAGTGTAAGACCATGTCCGGGACATGGCATCTGCA-CATATAGAGGT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GAGAGA-GA
* * * *
59406911 GTTAGTGTAAGACAATGTCTGGGACATGGCATCGGCA-CGGATGTGCGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GA---GAGAGA
* * ** *
59406961 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA--GAGAGA
* * *
59407010 G-TCAGTGTAAGGCCATGTCTGGGACATGGCATCGAC-TTGATG-GACGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GAGA-GA
* * *
59407057 GCCAGTGTAAGACCATGTCTGAGATATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59407091 AAATTATACC
Statistics
Matches: 289, Mismatches: 54, Indels: 45
0.74 0.14 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 69 0.24
47 56 0.19
48 62 0.21
49 37 0.13
50 35 0.12
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAGAGA
Found at i:59413824 original size:13 final size:13
Alignment explanation
Indices: 59413806--59413830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59413796 ACAAGTGATT
59413806 TTGATGATTTTTC
1 TTGATGATTTTTC
59413819 TTGATGATTTTT
1 TTGATGATTTTT
59413831 GCACTTTTAG
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:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:59414684 original size:46 final size:46
Alignment explanation
Indices: 59414542--59414748 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 46
59414532 TGTGCGCTAA
* * * *
59414542 TGTAAGACATGTCTCGGAAATGCATCGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAG
* * * *
59414588 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAG
* *
59414636 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGAGGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAG
* * *
59414682 TGTAAGACATGTCTGAGACATGCATCGG-CTACGAGAT--GTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCCAG
*
59414726 TGTAAGACCATGTTTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
59414749 GAATCGGTAC
Statistics
Matches: 134, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 57 0.43
47 26 0.19
48 24 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAG
Found at i:59414764 original size:44 final size:44
Alignment explanation
Indices: 59414634--59414765 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 44
59414624 GACGAGAGCT
* * *
59414634 AGTGTAAGACATGTCT-AGGACATGCATCGGCCT-CGAGAGGTAAGCC
1 AGTGTAAGACATGTCTGA-GACATGAATCGG-CTACGAGATGT--GTC
*
59414680 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGAGACATGAATCGGCTACGAGATGTGTC
* *
59414724 AGTGTAAGACCATGTTTGGGACATGGAATCGG-TACG-GATGTG
1 AGTGTAAGA-CATGTCTGAGACAT-GAATCGGCTACGAGATGTG
59414766 CGAGAGCTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
44 17 0.22
45 18 0.23
46 41 0.53
47 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGAGACATGAATCGGCTACGAGATGTGTC
Found at i:59422531 original size:40 final size:40
Alignment explanation
Indices: 59422487--59422705 Score: 386
Period size: 40 Copynumber: 5.5 Consensus size: 40
59422477 CACTCGAATA
*
59422487 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
59422527 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
59422567 CCTTCGGGACTTAGCCCGGAACTACTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
59422607 CCTTCGGGACTTAGCCCGGAACTAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
59422647 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
59422687 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59422706 TTATCATCCA
Statistics
Matches: 172, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 171 0.99
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:59425156 original size:24 final size:24
Alignment explanation
Indices: 59425124--59425171 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
59425114 ATCAATAATG
59425124 GTTTGGCCTTTAATTCTGCCACTA
1 GTTTGGCCTTTAATTCTGCCACTA
59425148 GTTTGGCCTTTAATTCTGCCACTA
1 GTTTGGCCTTTAATTCTGCCACTA
59425172 ACACATTGTC
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:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (24 bp):
GTTTGGCCTTTAATTCTGCCACTA
Found at i:59427580 original size:40 final size:40
Alignment explanation
Indices: 59427536--59427645 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
59427526 TTCACAATTT
* *
59427536 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
59427576 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
59427616 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
59427646 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:59433187 original size:79 final size:78
Alignment explanation
Indices: 59433054--59433269 Score: 310
Period size: 79 Copynumber: 2.7 Consensus size: 78
59433044 AAGCCAAGTA
* * * * * *
59433054 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCGAATATA
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGAA-ATA
59433117 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
*
59433133 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATAGT
59433198 AACTCGCACAAATG
65 AACTCGCACAAATG
59433212 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
59433270 GTTATCATCC
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.65
80 43 0.34
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTA
ACTCGCACAAATG
Found at i:59433270 original size:40 final size:40
Alignment explanation
Indices: 59433093--59433270 Score: 315
Period size: 40 Copynumber: 4.5 Consensus size: 40
59433083 CGCTCGAATA
* *
59433093 CCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-CTAGTAACTCGCACAAATG
59433133 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
59433172 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
59433212 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
59433252 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59433271 TTATCATCCA
Statistics
Matches: 135, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
39 39 0.29
40 93 0.69
41 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:59439660 original size:12 final size:13
Alignment explanation
Indices: 59439632--59439664 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
59439622 TTATTTCTTT
59439632 TTCTCCATCTACC
1 TTCTCCATCTACC
*
59439645 TTCTCC-TCTTCC
1 TTCTCCATCTACC
59439657 TTCTCCAT
1 TTCTCCAT
59439665 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:59440784 original size:26 final size:27
Alignment explanation
Indices: 59440729--59440791 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
59440719 ATTTACTAGA
*
59440729 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATG-ATGCAAAATGACCATT
*
59440757 ATACCCCTATG-TGCAAAATGACCTTT
1 ATACCCCTATGATGCAAAATGACCATT
59440783 ATACCCCTA
1 ATACCCCTA
59440792 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 22 0.67
28 11 0.33
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (27 bp):
ATACCCCTATGATGCAAAATGACCATT
Found at i:59440955 original size:27 final size:28
Alignment explanation
Indices: 59440897--59440986 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
59440887 AGGAAGCGTC
*
59440897 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
59440925 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
59440952 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
59440981 CTGGTG
1 CTGGTG
59440987 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:59440997 original size:29 final size:28
Alignment explanation
Indices: 59440907--59440997 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
59440897 CTGGTGGCTA
* * *
59440907 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
59440935 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
59440962 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
59440991 TGTCACA
1 TGCCACA
59440998 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:59441005 original size:55 final size:56
Alignment explanation
Indices: 59440897--59441011 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
59440887 AGGAAGCGTC
* * *
59440897 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
59440952 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
59441008 CTGG
1 CTGG
59441012 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:59448559 original size:28 final size:28
Alignment explanation
Indices: 59448527--59448591 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
59448517 ATTTACTAGA
* *
59448527 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTACGTATGCAAAATAACCATT
* *
59448555 ATACCCCTACGTGTGCAAAATAACCTTT
1 ATACCCCTACGTATGCAAAATAACCATT
59448583 ATACCCCTA
1 ATACCCCTA
59448592 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTACGTATGCAAAATAACCATT
Found at i:59448738 original size:28 final size:27
Alignment explanation
Indices: 59448697--59448786 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
59448687 AGGAAGCGTC
59448697 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
59448725 CTGGTGGCCCTGCCACGTATATATGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
59448752 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
59448781 CTGGTG
1 CTGGTG
59448787 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:59448797 original size:29 final size:28
Alignment explanation
Indices: 59448707--59448797 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
59448697 CTGGTGGCTA
* * * *
59448707 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATATGTTCTGGTGACAC
** *
59448735 TGCCAC-GTATATATGTTCTGGTGGCAC
1 TGCCACAAAATATATGTTCTGGTGACAC
* *
59448762 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATATGT-TCTGGTGACAC
*
59448791 TGTCACA
1 TGCCACA
59448798 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATATGTTCTGGTGACAC
Found at i:59452560 original size:46 final size:46
Alignment explanation
Indices: 59452510--59452682 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
59452500 TTGGGCATCC
59452510 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * *
59452556 GAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG--TCT
* * * *
59452603 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
*
59452649 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59452683 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
Found at i:59452662 original size:93 final size:93
Alignment explanation
Indices: 59452503--59452674 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59452493 AGGATGTTTG
* *
59452503 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
59452568 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59452596 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
59452661 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59452675 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59454844 original size:13 final size:13
Alignment explanation
Indices: 59454826--59454864 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
59454816 ATATTATAAT
*
59454826 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
59454839 TATTTTATGCTAA
1 TATTTTATGTTAA
59454852 TAATTTTATGTTA
1 T-ATTTTATGTTA
59454865 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:59456382 original size:38 final size:39
Alignment explanation
Indices: 59456310--59456473 Score: 233
Period size: 40 Copynumber: 4.2 Consensus size: 39
59456300 GGACTAAGAT
* *
59456310 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTATATCCGGGCTAAGTC
*
59456350 CCGAAGGCATT-CGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTC
*
59456388 CCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTAAGCC
1 CCGAAGGC-ATTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
59456428 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCA-TTGTGCGAGTTACTATATCCGGGCTAAGTC
59456467 CCGAAGG
1 CCGAAGG
59456474 TACTTGGGTT
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
38 32 0.28
39 20 0.18
40 61 0.54
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:59456432 original size:78 final size:79
Alignment explanation
Indices: 59456310--59456473 Score: 242
Period size: 78 Copynumber: 2.1 Consensus size: 79
59456300 GGACTAAGAT
* * *
59456310 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TT-CGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGCCCCGAAGGCATTTGCGCGAGTTACTA
*
59456373 TATCCGGGCTAAGTC
66 TATCC-GGCTAAATC
* * *
59456388 CCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGCCCCGAAGGCATTTGCGCGAGTTACTA
59456453 TATCCGGCTAAATC
66 TATCCGGCTAAATC
59456467 CCGAAGG
1 CCGAAGG
59456474 TACTTGGGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 45 0.58
79 17 0.22
80 15 0.19
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGCCCCGAAGGCATTTGCGCGAGTTACTA
TATCCGGCTAAATC
Found at i:59458961 original size:15 final size:15
Alignment explanation
Indices: 59458922--59459001 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
59458912 GTATCTTGGG
*
59458922 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
59458937 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
59458952 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
59458967 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
59458982 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59458996 TTTCTT
1 TTTCTT
59459002 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59458991 original size:30 final size:30
Alignment explanation
Indices: 59458913--59459000 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
59458903 CATAGTATTG
* * *
59458913 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
59458943 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
59458973 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
59459001 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:59460974 original size:46 final size:46
Alignment explanation
Indices: 59460924--59461099 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
59460914 TGTTTGGGCA
*
59460924 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
59460970 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
59461017 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
59461063 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59461100 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59461079 original size:93 final size:93
Alignment explanation
Indices: 59460920--59461091 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
59460910 AGGATGTTTG
* * *
59460920 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
*
59460985 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59461013 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
59461078 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59461092 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59465720 original size:5 final size:5
Alignment explanation
Indices: 59465710--59465736 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
59465700 GATTTAATCC
59465710 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
59465737 TTTATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:59469425 original size:16 final size:15
Alignment explanation
Indices: 59469399--59469436 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
59469389 CACAACTGAA
59469399 TTCTTTGCTCATCTC
1 TTCTTTGCTCATCTC
*
59469414 TTCTTCTGCTCATCTT
1 TTCTT-TGCTCATCTC
59469430 TTCTTTG
1 TTCTTTG
59469437 TCTTTTAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.05, C:0.29, G:0.08, T:0.58
Consensus pattern (15 bp):
TTCTTTGCTCATCTC
Found at i:59470663 original size:27 final size:26
Alignment explanation
Indices: 59470623--59470734 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
59470613 AGGAAGCGTC
*
59470623 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
59470650 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
59470677 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
** * *
59470705 CTGGTCACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
59470731 CTGG
1 CTGG
59470735 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 51 0.70
28 15 0.21
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:59470727 original size:54 final size:54
Alignment explanation
Indices: 59470626--59470732 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
59470616 AAGCGTCCTG
**
59470626 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTCACTCTGCCACATATATCTGTTCTA
* * *
59470680 GTGGCTCTGCCACGATTATCTGTATCTGGTCACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTCACTCTGCCACATATATCTGTTCT
59470733 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTCACTCTGCCACATATATCTGTTCTA
Found at i:59471735 original size:15 final size:16
Alignment explanation
Indices: 59471706--59471736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59471696 AATGGGTTTA
59471706 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
59471722 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
59471737 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:59477363 original size:40 final size:40
Alignment explanation
Indices: 59477307--59477406 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
59477297 GGATATAGCG
* * *
59477307 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
* * * **
59477347 GCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
59477387 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
59477407 ATCTTAGTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAATA
Found at i:59480471 original size:16 final size:16
Alignment explanation
Indices: 59480450--59480482 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59480440 AACTGAATTC
59480450 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
59480466 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
59480482 T
1 T
59480483 TGTCTTTTAG
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:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:59483044 original size:28 final size:28
Alignment explanation
Indices: 59482975--59483075 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59482965 GACAAGATTG
* * * *
59482975 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59483005 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59483033 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59483062 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59483076 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59495740 original size:40 final size:40
Alignment explanation
Indices: 59495661--59495866 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
59495651 AACCCAAGTA
* * * *
59495661 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59495700 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59495740 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59495780 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59495820 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59495860 CCTTCGG
1 CCTTCGG
59495867 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.08
40 145 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59504353 original size:40 final size:40
Alignment explanation
Indices: 59504308--59504436 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
59504298 CGGAATATAA
59504308 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59504348 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59504388 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
59504427 CCGGATATAA
1 CCGGATATAA
59504437 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
39 9 0.12
40 64 0.88
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59508018 original size:106 final size:106
Alignment explanation
Indices: 59507833--59508047 Score: 387
Period size: 106 Copynumber: 2.0 Consensus size: 106
59507823 GTCAAAATGA
59507833 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCCAGGGTCAACTAAATCTTAT
1 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCCAGGGTCAACTAAATCTTAT
* *
59507898 TTTTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
66 ATCTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
*
59507939 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTAT-CTGAGGTCAACTAAATCTTA
1 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCCAG-GGTCAACTAAATCTTA
59508003 TATCTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
65 TATCTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
59508045 GTA
1 GTA
59508048 TTTTGAAACA
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 2 0.02
106 103 0.98
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (106 bp):
GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCCAGGGTCAACTAAATCTTAT
ATCTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
Found at i:59508235 original size:34 final size:34
Alignment explanation
Indices: 59508197--59508262 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
59508187 GCTATTATAG
*
59508197 GGTTAGATTGATTTATGAGACATAATATTGTTGT
1 GGTTAGATTGATTTACGAGACATAATATTGTTGT
* *
59508231 GGTTAGATTGATTTACGAGACGTAATGTTGTT
1 GGTTAGATTGATTTACGAGACATAATATTGTT
59508263 TTGGATTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (34 bp):
GGTTAGATTGATTTACGAGACATAATATTGTTGT
Found at i:59508641 original size:25 final size:25
Alignment explanation
Indices: 59508607--59508658 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
59508597 TCTTTAGCAT
*
59508607 ATATTTTGGCATTTTTAGTTCAATA
1 ATATTTTGGCATTTTCAGTTCAATA
59508632 ATATTTTGGCATTTTCAGTTCAATA
1 ATATTTTGGCATTTTCAGTTCAATA
59508657 AT
1 AT
59508659 TTACATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (25 bp):
ATATTTTGGCATTTTCAGTTCAATA
Found at i:59509936 original size:19 final size:19
Alignment explanation
Indices: 59509914--59509957 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
59509904 AATAATGTAC
*
59509914 ATATGTATA-AAATAC-TA
1 ATATATATATAAATACTTA
59509931 ATATATATATAAATACTTA
1 ATATATATATAAATACTTA
59509950 ATA-ATATA
1 ATATATATA
59509958 ATATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 11 0.46
19 5 0.21
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATATATATAAATACTTA
Found at i:59509946 original size:18 final size:18
Alignment explanation
Indices: 59509914--59509971 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
59509904 AATAATGTAC
*
59509914 ATATGTATAAAATAC-TA
1 ATATATATAAAATACTTA
59509931 ATATATATATAAATACTTA
1 ATATATATA-AAATACTTA
*
59509950 ATA-ATATAATATA-TTA
1 ATATATATAAAATACTTA
*
59509966 TTATAT
1 ATATAT
59509972 TATTATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 11 0.31
19 5 0.14
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATATATAAAATACTTA
Found at i:59513939 original size:143 final size:143
Alignment explanation
Indices: 59513681--59513961 Score: 553
Period size: 143 Copynumber: 2.0 Consensus size: 143
59513671 TTTTCCAGAG
59513681 GTGGTACTAGAAGAGGAAGTGATGTTGCTACTTAACAATCAGAAGCCAGAGTACTAGCTCGAGCA
1 GTGGTACTAGAAGAGGAAGTGATGTTGCTACTTAACAATCAGAAGCCAGAGTACTAGCTCGAGCA
59513746 TATGTTGTACGAACTCGTGAAGAGGGTGATGCACATGATGTGGTGACAGGTATATTTTTATCATA
66 TATGTTGTACGAACTCGTGAAGAGGGTGATGCACATGATGTGGTGACAGGTATATTTTTATCATA
59513811 TTTAGAACATGAT
131 TTTAGAACATGAT
*
59513824 GTGGTACTAGAAGAGGAAGTGATGTTGCTACTTAACAATGAGAAGCCAGAGTACTAGCTCGAGCA
1 GTGGTACTAGAAGAGGAAGTGATGTTGCTACTTAACAATCAGAAGCCAGAGTACTAGCTCGAGCA
59513889 TATGTTGTACGAACTCGTGAAGAGGGTGATGCACATGATGTGGTGACAGGTATATTTTTATCATA
66 TATGTTGTACGAACTCGTGAAGAGGGTGATGCACATGATGTGGTGACAGGTATATTTTTATCATA
59513954 TTTAGAAC
131 TTTAGAAC
59513962 TTGTTTACGC
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 137 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (143 bp):
GTGGTACTAGAAGAGGAAGTGATGTTGCTACTTAACAATCAGAAGCCAGAGTACTAGCTCGAGCA
TATGTTGTACGAACTCGTGAAGAGGGTGATGCACATGATGTGGTGACAGGTATATTTTTATCATA
TTTAGAACATGAT
Found at i:59516607 original size:29 final size:29
Alignment explanation
Indices: 59516506--59516607 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
59516496 GTGACGAGAT
* *
59516506 TGGCACTGAGTGTGCGAGCTTGTAAT-GTA
1 TGGCACTAAGTGTGCGAGCTTG-AATCATA
* * *
59516535 CGGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* *
59516564 TGGC-CTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
59516592 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59516608 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
28 23 0.40
29 35 0.60
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:59518871 original size:5 final size:5
Alignment explanation
Indices: 59518861--59518941 Score: 153
Period size: 5 Copynumber: 16.2 Consensus size: 5
59518851 TTAATACTTA
*
59518861 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATGAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
59518911 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
59518942 ATATTAAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:59521635 original size:6 final size:6
Alignment explanation
Indices: 59521617--59521712 Score: 133
Period size: 6 Copynumber: 15.8 Consensus size: 6
59521607 AAGAAACATT
59521617 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
59521665 ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAG
59521713 GTAACAAAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
5 2 0.02
6 75 0.91
7 4 0.05
8 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:59521914 original size:27 final size:26
Alignment explanation
Indices: 59521872--59521973 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
59521862 GCTCAGTTAT
* * *
59521872 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
59521899 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
59521925 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
59521953 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
59521974 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:59522160 original size:22 final size:22
Alignment explanation
Indices: 59522132--59522196 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
59522122 GCAAATACGT
*
59522132 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
59522154 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59522176 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59522197 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59522678 original size:27 final size:27
Alignment explanation
Indices: 59522623--59522932 Score: 374
Period size: 27 Copynumber: 11.3 Consensus size: 27
59522613 GGGGCAAAAT
* * *
59522623 GGTAATTTTACCCCACA--GGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
59522648 AGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59522675 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59522702 GGTAATTCTACCCTACAAGGGTA-TTG
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59522728 GGATAATTCTATCCTACAGGGGTATTTC
1 GG-TAATTCTACCCTACAGGGGTATTTC
*
59522756 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59522783 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59522810 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59522837 GGTAATTCTACCTTACAGGGGTATTTCGGTATTTC
1 GGTAATTCTACCCTACA--GG------GGTATTTC
59522872 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59522899 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59522926 GGTAATT
1 GGTAATT
59522933 TTGTAAATTG
Statistics
Matches: 249, Mismatches: 24, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
25 12 0.05
26 4 0.02
27 201 0.81
28 4 0.02
29 2 0.01
33 2 0.01
35 24 0.10
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59522875 original size:35 final size:35
Alignment explanation
Indices: 59522829--59522902 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
59522819 ACCCTACAGG
*
59522829 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
59522864 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
59522899 GGTA
1 GGTA
59522903 ATTCTACCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (35 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:59522899 original size:62 final size:62
Alignment explanation
Indices: 59522802--59522929 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
59522792 ACCCTACAGG
*
59522802 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
59522864 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
59522926 GGTA
1 GGTA
59522930 ATTTTGTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (62 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:59522947 original size:27 final size:27
Alignment explanation
Indices: 59522917--59523284 Score: 104
Period size: 27 Copynumber: 13.6 Consensus size: 27
59522907 TACCCTATAG
*
59522917 GGGTATTTCGGTAATTTTGTAAATTGA
1 GGGTATTTCGGTAATTTTATAAATTGA
*** * * **
59522944 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTCGGTAATTTTATAAATTGA
* *
59522971 GGGTACTAT-GGTAATTTTA-CAATTCGA
1 GGGTA-TTTCGGTAATTTTATAAATT-GA
** * ** *
59522998 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTCGGTAATTTTATAAATTGA
* * *
59523025 GGGTATTTCAGTAATTTCACAAATT-A
1 GGGTATTTCGGTAATTTTATAAATTGA
* * *
59523051 GGGGTATTTTGGTAATTTTACAAACT-A
1 -GGGTATTTCGGTAATTTTATAAATTGA
* * * **
59523078 GGGGTATTTTGATAATTTTACAAA-CCA
1 -GGGTATTTCGGTAATTTTATAAATTGA
* ***
59523105 GGGATATTTTGGTAATTTTATAAACAAA
1 GGG-TATTTCGGTAATTTTATAAATTGA
* ** * **
59523133 AGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTCGGTAATTTTATAAATTGA
* * ***
59523159 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGGTAATTTTATAAATTGA
* * **
59523187 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCGGTAATTTTATAAATTGA
* * ***
59523213 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTCGGTAATTTTATAAATTGA
** * *
59523241 GGGTATTTTAGTAATTTTACAAACT-A
1 GGGTATTTCGGTAATTTTATAAATTGA
*
59523267 GGGGTATTTTGGTAATTT
1 -GGGTATTTCGGTAATTT
59523285 GGTAAACTAA
Statistics
Matches: 272, Mismatches: 56, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
26 13 0.05
27 250 0.92
28 9 0.03
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATTGA
Found at i:59523113 original size:81 final size:80
Alignment explanation
Indices: 59522979--59523284 Score: 319
Period size: 81 Copynumber: 3.8 Consensus size: 80
59522969 AAGGGTACTA
** ** ** * ** *
59522979 TGGTAATTTTACAATTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTC
1 TGGTAATTTTACAAACCAG-GGGTATTTTGATAATTTTACA-AACCAGGGTATTTTGGTAATTTT
**
59523043 ACAAATTAGGGGTATTT
64 ACAAACAAGGGGTATTT
*
59523060 TGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGATATTTTGGTAATTTTA
1 TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGG-TATTTTGGTAATTTTA
* **
59523125 TAAACAAAAGGTATTT
65 CAAACAAGGGGTATTT
* * **
59523141 TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTA
1 TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACC-AGGGTATTTTGGTAATTTTA
*
59523206 CAAACCAGGGGTATTT
65 CAAACAAGGGGTATTT
* * * *
59523222 TGGTGATTTTATAAACCAAGGGTATTTT-AGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TGGTAATTTTACAAACCAGGGGTATTTTGA-TAATTTTACAAACCA-GGGTATTTTGGTAATTT
59523285 GGTAAACTAA
Statistics
Matches: 187, Mismatches: 33, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
80 6 0.03
81 176 0.94
82 5 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGTATTTTGGTAATTTTAC
AAACAAGGGGTATTT
Found at i:59523291 original size:54 final size:54
Alignment explanation
Indices: 59523024--59523284 Score: 380
Period size: 54 Copynumber: 4.8 Consensus size: 54
59523014 TTACAGGTCG
* * ** * *
59523024 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * *
59523078 GGGGTATTTT-GATAATTTTACAAACCAGGGATATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
59523132 AAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
59523186 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
59523240 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
59523285 GGTAAACTAA
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 183 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:59523293 original size:27 final size:27
Alignment explanation
Indices: 59523025--59523284 Score: 331
Period size: 27 Copynumber: 9.6 Consensus size: 27
59523015 TACAGGTCGA
** * **
59523025 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
59523052 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
59523079 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
59523106 GGATATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
59523133 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
59523160 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
59523187 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
59523214 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
59523241 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
59523268 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
59523285 GGTAAACTAA
Statistics
Matches: 199, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 199 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:59525083 original size:2 final size:2
Alignment explanation
Indices: 59525076--59525100 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59525066 TCTCATGTCT
59525076 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
59525101 TTTATCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59527717 original size:46 final size:46
Alignment explanation
Indices: 59527667--59527835 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
59527657 TGGTTGAGCA
59527667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59527713 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
59527758 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59527806 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
59527836 ATTAGGGGCG
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.54
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59527823 original size:93 final size:93
Alignment explanation
Indices: 59527664--59527834 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59527654 GGATGGTTGA
*
59527664 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
59527729 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
59527757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
59527822 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
59527835 AATTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59530837 original size:15 final size:15
Alignment explanation
Indices: 59530805--59530859 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
59530795 GTATCTTGGG
59530805 TTTCTTTATTCT-GA
1 TTTCTTTATTCTGGA
59530819 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59530834 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
59530849 TTTCTTTATTC
1 TTTCTTTATTC
59530860 GGTTTCCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 14 0.39
15 20 0.56
16 2 0.06
ACGTcount: A:0.13, C:0.16, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59533310 original size:46 final size:46
Alignment explanation
Indices: 59533260--59533432 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
59533250 TGGTTGAGCA
59533260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59533306 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59533351 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59533399 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59533433 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59533416 original size:93 final size:93
Alignment explanation
Indices: 59533257--59533427 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59533247 GGATGGTTGA
* *
59533257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59533322 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
59533350 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
59533415 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
59533428 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59535617 original size:21 final size:21
Alignment explanation
Indices: 59535593--59535664 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
59535583 GTCATAGGGT
59535593 CACACAGGCGTGTCCCTTGAC
1 CACACAGGCGTGTCCCTTGAC
* *
59535614 CACACGGGCATGTCCCTTGAC
1 CACACAGGCGTGTCCCTTGAC
* **
59535635 TACATGGGCGTGTCCCTTGAC
1 CACACAGGCGTGTCCCTTGAC
59535656 CACACAGGC
1 CACACAGGC
59535665 ATGTGTGTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.19
Consensus pattern (21 bp):
CACACAGGCGTGTCCCTTGAC
Found at i:59542101 original size:16 final size:16
Alignment explanation
Indices: 59542080--59542118 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
59542070 ACTAACAATG
*
59542080 TATTAAATATT-TTTTT
1 TATTAAAT-TTATTTTA
59542096 TATTAAATTTATTTTA
1 TATTAAATTTATTTTA
59542112 TATTAAA
1 TATTAAA
59542119 CACAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTAAATTTATTTTA
Found at i:59542533 original size:16 final size:16
Alignment explanation
Indices: 59542494--59542549 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
59542484 CGTTTGGTTT
*
59542494 GCTGTAATAGAATAAA
1 GCTGTAATAAAATAAA
* * *
59542510 ACTATAATAAAATATA
1 GCTGTAATAAAATAAA
* *
59542526 GTTGTAATATAATAAA
1 GCTGTAATAAAATAAA
59542542 GCTGTAAT
1 GCTGTAAT
59542550 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (16 bp):
GCTGTAATAAAATAAA
Found at i:59542839 original size:16 final size:16
Alignment explanation
Indices: 59542820--59542866 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
59542810 TAAAAATATA
59542820 TAATTTAATATATTTT
1 TAATTTAATATATTTT
*
59542836 TAATATAAT-TATTTT
1 TAATTTAATATATTTT
*
59542851 TATATTAAATTATATT
1 TA-ATTTAA-TATATT
59542867 AAAATATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 1 0.04
18 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTAATATATTTT
Found at i:59542850 original size:15 final size:16
Alignment explanation
Indices: 59542820--59542852 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
59542810 TAAAAATATA
*
59542820 TAATTTAATATATTTT
1 TAATATAATATATTTT
59542836 TAATATAAT-TATTTT
1 TAATATAATATATTTT
59542851 TA
1 TA
59542853 TATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATATAATATATTTT
Found at i:59543880 original size:21 final size:24
Alignment explanation
Indices: 59543845--59543893 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
59543835 ATCTGATGGA
59543845 TTTAATATATTTTTAAAGATTT-T
1 TTTAATATATTTTTAAAGATTTAT
*
59543868 TTTAAT-T-TTTTTAAATATTTAT
1 TTTAATATATTTTTAAAGATTTAT
59543890 TTTA
1 TTTA
59543894 CCCACTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 6 0.25
23 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTAATATATTTTTAAAGATTTAT
Found at i:59555588 original size:40 final size:38
Alignment explanation
Indices: 59555451--59555593 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 38
59555441 GTCTCGCTCA
* **
59555451 AAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCAC
1 AAAGCCTTCGGGACTTAGCCCGGTTATGGTA-CTCGCAC
* *
59555490 GAATGCCTTCGGGACTTAACCCGGATT-TGGTAACTCGCAC
1 -AAAGCCTTCGGGACTTAGCCCGG-TTATGGT-ACTCGCAC
* *
59555530 AAATGCCTTC-GGACCTTAGTCCGGTTATGGTCACTTAGCAC
1 AAA-GCCTTCGGGA-CTTAGCCCGGTTATGGT-AC-TCGCAC
59555571 AAAGCCTTCGGGACTTAGCCCGG
1 AAAGCCTTCGGGACTTAGCCCGG
59555594 ACATCATTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
39 7 0.08
40 64 0.75
41 14 0.16
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (38 bp):
AAAGCCTTCGGGACTTAGCCCGGTTATGGTACTCGCAC
Found at i:59560843 original size:30 final size:30
Alignment explanation
Indices: 59560796--59560855 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59560786 TTCCCGAGCC
*
59560796 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
59560826 TAGGGGAAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
59560856 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:59561637 original size:28 final size:28
Alignment explanation
Indices: 59561605--59561688 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
59561595 AACTTTGATC
59561605 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
59561633 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
59561655 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
59561683 ACGTGT
1 ACGTGT
59561689 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:59561697 original size:101 final size:96
Alignment explanation
Indices: 59561505--59561745 Score: 320
Period size: 101 Copynumber: 2.4 Consensus size: 96
59561495 TATCGTGAGG
*
59561505 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTACCAGATAATTGGTCGCATGTGTAGTACTAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTACCAGATAATTGGTCACATGTGTAGTACTAA
* *
59561570 GTGCAGGCTACTATGCGTACCTGATAACTTTGA
66 GTGCAGGCTACTACGCGTACCGGATAA--TTGA
* ** *
59561603 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC--GTACCAGATAATT-GGTCACATGTGTAGTAC
* *
59561668 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
63 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* *
59561702 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA--CGTACCAGATA
59561746 GCTTTGGCTA
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
98 32 0.26
99 40 0.32
100 10 0.08
101 43 0.34
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (96 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTACCAGATAATTGGTCACATGTGTAGTACTAA
GTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:59561740 original size:49 final size:49
Alignment explanation
Indices: 59561503--59561745 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
59561493 GCTATCGTGA
*
59561503 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA--CGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
59561550 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TT
* * * * **
59561601 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
59561650 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
59561700 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
59561746 GCTTTGGCTA
Statistics
Matches: 169, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
47 31 0.18
49 54 0.32
50 44 0.26
51 40 0.24
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:59564923 original size:80 final size:80
Alignment explanation
Indices: 59564839--59564987 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59564829 TATGGTAACC
* * * *
59564839 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59564903 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59564919 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59564984 CCGG
66 CCGG
59564988 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59564929 original size:40 final size:38
Alignment explanation
Indices: 59564880--59564987 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59564870 ATCACGATTT
*
59564880 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59564920 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59564960 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59564988 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:59567108 original size:43 final size:43
Alignment explanation
Indices: 59567046--59567183 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
59567036 TTCGTAAGAT
59567046 ATGTG-GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
1 ATGTGAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
* * *
59567088 ATGTGAGCATCCAAGCTCGTTGAGAGGCCCGAGTTCATAATGG
1 ATGTGAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
* *
59567131 ATGCTACTCATGTAACATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGG
1 ATG-------TG-AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
59567182 AT
1 AT
59567184 ATGTTACATG
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
42 5 0.06
43 37 0.47
50 2 0.03
51 35 0.44
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
ATGTGAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
Found at i:59571683 original size:2 final size:2
Alignment explanation
Indices: 59571676--59571700 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59571666 CATTTTAACT
59571676 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
59571701 CACAAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59592104 original size:25 final size:25
Alignment explanation
Indices: 59592075--59592122 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
59592065 TTATAATATG
* *
59592075 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59592100 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59592123 GATTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59592173 original size:9 final size:9
Alignment explanation
Indices: 59592161--59592217 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59592151 TTTGATAAAC
59592161 ATGATATGT
1 ATGATATGT
*
59592170 ATGATATGCAC
1 ATGATATG--T
*
59592181 ATGACATGT
1 ATGATATGT
*
59592190 ATGATATGCAC
1 ATGATATG--T
59592201 ATGATATGT
1 ATGATATGT
59592210 ATGATATG
1 ATGATATG
59592218 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:59592184 original size:20 final size:20
Alignment explanation
Indices: 59592159--59592221 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
59592149 ATTTTGATAA
59592159 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59592179 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59592199 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59592219 ACA
1 ACA
59592222 CGAGATTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59592302 original size:24 final size:24
Alignment explanation
Indices: 59592275--59592417 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
59592265 GAGGAAGTGC
59592275 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59592299 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59592323 AAAAGGGCTTTTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
59592347 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
59592371 AAAAGGGCTT-TGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59592394 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59592418 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 17 0.16
24 85 0.78
25 7 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59592645 original size:31 final size:31
Alignment explanation
Indices: 59592610--59592673 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59592600 CGTTTACAGT
*
59592610 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
** *
59592641 AAAGGCTTCGACCCAGTGTTATGAATTATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
59592672 AA
1 AA
59592674 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:59597299 original size:37 final size:37
Alignment explanation
Indices: 59597229--59597299 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
59597219 CTTCCAAATT
* *
59597229 TTGTGAATTAGTTGGGGTCGTACAGACTGTACACCAA
1 TTGTGAACTAGTTGGGGTCGTACAGACTATACACCAA
*
59597266 TTGTGAACTAGTTGGGGTTGTA-AGGACTATACAC
1 TTGTGAACTAGTTGGGGTCGTACA-GACTATACAC
59597300 TAGTTGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (37 bp):
TTGTGAACTAGTTGGGGTCGTACAGACTATACACCAA
Found at i:59605896 original size:93 final size:93
Alignment explanation
Indices: 59605784--59605955 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59605774 GCCCATAAGT
* *
59605784 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59605849 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59605877 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59605942 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59605956 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59605951 original size:46 final size:46
Alignment explanation
Indices: 59605776--59605951 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59605766 TGTAACCCGC
* * *
59605776 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59605822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59605872 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59605915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59605952 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59608368 original size:40 final size:40
Alignment explanation
Indices: 59608323--59608490 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
59608313 CGGAATATAA
59608323 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
59608363 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59608403 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
59608443 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
59608483 CCGGATAT
1 CCGGATAT
59608491 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59608473 original size:80 final size:80
Alignment explanation
Indices: 59608339--59608488 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
59608329 ATAACCACGT
* *
59608339 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
59608404 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
59608419 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
59608482 CCCGGAT
64 CCCGGAT
59608489 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:59616392 original size:40 final size:40
Alignment explanation
Indices: 59616341--59616490 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
59616331 TATAACACGT
*
59616341 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
59616381 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
59616421 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* *
59616460 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
59616491 TCATTCAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.18
40 71 0.78
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:59616475 original size:80 final size:79
Alignment explanation
Indices: 59616341--59616489 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
59616331 TATAACACGT
*
59616341 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
59616406 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
59616421 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
59616484 CCGGAT
64 CCGGAT
59616490 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:59620466 original size:40 final size:41
Alignment explanation
Indices: 59620421--59620586 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
59620411 CGGAATATAA
59620421 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59620461 CCGGATAGAAT---GTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59620499 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
59620539 CCGGATATAATTTC-CAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
59620579 CCGGATAT
1 CCGGATAT
59620587 CATTCAATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
37 2 0.02
38 31 0.30
40 71 0.68
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (41 bp):
CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59623663 original size:30 final size:30
Alignment explanation
Indices: 59623619--59623707 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59623609 CAAAGATAAC
59623619 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59623648 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59623678 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59623708 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59623667 original size:15 final size:15
Alignment explanation
Indices: 59623619--59623698 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59623609 CAAAGATAAC
*
59623619 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59623633 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59623648 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59623663 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59623678 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59623693 AAGAAA
1 AAGAAA
59623699 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59623707 original size:15 final size:15
Alignment explanation
Indices: 59623630--59623707 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59623620 AGAAAACCGA
59623630 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59623645 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59623659 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59623674 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59623690 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59623705 ATA
1 ATA
59623708 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59626732 original size:93 final size:93
Alignment explanation
Indices: 59626620--59626791 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59626610 GCCCATAAGT
* *
59626620 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59626685 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59626713 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59626778 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59626792 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59626787 original size:46 final size:46
Alignment explanation
Indices: 59626612--59626787 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59626602 TGTAACCCGC
* * *
59626612 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59626658 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59626708 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59626751 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59626788 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Done.