Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 143 of 213
Found at i:42837916 original size:17 final size:18
Alignment explanation
Indices: 42837894--42837929 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42837884 AAAAAGTATT
42837894 TTAAAAA-TATTTTAAAA
1 TTAAAAATTATTTTAAAA
42837911 TTAAAAATTATTTTAAAA
1 TTAAAAATTATTTTAAAA
42837929 T
1 T
42837930 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAAATTATTTTAAAA
Found at i:42837929 original size:28 final size:29
Alignment explanation
Indices: 42837870--42837946 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
42837860 ACCAAAAATT
*
42837870 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAAT-TAAAAAGTATTTTAAAAA
*
42837901 TATTTTAAAATTAAAAATTATTTT-AAAA
1 TATTTTAAAATTAAAAAGTATTTTAAAAA
42837929 TATTTTAAAATTTAAAAA
1 TATTTTAAAA-TTAAAAA
42837947 ATAAATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 14 0.33
29 18 0.42
30 5 0.12
31 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAGTATTTTAAAAA
Found at i:42837934 original size:10 final size:10
Alignment explanation
Indices: 42837885--42837939 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
42837875 TAAAAATAAA
42837885 AAAAGTATTTT
1 AAAA-TATTTT
42837896 AAAAATATTTT
1 -AAAATATTTT
*
42837907 -AAA-A-TTA
1 AAAATATTTT
42837914 AAAATTATTTT
1 AAAA-TATTTT
42837925 AAAATATTTT
1 AAAATATTTT
42837935 AAAAT
1 AAAAT
42837940 TTAAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 2 0.05
8 4 0.11
9 3 0.08
10 12 0.32
11 12 0.32
12 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:42839531 original size:19 final size:20
Alignment explanation
Indices: 42839484--42839531 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
42839474 AACTTTTTTA
42839484 TATTTTTTTTGCTATTTTCT
1 TATTTTTTTTGCTATTTTCT
*
42839504 AATTATTTTTT-C-ATTTTCCT
1 TATT-TTTTTTGCTATTTT-CT
42839524 TATTTTTT
1 TATTTTTT
42839532 AAATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (20 bp):
TATTTTTTTTGCTATTTTCT
Found at i:42839590 original size:16 final size:16
Alignment explanation
Indices: 42839569--42839639 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
42839559 GTTTGGTTCA
*
42839569 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
42839585 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
42839601 CTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
42839617 CTTTAATGGAATAGAA
1 CTGTAATGGAATAGAG
42839633 CTGTAAT
1 CTGTAAT
42839640 CAGTAAGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:42839714 original size:44 final size:46
Alignment explanation
Indices: 42839621--42839714 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
42839611 ATAGAGCTTT
42839621 AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
* *
42839667 AATGGAATAGAACTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAAGTC-AGCTGTTTGGTTGAATGG
42839711 AATG
1 AATG
42839715 ATATTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
Found at i:42839881 original size:59 final size:61
Alignment explanation
Indices: 42839817--42839985 Score: 202
Period size: 63 Copynumber: 2.8 Consensus size: 61
42839807 TTATAATAGG
*
42839817 ATTATTATTAAATATAATTTAAT-AATA-AATAATAAATAATTTAAT-CATACTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAATACATAC-TTAATATA
* *
42839876 ATTATTATTAAATATAATTTAATAAAGATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAAT-ACATACTTAATATA
* * * *
42839938 ATTATTATTAAAATATGAA-TGAATAAAAATCATAATATATAATATTAA
1 ATTATTATT-AAATAT-AATTTAATAAAGATAATAATAAATAAT-TTAA
42839986 AAAATAGTAT
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 23 0.24
60 3 0.03
61 17 0.18
62 17 0.18
63 31 0.32
64 6 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (61 bp):
ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAATACATACTTAATATA
Found at i:42840747 original size:25 final size:25
Alignment explanation
Indices: 42840690--42840747 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
42840680 ATTTATTGAG
42840690 TTTGC-GAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
* *
42840714 TCTGTTGAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
42840739 TTTGCTGAA
1 TTTGCTGAA
42840748 ATATCAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (25 bp):
TTTGCTGAATCTCAACAATGCCTTC
Found at i:42855848 original size:4 final size:4
Alignment explanation
Indices: 42855839--42855865 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
42855829 AGTTATAAAG
42855839 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
42855866 CTTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:42862306 original size:4 final size:4
Alignment explanation
Indices: 42862297--42862324 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
42862287 AGTTGTAAAG
42862297 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
42862325 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:42875226 original size:16 final size:16
Alignment explanation
Indices: 42875188--42875226 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
42875178 TTTGGTTCAG
*
42875188 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAGC
*
42875204 TGTAATTGAATAGAGT
1 TGTAATTGAATAGAGC
42875220 TGTAATT
1 TGTAATT
42875227 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:42875525 original size:21 final size:23
Alignment explanation
Indices: 42875496--42875544 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
42875486 ATATAATTAT
42875496 TATATTAAT-TA-AAAAATCATA
1 TATATTAATATATAAAAATCATA
42875517 -ATATATAATACTATAAAAATCATA
1 TATAT-TAATA-TATAAAAATCATA
42875541 TATA
1 TATA
42875545 ATCTACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
23 2 0.09
24 10 0.43
25 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TATATTAATATATAAAAATCATA
Found at i:42895936 original size:16 final size:16
Alignment explanation
Indices: 42895898--42895936 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
42895888 TTTGGTTCAG
*
42895898 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAGC
*
42895914 TGTAATTGAATAGAGT
1 TGTAATTGAATAGAGC
42895930 TGTAATT
1 TGTAATT
42895937 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:42896237 original size:21 final size:23
Alignment explanation
Indices: 42896208--42896256 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
42896198 ATATAATTAT
42896208 TATATTAAT-TA-AAAAATCATA
1 TATATTAATATATAAAAATCATA
42896229 -ATATATAATACTATAAAAATCATA
1 TATAT-TAATA-TATAAAAATCATA
42896253 TATA
1 TATA
42896257 ATCTACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
23 2 0.09
24 10 0.43
25 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TATATTAATATATAAAAATCATA
Found at i:42903391 original size:49 final size:47
Alignment explanation
Indices: 42903307--42903811 Score: 803
Period size: 47 Copynumber: 10.6 Consensus size: 47
42903297 TATTTGAATA
* *
42903307 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
42903354 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
42903403 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
42903450 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
42903499 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
42903548 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
42903595 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
42903644 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
42903691 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
42903738 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
42903785 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
42903812 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
47 246 0.57
49 184 0.43
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:42903415 original size:96 final size:94
Alignment explanation
Indices: 42903307--42903811 Score: 803
Period size: 96 Copynumber: 5.3 Consensus size: 94
42903297 TATTTGAATA
* *
42903307 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
42903372 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
42903403 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
42903468 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
42903499 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
42903564 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
42903595 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
42903660 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
42903691 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
42903756 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
42903785 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
42903812 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 100 0.26
96 246 0.63
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:42914167 original size:15 final size:15
Alignment explanation
Indices: 42914142--42914176 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
42914132 GACTCTATTT
*
42914142 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
42914156 TAATTAATATTAAGA
1 TAATTAATATTAAGA
42914171 TAATTA
1 TAATTA
42914177 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:42919742 original size:46 final size:46
Alignment explanation
Indices: 42919675--42919768 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
42919665 GGTTCCGAGA
42919675 GTAAGTCTTTTCTATTACTTCATTTCATGAAAGTATTTAAATATGT
1 GTAAGTCTTTTCTATTACTTCATTTCATGAAAGTATTTAAATATGT
42919721 GTAAGTCTTTTCTATTACTTCATTTCATGAAAGTATTTAAATATGT
1 GTAAGTCTTTTCTATTACTTCATTTCATGAAAGTATTTAAATATGT
42919767 GT
1 GT
42919769 TTTTATTAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.48
Consensus pattern (46 bp):
GTAAGTCTTTTCTATTACTTCATTTCATGAAAGTATTTAAATATGT
Found at i:42921103 original size:14 final size:14
Alignment explanation
Indices: 42921084--42921110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42921074 TGAAACTTGG
42921084 TTAAGTGTTTTTAT
1 TTAAGTGTTTTTAT
42921098 TTAAGTGTTTTTA
1 TTAAGTGTTTTTA
42921111 CCTTCATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (14 bp):
TTAAGTGTTTTTAT
Found at i:42924712 original size:24 final size:24
Alignment explanation
Indices: 42924662--42924713 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
42924652 AATCAAAGTC
* **
42924662 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATAAT
*
42924686 AAATATATTATACTTATAAATAAT
1 AAATATATTATACTAATAAATAAT
42924710 AAAT
1 AAAT
42924714 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATAAT
Found at i:42927404 original size:260 final size:259
Alignment explanation
Indices: 42926944--42927464 Score: 848
Period size: 260 Copynumber: 2.0 Consensus size: 259
42926934 CTAACTATAA
* *
42926944 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTTAATATCACAATATAGAAAAATAT
1 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
* *
42927009 AAAGGACTCCACTAGGTACTTGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCT
66 AAAGGACTCCACTAGGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
* * * *
42927074 AGATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACTTGCTCATAGAAA
131 AAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACCTGCGCAGAGAAA
* * *
42927139 ACAAAA-TCGTAACATGAGTAATAAACTCAGTTGTATTTTAACAATTCAGAGATCAATGCAAATT
196 ACAAAACT-GTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAATT
*
42927203 AACTTGCAAAACATAATTACATGTCATTAACAAATTCTACTCAACATCACAATATAGAAAAAATA
1 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAG-AAAAATA
* *
42927268 TAAAGGACTTCACTAGGTGCATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCC
65 TAAAGGACTCCACTAGGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCC
* *
42927333 CAAATTATGCCTGGATGCTGATGTTGATATTCAGGATCACGTATTAACCTAACCTGCGCACGA-A
130 CAAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACCTGCGCA-GAGA
*
42927397 AAACAAAACTGTAACCTAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAAT
194 AAACAAAACTGTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAAT
42927462 T
259 T
42927463 AA
1 AA
42927465 GCTAAAATAT
Statistics
Matches: 242, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
259 54 0.22
260 186 0.77
261 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (259 bp):
AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
AAAGGACTCCACTAGGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
AAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACCTGCGCAGAGAAA
ACAAAACTGTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAATT
Found at i:42929826 original size:17 final size:17
Alignment explanation
Indices: 42929786--42929832 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
42929776 CTTGTTTAGA
*
42929786 AATTATTTTTTCTATACT
1 AATTAATTTTT-TATACT
*
42929804 AA-TAATTTTTTATAGT
1 AATTAATTTTTTATACT
42929820 AATTAATTTTTTA
1 AATTAATTTTTTA
42929833 ATATAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 7 0.27
17 17 0.65
18 2 0.08
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTAATTTTTTATACT
Found at i:42930620 original size:31 final size:31
Alignment explanation
Indices: 42930580--42930645 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
42930570 TATATCTGAC
* * * *
42930580 CATGTTTGCTAAAAATTTACTCCTTTTGCGA
1 CATGCTTGCTAAAAAATTACTCCATTTGCCA
*
42930611 CATGCTTGCTAAAAAATTGCTCCATTTGCCA
1 CATGCTTGCTAAAAAATTACTCCATTTGCCA
42930642 CATG
1 CATG
42930646 TATCTATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
CATGCTTGCTAAAAAATTACTCCATTTGCCA
Found at i:42937717 original size:18 final size:18
Alignment explanation
Indices: 42937691--42937725 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42937681 TGACGTGGAA
* *
42937691 GAGAGAAGTTGTAAGGGT
1 GAGAAAAGTAGTAAGGGT
42937709 GAGAAAAGTAGTAAGGG
1 GAGAAAAGTAGTAAGGG
42937726 CAAGAAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (18 bp):
GAGAAAAGTAGTAAGGGT
Found at i:42941334 original size:27 final size:27
Alignment explanation
Indices: 42941300--42941477 Score: 139
Period size: 28 Copynumber: 6.5 Consensus size: 27
42941290 TTCGCCATGT
*
42941300 AGGCTTCCATTTCATAGATTGCCACAAA
1 AGGCTTCCATTTCATAGATAGCCAC-AA
* * *
42941328 AGG-TTCCCTTTTCACAAATCA-CCACAA
1 AGGCTT-CCATTTCATAGAT-AGCCACAA
* * *
42941355 AGGCTTCCCTTTTCATATATCA-CCATAA
1 AGGCTT-CCATTTCATAGAT-AGCCACAA
*
42941383 AAGCTT-CATTTCCATAGATAGCCACAA
1 AGGCTTCCATTT-CATAGATAGCCACAA
* * *
42941410 AAGCTTCCCTTTTCATAGATAGACACAA
1 AGGCTT-CCATTTCATAGATAGCCACAA
* **
42941438 AGGCTTCCATTTCATAAATTTCCACAA
1 AGGCTTCCATTTCATAGATAGCCACAA
42941465 AGGCTTCCATTTC
1 AGGCTTCCATTTC
42941478 TCTGGCATGT
Statistics
Matches: 124, Mismatches: 19, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
26 5 0.04
27 53 0.43
28 62 0.50
29 4 0.03
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (27 bp):
AGGCTTCCATTTCATAGATAGCCACAA
Found at i:42941361 original size:55 final size:54
Alignment explanation
Indices: 42941300--42941477 Score: 148
Period size: 55 Copynumber: 3.3 Consensus size: 54
42941290 TTCGCCATGT
* *
42941300 AGGCTT-CCATTTCATAGATTGCCACAAAAGGTTCCCTTTTCACAAATCACCACAA
1 AGGCTTCCCATTTCATAGATAGCCACAAAAGGTT-CCTTTTCATAAAT-ACCACAA
* * * * * * *
42941355 AGGCTTCCCTTTTCATATATCA-CCATAAAAGCTTCATTTCCATAGATAGCCACAA
1 AGGCTTCCCATTTCATAGAT-AGCCACAAAAGGTTCCTTTTCATAAATA-CCACAA
* * * * *
42941410 AAGCTTCCCTTTTCATAGATAGACAC-AAAGGCTTCCATTTCATAAATTTCCACAA
1 AGGCTTCCCATTTCATAGATAGCCACAAAAGG-TTCCTTTTCATAAA-TACCACAA
42941465 AGGCTT-CCATTTC
1 AGGCTTCCCATTTC
42941478 TCTGGCATGT
Statistics
Matches: 96, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
54 12 0.12
55 62 0.65
56 22 0.23
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (54 bp):
AGGCTTCCCATTTCATAGATAGCCACAAAAGGTTCCTTTTCATAAATACCACAA
Found at i:42941437 original size:83 final size:82
Alignment explanation
Indices: 42941302--42941477 Score: 212
Period size: 83 Copynumber: 2.1 Consensus size: 82
42941292 CGCCATGTAG
* * * *
42941302 GCTTCCATTTCATAGATTGCCACAAAAGGTTCCCTTTTCACAAATCACCACAAAGGCTTCCCTTT
1 GCTTCCATTTCATAGATAGCCACAAAAGCTTCCCTTTTCACAAATCAACACAAAGGCTT-CCATT
42941367 TCATATATCACCATAAAA
65 TCATATATCACCATAAAA
* *
42941385 GCTT-CATTTCCATAGATAGCCACAAAAGCTTCCCTTTTCATAGAT-AGACACAAAGGCTTCCAT
1 GCTTCCATTT-CATAGATAGCCACAAAAGCTTCCCTTTTCACAAATCA-ACACAAAGGCTTCCAT
* ** * *
42941448 TTCATAAATTTCCACAAAG
64 TTCATATATCACCATAAAA
42941467 GCTTCCATTTC
1 GCTTCCATTTC
42941478 TCTGGCATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
82 28 0.35
83 51 0.65
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.31
Consensus pattern (82 bp):
GCTTCCATTTCATAGATAGCCACAAAAGCTTCCCTTTTCACAAATCAACACAAAGGCTTCCATTT
CATATATCACCATAAAA
Found at i:42946507 original size:5 final size:5
Alignment explanation
Indices: 42946499--42946527 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
42946489 TGAATGAAAT
42946499 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
42946528 TTTAATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:42947854 original size:18 final size:17
Alignment explanation
Indices: 42947833--42947867 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42947823 TTATTATTAA
*
42947833 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42947851 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42947868 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42947981 original size:162 final size:163
Alignment explanation
Indices: 42947747--42948041 Score: 547
Period size: 162 Copynumber: 1.8 Consensus size: 163
42947737 TGGTAAATGA
* * *
42947747 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
*
42947812 TTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
42947876 TTAGCAGAAATTTGTTTTGGTAAATTATTATTG
131 TTAGCAGAAATTTGTTTTGGTAAATTATTATTG
42947909 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
42947974 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
42948039 TTA
131 TTA
42948042 ATATTCTTAT
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
162 121 0.95
163 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (163 bp):
TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAGCAGAAATTTGTTTTGGTAAATTATTATTG
Found at i:42948012 original size:16 final size:16
Alignment explanation
Indices: 42947975--42948016 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42947965 TTAATCATAT
*
42947975 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
42947991 TT-AAATATATTATAA
1 TTAAAATATATTATAA
42948006 TTAAAATATAT
1 TTAAAATATAT
42948017 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:42948023 original size:14 final size:15
Alignment explanation
Indices: 42947984--42948025 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42947974 TTTAAACATA
*
42947984 ATTATTATTAAATAT
1 ATTATAATTAAATAT
42947999 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
42948013 A-TATAATTTAATA
1 ATTATAATTAAATA
42948026 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:42948075 original size:61 final size:61
Alignment explanation
Indices: 42948010--42948197 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
42948000 TTATAATTAA
42948010 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
42948071 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
42948129 A
61 T
42948130 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
42948191 AATATAT
1 AATATAT
42948198 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:42948143 original size:14 final size:15
Alignment explanation
Indices: 42948094--42948145 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
42948084 ATAAAATATA
42948094 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
42948109 TATTAAATATATTAT
1 AATTAAATATATTAT
42948124 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
42948137 AATTTAATA
1 AATTAAATA
42948146 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:42948191 original size:120 final size:121
Alignment explanation
Indices: 42947973--42948263 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 121
42947963 ATTTAATCAT
*
42947973 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
42948038 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
42948095 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
42948158 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
42948214 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
42948264 AATAATTTAA
Statistics
Matches: 163, Mismatches: 3, Indels: 8
0.94 0.02 0.05
Matches are distributed among these distances:
119 7 0.04
120 151 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:42948357 original size:24 final size:25
Alignment explanation
Indices: 42948311--42948358 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
42948301 TATGAATTTG
42948311 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
42948337 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
42948359 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:42948385 original size:91 final size:91
Alignment explanation
Indices: 42948286--42948493 Score: 253
Period size: 91 Copynumber: 2.3 Consensus size: 91
42948276 TAATTATAAC
* * * *
42948286 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-A
* *
42948350 TTAATAT-TAAATTTCAT-AAATTCTTGA
64 GTAATATAT-AATTTCATAAAATTCTTAA
* *
42948377 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
42948442 CATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
42948468 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
42948494 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
90 14 0.14
91 66 0.64
92 22 0.21
93 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
AATATATAATTTCATAAAATTCTTAA
Found at i:42958876 original size:23 final size:22
Alignment explanation
Indices: 42958850--42958896 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
42958840 CTTCCACTTT
42958850 TTATTCT-ATAATTTATTTATTTA
1 TTATTCTGAT-ATTTATTT-TTTA
*
42958873 TTATTTTGATATTTATTTTTTA
1 TTATTCTGATATTTATTTTTTA
42958895 TT
1 TT
42958897 CTAAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTATTCTGATATTTATTTTTTA
Found at i:42960920 original size:28 final size:28
Alignment explanation
Indices: 42960861--42961008 Score: 92
Period size: 28 Copynumber: 5.2 Consensus size: 28
42960851 TTTCTCCAGG
*
42960861 AGGCTTTCCTTTCCAAAGATAGCCACAG
1 AGGCTTTCCTTTCCAAAGATAGCCACAA
*
42960889 AGGCTTTCCTTT-CAAAGTCTCA-CCACAA
1 AGGCTTTCCTTTCCAAAG-AT-AGCCACAA
* * * *
42960917 AGGC-GTCCTTTTAACAGAGATTGCCAC-A
1 AGGCTTTCC-TTT-CCAAAGATAGCCACAA
**
42960945 AGGC-TTCCTTTTAATAGAGATAGCCACAA
1 AGGCTTTCCTTTCCA-A-AGATAGCCACAA
* *
42960974 AGGC-TTCCTTTTAACAAGGATAGCCACAA
1 AGGCTTTCC-TTT-CCAAAGATAGCCACAA
42961003 AGGCTT
1 AGGCTT
42961009 CATTTTAACA
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
26 1 0.01
27 11 0.12
28 42 0.45
29 30 0.32
30 9 0.10
31 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (28 bp):
AGGCTTTCCTTTCCAAAGATAGCCACAA
Found at i:42960945 original size:29 final size:29
Alignment explanation
Indices: 42960911--42961088 Score: 215
Period size: 29 Copynumber: 6.3 Consensus size: 29
42960901 CAAAGTCTCA
* *
42960911 CCACAAAGGCGTCCTTTTAACAGAGATTG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
*
42960940 CCAC-AAGGCTTCCTTTTAATAGAGATAG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
42960968 CCACAAAGGCTTCCTTTTAACA-AGGATAG
1 CCACAAAGGCTTCCTTTTAACAGA-GATAG
* *
42960997 CCACAAAGGCTTCATTTTAACAGAGATAA
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
* * *
42961026 CCACTAAGGCTTCCGTTTAAGAGAGATAG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
*
42961055 CCACAAAGGCGT-CTTTTCAA-A-A-ATAG
1 CCACAAAGGCTTCCTTTT-AACAGAGATAG
42961081 CCACAAAG
1 CCACAAAG
42961089 AAATACTTTC
Statistics
Matches: 131, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
26 12 0.09
27 1 0.01
28 31 0.24
29 86 0.66
30 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCTTCCTTTTAACAGAGATAG
Found at i:42961055 original size:87 final size:83
Alignment explanation
Indices: 42960911--42961088 Score: 241
Period size: 86 Copynumber: 2.1 Consensus size: 83
42960901 CAAAGTCTCA
* ** * *
42960911 CCACAAAGGCGTCCTTTTAACAGAGATTGCCACAAGGCTTCCTTTTAATAGAGATAGCCACAAAG
1 CCACAAAGGCGTCATTTTAACAGAGATAACCACAAGGCTTCCGTTTAAGAGAGATAGCCACAAAG
*
42960976 GCTTCCTTTT-AACAAGGATAG
66 GCGT-CTTTTCAA-AA--ATAG
*
42960997 CCACAAAGGCTTCATTTTAACAGAGATAACCACTAAGGCTTCCGTTTAAGAGAGATAGCCACAAA
1 CCACAAAGGCGTCATTTTAACAGAGATAACCAC-AAGGCTTCCGTTTAAGAGAGATAGCCACAAA
42961062 GGCGTCTTTTCAAAAATAG
65 GGCGTCTTTTCAAAAATAG
42961081 CCACAAAG
1 CCACAAAG
42961089 AAATACTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
84 12 0.14
86 36 0.43
87 35 0.42
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (83 bp):
CCACAAAGGCGTCATTTTAACAGAGATAACCACAAGGCTTCCGTTTAAGAGAGATAGCCACAAAG
GCGTCTTTTCAAAAATAG
Found at i:42963137 original size:54 final size:54
Alignment explanation
Indices: 42963072--42963176 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
42963062 TGAGTTAGGT
* * * *
42963072 CACACGACCGTGTCGCAGGTCGTGTACTAGACTGTGTAACTCATTGACTTGCGA
1 CACACGACCGTGTCGCAAGCCATGTACTAGACCGTGTAACTCATTGACTTGCGA
* * * *
42963126 CACACGGCCGTGTCGCAAGCCATGTGCTAGGCCGTGTAACTTATTGACTTG
1 CACACGACCGTGTCGCAAGCCATGTACTAGACCGTGTAACTCATTGACTTG
42963177 ATACACATAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (54 bp):
CACACGACCGTGTCGCAAGCCATGTACTAGACCGTGTAACTCATTGACTTGCGA
Found at i:42970443 original size:19 final size:17
Alignment explanation
Indices: 42970396--42970446 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
42970386 TATCATTAGC
42970396 TTAAGTTAATTAA-AGA
1 TTAAGTTAATTAATAGA
42970412 TTAAGGTTTAATTAATCATGA
1 TTAA-G-TTAATTAAT-A-GA
42970433 TTAAGTTAATTAAT
1 TTAAGTTAATTAAT
42970447 TAAGCTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 8 0.27
19 9 0.30
20 2 0.07
21 6 0.20
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (17 bp):
TTAAGTTAATTAATAGA
Found at i:42971612 original size:38 final size:38
Alignment explanation
Indices: 42971567--42971655 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
42971557 TTCGTACGCT
* *
42971567 AGTATGCACTTTGTGTGCCAGGATACATTTTGTGTGCC
1 AGTATGCACTTTGTGTGCCAGGATACACTTAGTGTGCC
** * * *
42971605 ACG-ATGCACTTCATGTGTCAGGATGCACTTAGTGTGCT
1 A-GTATGCACTTTGTGTGCCAGGATACACTTAGTGTGCC
42971643 AGTATGCACTTTG
1 AGTATGCACTTTG
42971656 CACAGTAGTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
37 1 0.03
38 38 0.95
39 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (38 bp):
AGTATGCACTTTGTGTGCCAGGATACACTTAGTGTGCC
Found at i:42971640 original size:19 final size:19
Alignment explanation
Indices: 42971570--42971653 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
42971560 GTACGCTAGT
*
42971570 ATGCACTTTGTGTGCCAGG
1 ATGCACTTAGTGTGCCAGG
* * * *
42971589 ATACATTTTGTGTGCCACG
1 ATGCACTTAGTGTGCCAGG
*
42971608 ATGCACTTCA-TGTGTCAGG
1 ATGCACTT-AGTGTGCCAGG
* *
42971627 ATGCACTTAGTGTGCTAGT
1 ATGCACTTAGTGTGCCAGG
42971646 ATGCACTT
1 ATGCACTT
42971654 TGCACAGTAG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
18 1 0.02
19 51 0.98
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (19 bp):
ATGCACTTAGTGTGCCAGG
Found at i:42974950 original size:89 final size:90
Alignment explanation
Indices: 42974788--42975000 Score: 254
Period size: 89 Copynumber: 2.4 Consensus size: 90
42974778 TACAGTGGAT
* * **
42974788 CAGCACATAGC-ACCACCCTTATAATCAACT-ATATTCGGTGGAATCAGCACATAGCAACCACCT
1 CAGCACATAGCAACCACCATTATAATCAA-TGGTACCCGGTGGAATCAGCACATAGCAACCACCT
** *** *
42974851 TTATTTTCAATGATTTTCGGTGGAGC
65 TTATAATCAATGATACCCGGTGGAAC
*
42974877 CAGC-CTATAGCAACCACCATTATAAT-AATGGTACCCGGTGGAATTAGCACATAGCAACCACCT
1 CAGCAC-ATAGCAACCACCATTATAATCAATGGTACCCGGTGGAATCAGCACATAGCAACCACCT
* *
42974940 TTATAATCAATGGTACCCGGTGGAAT
65 TTATAATCAATGATACCCGGTGGAAC
*
42974966 CAGCACATAGCAACCACCTTTATAATCAATGGTAC
1 CAGCACATAGCAACCACCATTATAATCAATGGTAC
42975001 TCAGTACACG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
88 2 0.02
89 81 0.77
90 22 0.21
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (90 bp):
CAGCACATAGCAACCACCATTATAATCAATGGTACCCGGTGGAATCAGCACATAGCAACCACCTT
TATAATCAATGATACCCGGTGGAAC
Found at i:42974997 original size:45 final size:45
Alignment explanation
Indices: 42974782--42975000 Score: 259
Period size: 45 Copynumber: 4.9 Consensus size: 45
42974772 TCGTTATACA
* * **
42974782 GTGG-ATCAGCACATAGC-ACCACCCTTATAATCAACT-ATATTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAA-TGGTACCCG
** * ***
42974825 GTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGATTTTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
** *
42974870 GTGGAGCCAGC-CTATAGCAACCACCATTATAAT-AATGGTACCCG
1 GTGGAATCAGCAC-ATAGCAACCACCTTTATAATCAATGGTACCCG
*
42974914 GTGGAATTAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
42974959 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTAC
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTAC
42975001 TCAGTACACG
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
43 4 0.03
44 49 0.32
45 99 0.65
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
Found at i:42980207 original size:29 final size:29
Alignment explanation
Indices: 42980171--42980322 Score: 150
Period size: 29 Copynumber: 5.3 Consensus size: 29
42980161 AAGAAGTGCA
*
42980171 TTTGTGGCTATCTCTGTTAAAAAGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* *
42980200 TTTTTGGCTATCTCTATTAAAAGGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* * *
42980229 TTTATGG-TGATCTCTATTAAAAGGAA-AC
1 TTTGTGGCT-ATCTCTGTTAAAAGGAAGCC
* * *
42980257 TTGTGTGGCGATCTTTGTTAAAAGGAAGTC
1 TT-TGTGGCTATCTCTGTTAAAAGGAAGCC
* *
42980287 TTTGTGGCAATCTCTGTCAAAA-GACA-CC
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
42980315 TTTGTGGC
1 TTTGTGGC
42980323 GAGACTCTGA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
28 15 0.14
29 86 0.83
30 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGCC
Found at i:42987560 original size:12 final size:12
Alignment explanation
Indices: 42987543--42987570 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
42987533 CACTTAAGAA
42987543 TATACTATTAAG
1 TATACTATTAAG
42987555 TATACTATTAAG
1 TATACTATTAAG
42987567 TATA
1 TATA
42987571 TTTAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
TATACTATTAAG
Found at i:42990412 original size:39 final size:39
Alignment explanation
Indices: 42990199--42990421 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
42990189 TTGAATGCTG
* * * * * *
42990199 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
42990239 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
42990278 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
42990319 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
42990359 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
42990398 ACTGGGCTACGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42990422 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 105 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42997754 original size:80 final size:79
Alignment explanation
Indices: 42997670--42997841 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
42997660 GGACTAAGAT
*
42997670 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
42997734 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
42997750 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
42997815 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
42997829 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42997842 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:42997821 original size:39 final size:39
Alignment explanation
Indices: 42997617--42997839 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
42997607 TTGAATGCTG
* * * * *
42997617 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
42997657 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
42997696 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
42997737 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
42997777 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
42997816 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42997840 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42997859 original size:79 final size:80
Alignment explanation
Indices: 42997697--42997874 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
42997687 AGATACAAAT
* * * *
42997697 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
42997762 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
42997777 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42997841 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
42997856 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42997875 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:43001477 original size:20 final size:19
Alignment explanation
Indices: 43001452--43001490 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43001442 TATCAAATTA
*
43001452 CAAAATGATATAAATATTTT
1 CAAAATAAT-TAAATATTTT
*
43001472 CAAAATAATTATATATTTT
1 CAAAATAATTAAATATTTT
43001491 TATAGGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
CAAAATAATTAAATATTTT
Found at i:43002206 original size:3 final size:3
Alignment explanation
Indices: 43002198--43002238 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
43002188 ATACTATCAT
43002198 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
43002239 TTTTCCCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:43006694 original size:16 final size:17
Alignment explanation
Indices: 43006659--43006704 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
43006649 ATTATAAAAT
**
43006659 AAAATTAAACCAATACA
1 AAAATTAAATAAATACA
43006676 AAACA-TAAATAAATA-A
1 AAA-ATTAAATAAATACA
43006692 AAAATTAAATAAA
1 AAAATTAAATAAA
43006705 ATAATTAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 12 0.48
17 11 0.44
18 1 0.04
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATTAAATAAATACA
Found at i:43008018 original size:22 final size:23
Alignment explanation
Indices: 43007977--43008019 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
43007967 GGAAAGATTT
*
43007977 AATTACAATGAAGAGTAAAAAAG
1 AATTACAATGAAAAGTAAAAAAG
43008000 AATTACAAT-AAAAGTAAAAA
1 AATTACAATGAAAAGTAAAAA
43008020 TATTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (23 bp):
AATTACAATGAAAAGTAAAAAAG
Found at i:43011241 original size:3 final size:3
Alignment explanation
Indices: 43011233--43011286 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
43011223 ATTTTTGTAC
*
43011233 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43011281 TAT TAT
1 TAT TAT
43011287 GTATACCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:43012172 original size:70 final size:70
Alignment explanation
Indices: 43012059--43012192 Score: 214
Period size: 70 Copynumber: 1.9 Consensus size: 70
43012049 TCCTTTCAAA
** *
43012059 CTCAAGTTTTAAACGATCTCGGGAATTAAGAGGAGGTCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
43012124 TTTTT
66 TTTTT
* * *
43012129 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTATTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
43012193 CCTTTTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (70 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:43012918 original size:17 final size:17
Alignment explanation
Indices: 43012896--43012929 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43012886 CTGTACCTAT
43012896 GTCTTCGTGAGATTTTC
1 GTCTTCGTGAGATTTTC
43012913 GTCTTCGTGAGATTTTC
1 GTCTTCGTGAGATTTTC
43012930 ATCTCCGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (17 bp):
GTCTTCGTGAGATTTTC
Found at i:43017882 original size:24 final size:24
Alignment explanation
Indices: 43017855--43017907 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
43017845 CCCAAAGTAT
*
43017855 AGTGGATTGAACCTTAAAGATTAC
1 AGTGGATTAAACCTTAAAGATTAC
*
43017879 AGTGGATTAAACCTTGAAGATTAC
1 AGTGGATTAAACCTTAAAGATTAC
43017903 AGTGG
1 AGTGG
43017908 GGGAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (24 bp):
AGTGGATTAAACCTTAAAGATTAC
Found at i:43018116 original size:62 final size:62
Alignment explanation
Indices: 43018042--43018219 Score: 304
Period size: 62 Copynumber: 2.9 Consensus size: 62
43018032 ATTTAGCATT
* *
43018042 CATTCATACACATTTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
1 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
* *
43018104 CATTCACACACATCTAGTTAGGAGATTTTGGTTCATTCCGATCATAATATCCTAATCACTAG
1 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
43018166 CATTCACACAC-TGCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTA
1 CATTCACACACAT-CTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTA
43018220 GTCATTAGGC
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 1 0.01
62 108 0.99
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (62 bp):
CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
Found at i:43018483 original size:44 final size:44
Alignment explanation
Indices: 43018346--43019617 Score: 599
Period size: 44 Copynumber: 28.8 Consensus size: 44
43018336 AGATGACAAA
* * *
43018346 TCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---AAATCAAG
* * **
43018391 ACCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
* *
43018435 TCTTAT-TCCCCTGAAGTTGTAGTGGGGCAGATTGAATAAATCAA-
1 TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* *
43018479 TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAAA--ATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCA-AG
* * * *
43018523 ACTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* * * *
43018568 TCTTATC-CCTCTGAAGTTGCAGTGG-GCCAAACT-AAAGTTATGAA-
1 TCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTGAAA--AATCAAG
* *
43018612 TCTTATCTCCCTGAAGCTGCATTGGAGCAGATT-AAAGCCAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---AATCAAG
* * * * * * *
43018656 CCTTATCTCCCTGGAGTTGCAGCGAAGCAGGTT-AAAGCTACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA--AATCAAG
* * **
43018700 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAATTAATGGA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA--AATCAAG
* * * * * ** * *
43018744 TATTATCTCTCTAAAGTTGTAGTAGAATAGATCG---CATC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAATCAAG
* * * ** *
43018784 ATCTTATCTCCCGGAAGTTGCAATGGGGCAGATTGAAGTTAT-AAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* * * * * **
43018829 TCCTATCTCCCTAAAGTTGTAGTAGAGCGGATT-AAAATGAT-GGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA--ATCAAG
* * * * *
43018873 TCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAATAAACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* * * ** * ** *
43018917 CCTTATGTCCCTAAAGTTGCAGTAAAGCTGATT-AAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
* * **
43018961 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
*
43019005 TCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCAA-
1 TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* *
43019049 TCTTATCTCCCTGAAGTTGAAGTGAAGCAGATT-AAAGCCAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---AATCAAG
* * *
43019093 TCCTACCTCCCTGAAGTTGCAGTGAAGCAGATT-AAAGCCAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---AATCAAG
* * **
43019137 TCCTATCTCCCTGAAATTGCAGTGGAGCAGATT-AAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
* * * *
43019181 TCTTATCTTCCTGAAGTTGCAGTAGAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* ** * * * *
43019226 TCTTATCCCCCTGAAGTTGCA-AAGAGGCAAACTG-AAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAAAAT--CAAG
* *
43019271 TCTTATCTCCCTAAAGTTGCAGTGGAGCAAATT-AAAGCCAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---AATCAAG
* * **
43019315 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
* *
43019359 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAATCAAG
* * * * * *
43019404 TCTTATCCCCCTGAAGTTGCAGAGGGGCAGACT-AAAGATGTTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-A--ATCAAG
* * * * *
43019449 TCTTATCTCTCTAAAGTTACAGTGGAGTATATT-AAAGCCAAT-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---AATCAAG
* * **
43019493 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT-CAAG
** * * *
43019537 TCTTATCTCATTGAAGTTGCAGTGGAGCTGACTGAAAAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAAAATCAAG
* * * *
43019582 TCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
43019618 GATAACATAT
Statistics
Matches: 944, Mismatches: 214, Indels: 139
0.73 0.16 0.11
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 28 0.03
42 3 0.00
43 26 0.03
44 621 0.66
45 244 0.26
46 16 0.02
47 1 0.00
48 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAATCAAG
Found at i:43018663 original size:177 final size:176
Alignment explanation
Indices: 43018347--43018676 Score: 375
Period size: 177 Copynumber: 1.9 Consensus size: 176
43018337 GATGACAAAT
* * *
43018347 CTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAG-CAAACAAACCTATCTCCCTGAAGTTGCA
* * * * * * *
43018412 GTGGAGCAGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGTAGTGGGGCAGATTGAATAAATC
65 GTGGAGCAAACTAAAGTTACAAGTCTTATTCCCCTGAAGCTGCAGTGGAGCAGATTAAACAAATC
*
43018477 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAAAATAGA
130 AACCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAAAATAGA
* * *
43018524 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAG-AAAGCAAGTCTTATC-CCTCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGCAAA-CAA-ACCTATCTCC-CTGAAGTTG
* *
43018587 CAGTGG-GCCAAACTAAAGTTATGAA-TCTTA-TCTCCCTGAAGCTGCATTGGAGCAGATTAAAG
63 CAGTGGAG-CAAACTAAAGTTA-CAAGTCTTATTC-CCCTGAAGCTGCAGTGGAGCAGATTAAA-
* **
43018649 CCAAT-AACCTTATCTCCCTGGAGTTGCA
124 CAAATCAACCTTATCTCCCTAAAGTTGCA
43018677 GCGAAGCAGG
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
175 3 0.02
176 7 0.06
177 112 0.88
178 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (176 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGCAAACAAACCTATCTCCCTGAAGTTGCAG
TGGAGCAAACTAAAGTTACAAGTCTTATTCCCCTGAAGCTGCAGTGGAGCAGATTAAACAAATCA
ACCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAAAATAGA
Found at i:43019502 original size:222 final size:222
Alignment explanation
Indices: 43018394--43019624 Score: 652
Period size: 222 Copynumber: 5.6 Consensus size: 222
43018384 CAAATAAACC
** * * *
43018394 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTCTTAT-TCCCCTGAAGTTGTAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCT-CCCTGAAGTTGCAG
* * * * * *
43018457 TGGGGCAGATTGAATAAATCAA-TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAAA-A
64 TGGAGCAGATTAAAGAAA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
* * * * * * *
43018520 TAGACTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAGCAAGTCTTATCCCTCTGAAGT
128 -AGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTAAAGAAAGCAAGTCTTATCCCCCTAAAGT
* ** *
43018585 TGCAGTG-GGCCAAACTAAAGTTATG---AATCT
192 TACAAAGAGG-CAAACTGAAG--ATGCCAAATCT
* * * *
43018615 TATCTCCCTGAAGCTGCATTGGAGCAGATTAAAGCCAATAA-CCTTATCTCCCTGGAGTTGCAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC-TATCTCCCTGAAGTTGCAGT
* * * * * * * * ** **
43018679 GAAGCAGGTTAAAGCTACCAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATTAA-TG
65 GGAGCAGATTAAAG-AAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAA
* * * * * ** * * * * **
43018742 GATATTATCTCTCTAAAGTTGTAGTAGAATAGA-T--CG-CATC-AGATCTTATCTCCCGGAAGT
129 G-TCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTAAAGAAAGCAAG-TCTTATCCCCCTAAAGT
* * * * * *** *
43018802 TGCAATGGGGCAGATTGAAG-TTATAAATCC
192 TACAAAGAGGCAAACTGAAGATGCCAAATCT
* * * * *** ** * * *
43018832 TATCTCCCTAAAGTTGTAGTAGAGCGGATTAAA-ATGATGGGTCTTATCTCCCTAAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCCTATCTCCCTGAAGTTGCAGT
* * * * * * * ** * * * **
43018896 GGAGTAGACTGAATAAACCAA-CCTTATGTCCCTAAAGTTGCAGTAAAGCTGATTAAAGTTACAA
65 GGAGCAGATTAAAGAAA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAA
* * * * * * ** * * *
43018960 ATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTA-CAAGTCTTATTCCCCTGAAGTTG
129 GTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTAAAGAAAGCAAGTCTTATCCCCCTAAAGTTA
** * * * * ***
43019024 CAGTGGGGCAGATTGAATAAATC-AATCT
194 CAAAGAGGCAAACTGAAGATGCCAAATCT
* * *
43019052 TATCTCCCTGAAGTTGAAGTGAAGCAGATTAAAGCCAATAATCCTACCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTG
* * * * * * * **
43019117 AAGCAGATTAAAGCCAATAA-TCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTACAAG
66 GAGCAGATTAAAG-AAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAG
** * * *
43019181 TCTTATCTTCCTGAAGTTGCAGTAGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGC
130 TCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTAAAGAAAGCAAGTCTTATCCCCCTAAAGTTAC
*
43019246 AAAGAGGCAAACTGAAGATGGCAAATCT
195 AAAGAGGCAAACTGAAGATGCCAAATCT
* *
43019274 TATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTG
* **
43019339 GAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAG
66 GAGCAGATTAAAGAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CAAG
* * * * *
43019404 TCTTATCCCCCTGAAGTTGCAG-AGGGGCAGACTAAAG-ATGTTGAA-TCTTATCTCTCTAAAGT
130 TCTTATCCCCCTGAAGTTGCAGTA-GAGCAGACTAAAGAAAG--CAAGTCTTATCCCCCTAAAGT
** * * * *
43019466 TACAGTG-GAGTATA-TTAA-A-GCCAATAATCC
192 TACAAAGAG-GCAAACTGAAGATGCC-A-AATCT
* ** * * **
43019496 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCTTATCTCATTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGT
* * * * *
43019560 GGAGCTGACTGAAA-AAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATAAC
65 GGAGCAGA-TTAAAGAAA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-AAC
43019624 A
127 A
43019625 TATCTTGTCT
Statistics
Matches: 776, Mismatches: 198, Indels: 70
0.74 0.19 0.07
Matches are distributed among these distances:
214 1 0.00
216 5 0.01
217 140 0.18
218 5 0.01
220 169 0.22
221 166 0.21
222 184 0.24
223 102 0.13
224 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (222 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAGAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAGT
CTTATCCCCCTGAAGTTGCAGTAGAGCAGACTAAAGAAAGCAAGTCTTATCCCCCTAAAGTTACA
AAGAGGCAAACTGAAGATGCCAAATCT
Found at i:43019611 original size:178 final size:177
Alignment explanation
Indices: 43018918--43019620 Score: 910
Period size: 178 Copynumber: 4.0 Consensus size: 177
43018908 ATAAACCAAC
* ** ** ** * *
43018918 CTTATGTCCCTAAAGTTGCAGTAAAGCTGATTAAAGTTACA-AATCTTATCTCCCTGAAGTTACA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCA
* * * *
43018982 GTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAAT
65 GTGGAGCGGATTAAAGTTACAAGTCTTATCT-CCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAG
* * * * * ***
43019046 CAA-TCTTATCTCCCTGAAGTTGAAGTGAAGCAGATTAAAGCCAATAAT
129 CAAGTCTTATCCCCCTGAAGTTGCAGAGAGGCAGACTAAAGATGATAAT
* * * * * *
43019094 CCTACCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
* * *
43019159 TGGAGCAGATTAAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTAGAGCAGACTGAAGAAAGCA
66 TGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
* * *
43019224 AGTCTTATCCCCCTGAAGTTGCAAAGAGGCAAACTGAAGATGGCA-AAT
131 AGTCTTATCCCCCTGAAGTTGCAGAGAGGCAGACTAAAGAT-G-ATAAT
43019272 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
43019337 TGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
66 TGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
* *
43019402 AGTCTTATCCCCCTGAAGTTGCAGAGGGGCAGACTAAAGATGTTGAAT
131 AGTCTTATCCCCCTGAAGTTGCAGAGAGGCAGACTAAAGATGAT-AAT
* * * *
43019450 CTTATCTCTCTAAAGTTACAGTGGAGTATATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
** * *
43019515 TGGAGCGGATTAAAGTTACAAGTCTTATCTCATTGAAGTTGCAGTGGAGCTGACTGAAAAAAGCA
66 TGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
* * * *
43019580 AGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGAT
131 AGTCTTATCCCCCTGAAGTTGCAGAGAGGCAGACTAAAGAT
43019621 AACATATCTT
Statistics
Matches: 466, Mismatches: 54, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
175 1 0.00
176 109 0.23
177 31 0.07
178 324 0.70
179 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCA
AGTCTTATCCCCCTGAAGTTGCAGAGAGGCAGACTAAAGATGATAAT
Found at i:43019749 original size:89 final size:89
Alignment explanation
Indices: 43019602--43019874 Score: 386
Period size: 89 Copynumber: 3.1 Consensus size: 89
43019592 CTGAAGTTGT
* * *
43019602 AGTGGGGCAGACTGAAGATAACATATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACA
1 AGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACA
* *
43019667 CCAACCTTGCCTCTCTGAGTTTGT
66 CCAGCCTTGCCTCTCTGAGTTTGC
* *
43019691 AGTGGAGCAGATTGAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGACA
1 AGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACA
*
43019756 CCAGCCTTGCCTCCCTGAG-TTGC
66 CCAGCCTTGCCTCTCTGAGTTTGC
* * * * ** * *
43019779 AGTGGAGCAGACTAAAAATAGCAGATCTTGTCTTCCTGTACTGGCAATGAAGAAGATCGAAAACA
1 AGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACA
*
43019844 CCAGCCTTGCCTCTCTTAGTTTGC
66 CCAGCCTTGCCTCTCTGAGTTTGC
43019868 AGTGGAG
1 AGTGGAG
43019875 TAGGTTGAAG
Statistics
Matches: 163, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 75 0.46
89 88 0.54
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
AGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACA
CCAGCCTTGCCTCTCTGAGTTTGC
Found at i:43020036 original size:132 final size:131
Alignment explanation
Indices: 43019866--43020272 Score: 515
Period size: 132 Copynumber: 3.1 Consensus size: 131
43019856 CTCTTAGTTT
*
43019866 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTTTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGT-GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * *
43019931 -AGTGAATCTTATCTTTCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGTCCTATCTCCCTAA
65 GA-CGAATCTTATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAA
43019995 GTA
129 GTA
* * *
43019998 GCAGTAGAGTAGGTTGAAGATTGTCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGT-GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * *
43020063 GACGAATCTTATCCTCCCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCTCTGAG
65 GACGAATCTTATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAG
*
43020127 CA
130 TA
* *
43020129 GTAGTGGAGTAGGTTG--GA----GATCCTGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACG
1 GCAGTGGAGTAGGTTGAAGATTGTGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* * * **
43020188 ACGAGTCTTATCTTCCCGAGGTACTAGGGAAATAGATTTAAGCCACCAGTTTTATCTCCCTGAAG
66 ACGAATCTTATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCT-AAG
*
43020253 TT
130 TA
*
43020255 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
43020273 ATTACCAATT
Statistics
Matches: 236, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
124 60 0.25
125 29 0.12
126 16 0.07
129 2 0.01
131 48 0.20
132 80 0.34
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGTAGGTTGAAGATTGTGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
ACGAATCTTATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGT
A
Found at i:43020188 original size:124 final size:126
Alignment explanation
Indices: 43019890--43020271 Score: 446
Period size: 124 Copynumber: 3.0 Consensus size: 126
43019880 TGAAGATTGT
* * * *
43019890 AGATCCTGTTTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-AGTGAATCTTATCTTTCCAAGGT
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGA-CGAATCTTATCTTCCCGAGGT
* *
43019954 AGTAGGGAAGTAGATTTAAGCCACTAGTCCTATCTCCCTAAGTAGCAGTAGAGTAGGTTGAAG
65 AGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTG-AG
* * *
43020017 ATTGTCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCCTCCCG
1 A-----GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCG
* * * * * *
43020082 AGATAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCTCTGAGCAGTAGTGGAGTAGGTTG-
61 AGGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGA
43020145 G
126 G
* *
43020146 AGATCCTGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACGAGTCTTATCTTCCCGAGGTA
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCGAGGTA
* * ** ** * *
43020211 CTAGGGAAATAGATTTAAGCCACCAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA
66 GTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCT-AAGCAGCAGTAGAGTAGGTTGA
43020272 AATTACCAAT
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
124 60 0.28
125 29 0.14
126 16 0.07
127 1 0.00
129 2 0.01
131 48 0.22
132 57 0.27
133 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (126 bp):
AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCGAGGTA
GTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTAGAGTAGGTTGAG
Found at i:43021084 original size:8 final size:8
Alignment explanation
Indices: 43021073--43021103 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
43021063 TATTTATCCA
43021073 TTTAATTG
1 TTTAATTG
43021081 TTTAATTG
1 TTTAATTG
43021089 TTTAATTG
1 TTTAATTG
43021097 TTTAATT
1 TTTAATT
43021104 ATTCTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (8 bp):
TTTAATTG
Found at i:43027162 original size:22 final size:22
Alignment explanation
Indices: 43027134--43027230 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 22
43027124 ACACCACACT
*
43027134 AGAGAGCACTGTAGTGCTAAAA
1 AGAGAGCACTGAAGTGCTAAAA
*
43027156 AGAGAGCACTGAAGTGCTAAAT
1 AGAGAGCACTGAAGTGCTAAAA
* * * * *
43027178 AGAGGGTACCGAAGTGCTGAAC
1 AGAGAGCACTGAAGTGCTAAAA
* ** * *
43027200 AGAGAACACAAAAGTGCTGAAT
1 AGAGAGCACTGAAGTGCTAAAA
43027222 AGAGAGCAC
1 AGAGAGCAC
43027231 AAAAGTTCTA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.14
Consensus pattern (22 bp):
AGAGAGCACTGAAGTGCTAAAA
Found at i:43027231 original size:22 final size:22
Alignment explanation
Indices: 43027146--43027242 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 22
43027136 AGAGCACTGT
* **
43027146 AGTGCTAAAAAGAGAGCACTGA
1 AGTGCTAAATAGAGAGCACAAA
* * **
43027168 AGTGCTAAATAGAGGGTACCGA
1 AGTGCTAAATAGAGAGCACAAA
* * *
43027190 AGTGCTGAACAGAGAACACAAA
1 AGTGCTAAATAGAGAGCACAAA
*
43027212 AGTGCTGAATAGAGAGCACAAA
1 AGTGCTAAATAGAGAGCACAAA
*
43027234 AGTTCTAAA
1 AGTGCTAAA
43027243 CCCGTATAAG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.15
Consensus pattern (22 bp):
AGTGCTAAATAGAGAGCACAAA
Found at i:43039109 original size:39 final size:40
Alignment explanation
Indices: 43038988--43039168 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
43038978 GCTACTCGTT
*
43038988 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
43039028 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
43039068 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43039107 CAAATGCCTTC-GGATCTTAG-TCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43039147 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
43039169 AGACATCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 51 0.43
40 65 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43039149 original size:79 final size:80
Alignment explanation
Indices: 43038988--43039168 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
43038978 GCTACTCGTT
* *
43038988 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
43039053 ATTTAGTAACTCACA
66 ATATAGTAACTCACA
* **
43039068 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
43039129 GGATATGGTCACTTAGCA
64 GGATATAGTAACTCA-CA
43039147 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
43039169 AGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 26 0.30
79 48 0.55
80 14 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACA
Found at i:43047077 original size:79 final size:81
Alignment explanation
Indices: 43046909--43047093 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
43046899 GCTACTCGTT
* *
43046909 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* * *
43046973 GATTTAGTAACTCGCA
66 GATATAGTAACTAGAA
* **
43046989 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
43047051 GGATATGGTCACTTAGAA
65 AGATATAGTAAC-TAGAA
43047069 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43047094 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
GATATAGTAACTAGAA
Found at i:43047093 original size:40 final size:40
Alignment explanation
Indices: 43046890--43047093 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
43046880 CGGAATTTAA
** *
43046890 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43046930 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43046970 CCAGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43047009 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
43047049 CCGGATATGGTCACTTAGAACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43047089 CCGGA
1 CCGGA
43047094 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43049668 original size:31 final size:31
Alignment explanation
Indices: 43049630--43049797 Score: 291
Period size: 31 Copynumber: 5.4 Consensus size: 31
43049620 ACGGTTACTA
43049630 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
43049661 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
43049692 GGCCGAAGCCTTTTCATAAATCATTTCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
43049723 GGCCGAAGCCTTTTCATAAATCATATCAATG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
43049754 GCCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
43049785 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
43049798 ACTGTAAATG
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:43050084 original size:26 final size:26
Alignment explanation
Indices: 43050015--43050240 Score: 269
Period size: 26 Copynumber: 8.8 Consensus size: 26
43050005 CCTCTTTAAT
* ***
43050015 AACTGCGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
43050040 AACTGGGGTA-AAGCCCTTTTCATTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
43050065 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
43050091 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
43050117 AACTGGGGCATAAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
43050143 AACTGAGGCA-AAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
43050168 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
43050194 AACTAGGGCATAAGCCCTTTGCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
43050220 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43050241 GCACTTCCTC
Statistics
Matches: 169, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
25 48 0.28
26 121 0.72
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:43050126 original size:52 final size:51
Alignment explanation
Indices: 43050015--43050240 Score: 337
Period size: 52 Copynumber: 4.4 Consensus size: 51
43050005 CCTCTTTAAT
* * * *
43050015 AACTGCGGCA-AAGCCCTTTTTGGTAAACTGGGGTAAAGCCCTTTTCATTA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
*
43050065 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
* * *
43050117 AACTGGGGCATAAACCCTTTTCGGTAAACTGAGGCAAAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* *
43050168 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
43050220 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43050241 GCACTTCCTC
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 8 0.05
51 70 0.44
52 81 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:43050163 original size:103 final size:103
Alignment explanation
Indices: 43050015--43050240 Score: 355
Period size: 103 Copynumber: 2.2 Consensus size: 103
43050005 CCTCTTTAAT
* * * * *
43050015 AACTGCGGCA-AAGCCCTTTTTGGTAAACTGGGGTAAAGCCCTTTTCATTAAACTAGGGCATAAG
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
* *
43050079 CCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
66 CCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGCAATA
* * *
43050117 AACTGGGGCATAAACCCTTTTCGGTAAACTGAGGCAAAGCCGTTTTCAATAAACTGGGGCATAAG
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
43050182 CCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGCAATA
66 CCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGCAATA
43050220 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43050241 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 9 0.08
103 103 0.92
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (103 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
CCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGCAATA
Found at i:43050315 original size:20 final size:20
Alignment explanation
Indices: 43050290--43050396 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
43050280 TTATGAATAC
*
43050290 ATCATGTGCGTTTCATACAT
1 ATCATGTGCATTTCATACAT
*
43050310 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43050330 ATCATGCGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43050350 TTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43050370 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
43050390 ATCATGT
1 ATCATGT
43050397 ATATCATATC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
20 74 0.97
21 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43050344 original size:40 final size:40
Alignment explanation
Indices: 43050290--43050396 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
43050280 TTATGAATAC
*
43050290 ATCATGTGCGTTTCATACATATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
* *
43050330 ATCATGCGCATTTCATACATTTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
*
43050370 ATCATGTGCATATCATATCA-ATCATGT
1 ATCATGTGCATTTCATA-CATATCATGT
43050397 ATATCATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
Found at i:43051132 original size:27 final size:27
Alignment explanation
Indices: 43051102--43051166 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
43051092 GGGCATATTC
43051102 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
43051129 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
43051156 GTCTTTTTACC
1 GTCATTTTACC
43051167 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:43051326 original size:27 final size:27
Alignment explanation
Indices: 43051205--43051448 Score: 147
Period size: 27 Copynumber: 9.0 Consensus size: 27
43051195 TACAAAGGTG
* *
43051205 TTTTGGTAAATCTACAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * **
43051232 TTTCAGTAATTTTGTAAACCAATAGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** * *
43051259 TTTTTATAATTTTTAGAAAGTCAAGGGTG
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTA
* **
43051288 TTTCT-GTCATTTTGTAAATCAAGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
**
43051315 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
43051342 TTTCGGTAATTTCACAAA-CCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAG-GGTA
*
43051369 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
* * *
43051396 TTTTGGTAATTCTATCATA-CAGGGGTA
1 TTTTGGTAATTTTA-CAAATCAAGGGTA
* * *
43051423 TTTTAGTAATTTCAC-AATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
43051449 AAACGATAAT
Statistics
Matches: 165, Mismatches: 44, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
25 1 0.01
26 10 0.06
27 124 0.75
28 19 0.12
29 10 0.06
30 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:43051468 original size:27 final size:27
Alignment explanation
Indices: 43051438--43051581 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
43051428 GTAATTTCAC
*
43051438 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * *
43051465 AATCGAGGGTAAAATGGTAATTCTTTA
1 AATCGAGGGTAAAACGATAATTCTGTA
43051492 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
43051519 AATCGAGGGTGAAAC-AGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* * **
43051546 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
43051573 AATCGAGGG
1 AATCGAGGG
43051582 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.99
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:43051507 original size:54 final size:54
Alignment explanation
Indices: 43051438--43051581 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 54
43051428 GTAATTTCAC
* ** *
43051438 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTTTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
43051492 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* * **
43051546 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGG
43051582 CATTTCAGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
Found at i:43053866 original size:31 final size:31
Alignment explanation
Indices: 43053828--43053968 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
43053818 TTTAACGGTT
43053828 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43053859 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43053890 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43053921 ACTGGCCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43053952 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43053969 ACTGTAAATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43053875 original size:60 final size:61
Alignment explanation
Indices: 43053794--43053968 Score: 205
Period size: 62 Copynumber: 2.9 Consensus size: 61
43053784 TTAGTCTTGA
* * * * *
43053794 CATAT-ACTGGGCCGAAACCTTTCGTTTAA-CGGTT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTC-ATAAATCAGTTCACTAGGCCGAAGCCTTTTCATAAAT
*
43053853 CATATCACTGGGCCGAAGCCTTTTCATAAATCATTTCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCC-TTTCATAAATCAGTTCACTAGGCCGAAGCCTTTTCATAAAT
* * *
43053915 CATATCACTGGCCCGAAGCCTTTTCATAAATCA-TATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCC-TTTCATAAATCAGT-TCACTAGGCCGAAGCCTTT
43053969 ACTGTAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
59 5 0.05
60 16 0.16
61 8 0.08
62 73 0.72
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (61 bp):
CATATCACTGGGCCGAAGCCTTTCATAAATCAGTTCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:43054257 original size:26 final size:26
Alignment explanation
Indices: 43054186--43054411 Score: 305
Period size: 26 Copynumber: 8.8 Consensus size: 26
43054176 CCTCTTTAAT
*
43054186 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43054211 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43054236 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43054262 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43054288 AACTGGGGCATAAACCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
43054314 AACTGGGGGA-AAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43054339 AACTGGGGCATAATCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
**
43054365 AACTAAGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43054391 AACTGGGGCATATGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43054412 GCAGTTCCTC
Statistics
Matches: 173, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
25 53 0.31
26 120 0.69
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:43054290 original size:77 final size:78
Alignment explanation
Indices: 43054186--43054411 Score: 314
Period size: 77 Copynumber: 2.9 Consensus size: 78
43054176 CCTCTTTAAT
* *
43054186 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAA
**
43054249 GCCCTTTTCGGTA
66 GCCCTTTTCAATA
** * *
43054262 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAACCCTTTTCGATAAACTGGGGGA-AA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAA
*
43054326 GCCGTTTTCAATA
66 GCCCTTTTCAATA
* ** *
43054339 AACTGGGGCATAATCCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCGATAAACTGGGGCATAT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAA
43054404 GCCCTTTT
66 GCCCTTTT
43054412 GCAGTTCCTC
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 10 0.08
77 90 0.70
78 29 0.22
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (78 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAA
GCCCTTTTCAATA
Found at i:43054327 original size:103 final size:103
Alignment explanation
Indices: 43054186--43054411 Score: 355
Period size: 103 Copynumber: 2.2 Consensus size: 103
43054176 CCTCTTTAAT
*
43054186 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
**
43054250 CCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
66 CCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCAATA
* * * * *
43054288 AACTGGGGCATAAACCCTTTTCGATAAACTGGGGGAAAGCCGTTTTCAATAAACTGGGGCATAAT
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
*
43054353 CCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCGATA
66 CCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCAATA
*
43054391 AACTGGGGCATATGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43054412 GCAGTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 10 0.09
103 102 0.91
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (103 bp):
AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAG
CCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCAATA
Found at i:43054490 original size:20 final size:20
Alignment explanation
Indices: 43054461--43054508 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
43054451 TTATGAATAC
43054461 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43054481 ATCGTGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
43054501 ATCATGTG
1 ATCATGTG
43054509 TGTAACACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43055887 original size:27 final size:27
Alignment explanation
Indices: 43055857--43056034 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
43055847 ATATTGAGTC
* * * *
43055857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43055884 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43055911 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* *
43055939 CGCACACTTAGTGCCT-CATGGTCAATT
1 CGCACACTTAGTG-CTACATAGTCAAAT
* **
43055966 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43055993 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43056020 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43056035 GTACAATTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 105 0.80
28 23 0.18
29 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43055996 original size:82 final size:81
Alignment explanation
Indices: 43055878--43056033 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43055868 TGCTATATAA
* *
43055878 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43055943 CACTTAGTGCCTCATGG
65 CACTTAGTGCCTCATGG
* * **
43055960 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43056024 CACTTAGTGC
65 CACTTAGTGC
43056034 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCTCATGG
Found at i:43057878 original size:20 final size:20
Alignment explanation
Indices: 43057853--43057900 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
43057843 GGCTGTCACA
*
43057853 ATGTGCATTTCATACATTTC
1 ATGTGCATTTCATACATATC
*
43057873 ATGTGCATTTTATACATATC
1 ATGTGCATTTCATACATATC
43057893 ATGTGCAT
1 ATGTGCAT
43057901 AGCATATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTGCATTTCATACATATC
Found at i:43059508 original size:46 final size:45
Alignment explanation
Indices: 43059450--43059569 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 45
43059440 GGTTGAGCAT
* * *
43059450 CCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAAT-G
* *
43059496 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAATG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAATG
* *
43059541 CCGGAGCTCATTGAGTTGAGTCTGAGTTC
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTC
43059570 GCTTATGGGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
45 3 0.05
46 62 0.95
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAATG
Found at i:43064692 original size:45 final size:45
Alignment explanation
Indices: 43064638--43064808 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 45
43064628 GGTTGAGCAT
*
43064638 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
43064683 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTATAGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
43064725 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 C---CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
43064773 CCGAGCTAGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43064809 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 8 0.08
44 2 0.02
45 85 0.82
46 2 0.02
48 7 0.07
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:43064796 original size:90 final size:90
Alignment explanation
Indices: 43064634--43064801 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 90
43064624 GGATGGTTGA
* * *
43064634 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCGAACTAGTTGAGTT
43064699 GAGTCCGAGTTCGTGAGATGTATAG
66 GAGTCCGAGTTCGTGAGATGTATAG
* * *
43064724 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCGAGCTAGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCGAACTAGTTGAGTT
43064789 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
43064802 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (90 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCGAACTAGTTGAGTT
GAGTCCGAGTTCGTGAGATGTATAG
Found at i:43077418 original size:33 final size:34
Alignment explanation
Indices: 43077346--43077431 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 34
43077336 CGACTAAGAT
* *
43077346 CCGAAGGCATGTGTGCG-GTTACTAATTCGGGCTAA
1 CCGAA-GCATG-GTGCGAGTTACAAATCCGGGCTAA
43077381 CCGAAGC-TGGTGCGAGTTACAAATCCGGG-TAA
1 CCGAAGCATGGTGCGAGTTACAAATCCGGGCTAA
*
43077413 GCCGAAGCATTGTGCGAGT
1 -CCGAAGCATGGTGCGAGT
43077432 CTATAACCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
32 8 0.18
33 21 0.47
34 11 0.24
35 5 0.11
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (34 bp):
CCGAAGCATGGTGCGAGTTACAAATCCGGGCTAA
Found at i:43085113 original size:40 final size:39
Alignment explanation
Indices: 43085069--43085250 Score: 160
Period size: 39 Copynumber: 4.7 Consensus size: 39
43085059 TCGAATGATG
* *
43085069 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTA-A
* *
43085109 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAA
* *
43085148 TTCCGGGCTAAG-CCTGAAGGCATTGGTGCAAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AA
* ** *
43085188 T-CGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTA-TTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAA
* *
43085225 TAACGGGCTATGT-CCGAAGGCATTTG
1 T-CCGGGCTAAGTCCCGAAGGCATTTG
43085251 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
37 2 0.02
38 22 0.19
39 50 0.42
40 36 0.31
41 8 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAA
Found at i:43097495 original size:44 final size:46
Alignment explanation
Indices: 43097445--43097537 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
43097435 TACAACCTAT
* *
43097445 ATTCCATTCAACCAAACACA-AGAA-TACT-ATTCCAGTTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTAATTACAGCTCTATTCC
* *
43097489 ATTCCATTCAACTAAACAATTGAATTACTAATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATTCC
43097535 ATT
1 ATT
43097538 ACATCTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 20 0.48
45 4 0.10
46 17 0.40
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTAATTACAGCTCTATTCC
Found at i:43110889 original size:40 final size:40
Alignment explanation
Indices: 43110775--43110918 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
43110765 TACTCGAATG
**
43110775 ATATCCGGGCTAAGTCCCGAAGGGTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
43110816 ACAT-CAGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43110855 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43110895 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43110919 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 11 0.13
40 72 0.83
41 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43114452 original size:13 final size:13
Alignment explanation
Indices: 43114434--43114458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43114424 TAATGGTATA
43114434 TTGAATCCATGAC
1 TTGAATCCATGAC
43114447 TTGAATCCATGA
1 TTGAATCCATGA
43114459 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:43116199 original size:49 final size:49
Alignment explanation
Indices: 43116143--43116506 Score: 546
Period size: 49 Copynumber: 7.6 Consensus size: 49
43116133 TATTTGAATA
* *
43116143 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43116192 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43116239 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
43116288 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43116337 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
43116384 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
43116431 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43116480 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
43116507 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 141 0.49
48 1 0.00
49 148 0.51
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43116235 original size:47 final size:48
Alignment explanation
Indices: 43116143--43116506 Score: 529
Period size: 47 Copynumber: 7.6 Consensus size: 48
43116133 TATTTGAATA
* *
43116143 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43116192 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43116239 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
43116288 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43116337 AATGTGAAAGTG-TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
43116384 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
43116431 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43116480 GATGTGAAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGATATATATGTGATAAG
43116507 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 145 0.50
49 144 0.50
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43116264 original size:96 final size:96
Alignment explanation
Indices: 43116143--43116506 Score: 579
Period size: 96 Copynumber: 3.8 Consensus size: 96
43116133 TATTTGAATA
*
43116143 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
43116208 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43116239 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
43116304 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
43116337 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
43116400 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
43116431 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
43116496 AATGTGATAAG
66 TATGTGATAAG
43116507 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
94 46 0.18
96 158 0.63
98 46 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43116681 original size:37 final size:37
Alignment explanation
Indices: 43116625--43116703 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43116615 CCGAGCTCTA
* * *
43116625 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43116662 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43116699 AAGAC
1 AAGAC
43116704 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43118615 original size:43 final size:43
Alignment explanation
Indices: 43118567--43118669 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
43118557 TTGGTTTTCA
*
43118567 GCACTAAGTGTCCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43118610 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43118653 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
43118670 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:43118686 original size:29 final size:29
Alignment explanation
Indices: 43118651--43118724 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43118641 GTTGTGAGAT
* *
43118651 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43118680 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43118709 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43118725 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43120978 original size:13 final size:13
Alignment explanation
Indices: 43120960--43120984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43120950 TAATGGTATA
43120960 TTGAATCCATGAC
1 TTGAATCCATGAC
43120973 TTGAATCCATGA
1 TTGAATCCATGA
43120985 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:43122727 original size:49 final size:49
Alignment explanation
Indices: 43122671--43123034 Score: 537
Period size: 49 Copynumber: 7.6 Consensus size: 49
43122661 TATTTGAATA
* *
43122671 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43122720 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43122767 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43122816 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43122865 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
43122912 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
43122959 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43123008 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
43123035 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 140 0.49
48 1 0.00
49 147 0.51
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43122763 original size:47 final size:47
Alignment explanation
Indices: 43122671--43123034 Score: 521
Period size: 47 Copynumber: 7.6 Consensus size: 47
43122661 TATTTGAATA
* *
43122671 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43122720 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43122767 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
43122816 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATG
* *
43122865 AATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43122912 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
43122959 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43123008 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43123035 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
47 145 0.51
49 142 0.49
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43122792 original size:96 final size:96
Alignment explanation
Indices: 43122671--43123034 Score: 579
Period size: 96 Copynumber: 3.8 Consensus size: 96
43122661 TATTTGAATA
*
43122671 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
43122736 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43122767 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
43122832 TATGTGTGATAAGGCCTAATGGCCGATGTGATG
66 TA--TGTGATAAGGCCTAATGGCCGATGTGATG
* * *
43122865 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
43122928 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
43122959 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
43123024 AATGTGATAAG
66 TATGTGATAAG
43123035 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
94 40 0.16
96 170 0.68
98 40 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43123209 original size:37 final size:37
Alignment explanation
Indices: 43123153--43123231 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43123143 CCGAGCTCTA
* * *
43123153 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
43123190 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43123227 AAGAC
1 AAGAC
43123232 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43128177 original size:39 final size:39
Alignment explanation
Indices: 43128132--43128252 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
43128122 ATGCAAGACA
43128132 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43128171 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
43128210 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43128249 CTGG
1 CTGG
43128253 TGCTGGTAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:43135490 original size:27 final size:27
Alignment explanation
Indices: 43135460--43135637 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43135450 ATATTGAGTC
* * * *
43135460 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43135487 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43135514 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43135542 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43135569 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43135596 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43135623 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43135638 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43135599 original size:82 final size:81
Alignment explanation
Indices: 43135481--43135636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43135471 TGCTATATAA
* *
43135481 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43135546 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43135563 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43135627 CACTTAGTGC
65 CACTTAGTGC
43135637 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43143581 original size:27 final size:27
Alignment explanation
Indices: 43143551--43143727 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
43143541 TATTGAGTCT
* * * *
43143551 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
43143578 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
*
43143605 GCACACTTAGCGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
43143633 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
43143660 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
43143687 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
43143714 GCACACTTAGTGCT
1 GCACACTTAGTGCT
43143728 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:43143689 original size:82 final size:81
Alignment explanation
Indices: 43143571--43143726 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43143561 TGCTATATAA
* *
43143571 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGCGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGCGCAACATAGTCAAA-TCGCA
43143636 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
43143653 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGCGCAACATAGTCAAATCGCA
43143717 CACTTAGTGC
65 CACTTAGTGC
43143727 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGCGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43147631 original size:18 final size:18
Alignment explanation
Indices: 43147605--43147639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43147595 TGACGTGGAA
* *
43147605 GAGAGAAGTTGTAAGGGG
1 GAGAAAAGTAGTAAGGGG
43147623 GAGAAAAGTAGTAAGGG
1 GAGAAAAGTAGTAAGGG
43147640 CAAGAAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.46, T:0.14
Consensus pattern (18 bp):
GAGAAAAGTAGTAAGGGG
Done.