Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 104 of 352
Found at i:33157666 original size:74 final size:75
Alignment explanation
Indices: 33157528--33157680 Score: 299
Period size: 74 Copynumber: 2.1 Consensus size: 75
33157518 GAACAACATA
33157528 CAAAATGATTATAATGCTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCCATCCAAATA
1 CAAAATGATTATAATGCTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCCATCCAAATA
33157593 TATACATTAC
66 TATACATTAC
33157603 CAAAATGATTATAATGCTATGCTCAAAATATA-ATATAAGCCATTTTCGCATGGCCATCCAAATA
1 CAAAATGATTATAATGCTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCCATCCAAATA
33157667 TATACATTAC
66 TATACATTAC
33157677 CAAA
1 CAAA
33157681 GTACTTGACT
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 46 0.59
75 32 0.41
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (75 bp):
CAAAATGATTATAATGCTATGCTCAAAATATATATATAAGCCATTTTCGCATGGCCATCCAAATA
TATACATTAC
Found at i:33157965 original size:28 final size:28
Alignment explanation
Indices: 33157921--33157986 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
33157911 ATGGCTAAAT
33157921 GAAT-AACTTCATATATGCACATTCTCA
1 GAATCAACTTCATATATGCACATTCTCA
*
33157948 TAATCAACTTCATATATGCACATTCTCA
1 GAATCAACTTCATATATGCACATTCTCA
33157976 GAATCATACTT
1 GAATCA-ACTT
33157987 ACTTCACGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 3 0.09
28 28 0.80
29 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (28 bp):
GAATCAACTTCATATATGCACATTCTCA
Found at i:33158267 original size:40 final size:41
Alignment explanation
Indices: 33158190--33158450 Score: 322
Period size: 40 Copynumber: 6.5 Consensus size: 41
33158180 ACCCAAGTAT
* *
33158190 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
33158229 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
* * * *
33158269 CTTCGGGACTTAACCCGGATATAGTC-GCTATCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
*
33158309 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
* *
33158349 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
* * *
33158389 CTTCGGGACTTAGTCCGGATATAGTC-ACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
* *
33158429 CTTCGGGACTTTGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
33158451 CATTCGAATA
Statistics
Matches: 196, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.06
40 181 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAATGC
Found at i:33158424 original size:120 final size:120
Alignment explanation
Indices: 33158190--33158450 Score: 384
Period size: 120 Copynumber: 2.2 Consensus size: 120
33158180 ACCCAAGTAT
*
33158190 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAG
* * * *
33158253 TCACTAGCATAAATGCCTTCGGGACTTAACCCGGATATAGTCGCTATCACAAATGC
65 TCACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
*
33158309 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAG-
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGT
* **
33158373 CAACTCGCACAAATGCCTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAAAGC
66 C-ACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
* *
33158429 CTTCGGGACTTTGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
33158451 CATTCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
118 1 0.01
119 12 0.09
120 115 0.90
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGT
CACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
Found at i:33161507 original size:31 final size:31
Alignment explanation
Indices: 33161472--33161543 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
33161462 TACTGCGCCA
33161472 AAGCCTTTACATTATTCATATCACTAGGCCG
1 AAGCCTTTACATTATTCATATCACTAGGCCG
* *
33161503 AAGCCTTTTCATTATTCATATCACTGGGCCG
1 AAGCCTTTACATTATTCATATCACTAGGCCG
33161534 AAGCCTTTAC
1 AAGCCTTTAC
33161544 TGTAACAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (31 bp):
AAGCCTTTACATTATTCATATCACTAGGCCG
Found at i:33161845 original size:24 final size:26
Alignment explanation
Indices: 33161761--33161856 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
33161751 CTCTTTTAAT
* *
33161761 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
33161787 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
33161813 AACTAGGGC-AAAGCCCTTTTCGGT-
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
33161837 AACTAGGGC-ATAGCCCTTTT
1 AACTAGGGCAAAAGCCCTTTT
33161857 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.29
25 15 0.23
26 31 0.48
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTAGGGCAAAAGCCCTTTTCGGTA
Found at i:33162016 original size:25 final size:25
Alignment explanation
Indices: 33161988--33162035 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33161978 ATAATTAAAC
* *
33161988 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
33162013 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
33162036 CATCTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:33164842 original size:39 final size:39
Alignment explanation
Indices: 33164783--33165003 Score: 259
Period size: 39 Copynumber: 6.0 Consensus size: 39
33164773 ATTATATTAT
* * *
33164783 CAGCACAAAGCCTGCGGGACTTTGGCCCTGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
33164822 CAGCACGAAGCCTGCAGGACTTTGGCCAGG---------
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
33164852 C---ACGAAGCCTGTGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
33164888 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
33164927 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
33164966 CTGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
33165004 TCAGTGTCTT
Statistics
Matches: 154, Mismatches: 16, Indels: 24
0.79 0.08 0.12
Matches are distributed among these distances:
27 21 0.14
30 1 0.01
36 1 0.01
39 131 0.85
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:33164896 original size:66 final size:66
Alignment explanation
Indices: 33164785--33164988 Score: 219
Period size: 66 Copynumber: 2.9 Consensus size: 66
33164775 TATATTATCA
* *
33164785 GCACAAAGCCTGCGGGACTTTGGCCCTGATACATTTCCAGCACGAAGCCTGCAGGACTTTGGCCA
1 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTGGCCA
33164850 G
66 G
* * * * *
33164851 GCACGAAGCCTGTGGGACTTTAGTCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCC
1 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTGGCCA
33164916 G
66 G
* *
33164917 GATATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCTGCACGAAGCCTGCG
1 G---------CA-CA--AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCA
33164982 GGACTTT
54 GGACTTT
33164989 AGCCCGGATA
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
66 60 0.52
75 2 0.02
76 1 0.01
78 52 0.45
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (66 bp):
GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTGGCCA
G
Found at i:33172270 original size:20 final size:20
Alignment explanation
Indices: 33172245--33172284 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33172235 GATACTTAAT
33172245 TGTCTTTAAGACCACGTCGA
1 TGTCTTTAAGACCACGTCGA
33172265 TGTCTTTAAGACCACGTCGA
1 TGTCTTTAAGACCACGTCGA
33172285 ACGTGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTCTTTAAGACCACGTCGA
Found at i:33179266 original size:30 final size:30
Alignment explanation
Indices: 33179231--33179288 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
33179221 TGGGCACTTC
33179231 CACACGGGT-GATCCACACGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
33179261 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
33179289 TATGGCTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:33193470 original size:2 final size:2
Alignment explanation
Indices: 33193463--33193516 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
33193453 AATGTTTTCA
*
33193463 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
33193505 TC TC TC TC TC TC
1 TC TC TC TC TC TC
33193517 AGAGTCTCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:33194692 original size:2 final size:2
Alignment explanation
Indices: 33194687--33194721 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
33194677 CAGAGATTTC
*
33194687 AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33194722 CTAAAAACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33199848 original size:48 final size:47
Alignment explanation
Indices: 33199767--33199932 Score: 183
Period size: 48 Copynumber: 3.5 Consensus size: 47
33199757 AAGCTGACAC
* * * *
33199767 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC-CGTATATCTCGAGGACAATG
* *
33199815 CATGTCCCAGACATGTCTTACATTGGCCGGTATATCTCGAAGACAATG
1 CATGTCCCAGACATGTCTTACACTGGCC-GTATATCTCGAGGACAATG
* * * * * *
33199863 CATGTCCTAGACATGTCTTACACTGGCTCTTA-ATAT-GTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-CGTATATCTCGAGGACAATG
33199909 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
33199933 AGCATACATA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 29 0.29
47 3 0.03
48 68 0.67
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCCGTATATCTCGAGGACAATG
Found at i:33209696 original size:38 final size:38
Alignment explanation
Indices: 33209645--33209768 Score: 196
Period size: 38 Copynumber: 3.3 Consensus size: 38
33209635 ATATTTGATG
33209645 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAT
* *
33209683 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAT
*
33209721 TATATCCAGGTTAAATCCCGCAGGCTT-AGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTAGTAT
*
33209759 TATATTCGGG
1 TATATCCGGG
33209769 CCTTTGAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAT
Found at i:33209812 original size:45 final size:45
Alignment explanation
Indices: 33209761--33210023 Score: 300
Period size: 45 Copynumber: 5.9 Consensus size: 45
33209751 GCTAGTATTA
*
33209761 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * * *
33209806 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGTCAGTGAGACAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
33209851 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * *
33209896 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATACAGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * *
33209941 TATCCGGG-CTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA-CAC
* * * *
33209986 TAATCAGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
33210024 TTTGAGAAAA
Statistics
Matches: 189, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
43 11 0.06
44 17 0.09
45 159 0.84
46 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:33214404 original size:20 final size:20
Alignment explanation
Indices: 33214339--33214405 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
33214329 TTATGAACTT
33214339 AGACCACAACTCATGAGTTC
1 AGACCACAACTCATGAGTTC
* * * **
33214359 AGATGTCATATATATCATGAACTC
1 AGA--CCACA-A-CTCATGAGTTC
33214383 AGACCACAACTCATGAGTTC
1 AGACCACAACTCATGAGTTC
33214403 AGA
1 AGA
33214406 TGACATAGTT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 6 0.18
23 1 0.03
24 11 0.33
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (20 bp):
AGACCACAACTCATGAGTTC
Found at i:33217396 original size:13 final size:13
Alignment explanation
Indices: 33217378--33217403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33217368 CTGTGCATCC
33217378 TTAGTTTAGATAA
1 TTAGTTTAGATAA
33217391 TTAGTTTAGATAA
1 TTAGTTTAGATAA
33217404 ACAAACCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:33221526 original size:40 final size:40
Alignment explanation
Indices: 33221447--33221588 Score: 173
Period size: 40 Copynumber: 3.5 Consensus size: 40
33221437 ATGATGTCCA
* * *
33221447 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
*
33221487 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
33221527 GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
33221567 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
33221589 AAGGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 77 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:33221606 original size:80 final size:79
Alignment explanation
Indices: 33221450--33221611 Score: 179
Period size: 80 Copynumber: 2.0 Consensus size: 79
33221440 ATGTCCAGGC
* * *
33221450 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCAAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTTGAGCGAG
33221515 TTACTAAATCCGGGT
66 TTACTAAATCC-GGT
* * * *
33221530 TAAGTCCCAAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGAAG-
1 TAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCATTTG-AGC
*
33221592 GAG-TAGCTATATCCGGT
63 GAGTTA-CTAAATCCGGT
33221609 TAA
1 TAA
33221612 ATTCCGAAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
79 9 0.13
80 53 0.76
81 8 0.11
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
TAAGTCCCAAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTTGAGCGAG
TTACTAAATCCGGT
Found at i:33221999 original size:79 final size:81
Alignment explanation
Indices: 33221854--33222038 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
33221844 TATATGGAAT
* * *
33221854 TATCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 TATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
33221918 TTTGTGCGAGTTACTA
66 TTTGTGCGAGTTACTA
* * **
33221934 -ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGG
1 TA-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCC-GAAGG
33221995 CATTTGTGCGAGTTACTA
64 CATTTGTGCGAGTTACTA
* *
33222013 TAACCGGGCTATGTCCCGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGGCATT
33222039 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 59 0.65
80 29 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
TTTGTGCGAGTTACTA
Found at i:33222047 original size:40 final size:39
Alignment explanation
Indices: 33221861--33222040 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 39
33221851 AATTATCCGA
* * *
33221861 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCGG
* *
33221901 ACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGG
1 GCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCGG
*
33221941 GCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCGG
* *
33221980 GTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCGG
*
33222020 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
33222041 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCGG
Found at i:33222062 original size:79 final size:79
Alignment explanation
Indices: 33221903--33222073 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 79
33221893 ATATCCGGAC
* **
33221903 TAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGT
1 TAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGT
33221968 TACTAAATCCGGGT
66 TACTAAATCCGGGT
* *
33221982 TAAG-TCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG
1 TAAGATCC-GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACG
*
33222045 AG-TAGCTAGATCC-GGT
63 AGTTA-CTAAATCCGGGT
33222061 TAA-ATTCCGAAGG
1 TAAGA-TCCGAAGG
33222074 TACGTGATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
78 5 0.06
79 48 0.60
80 27 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
TAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGT
TACTAAATCCGGGT
Found at i:33230011 original size:40 final size:40
Alignment explanation
Indices: 33229954--33230029 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
33229944 TCGAATGATG
*
33229954 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTG-TAAGTTACTATA
*
33229994 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTAC
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGTAAGTTAC
33230030 CCGAAGGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 25 0.78
41 7 0.22
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGTAAGTTACTATA
Found at i:33230037 original size:23 final size:23
Alignment explanation
Indices: 33230007--33230052 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33229997 GGACTAAGAT
* *
33230007 CCGAAGGCATTTGTGTGAGTTAC
1 CCGAAGGCATTGGTGCGAGTTAC
33230030 CCGAAGGCATTGGTGCGAGTTAC
1 CCGAAGGCATTGGTGCGAGTTAC
33230053 TAAATCCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (23 bp):
CCGAAGGCATTGGTGCGAGTTAC
Found at i:33230077 original size:63 final size:63
Alignment explanation
Indices: 33229966--33230092 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 63
33229956 CGGGCTAAGT
* * * *
33229966 CCCGAAGGCTTTGTGCTAAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTA
1 CCCGAAGGCTTGGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTA
* **
33230029 CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCATTTGTGCGAGTTA
1 CCCGAAGGC-TTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTA
33230092 C
1 C
33230093 TATAACCCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.87
64 6 0.11
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (63 bp):
CCCGAAGGCTTGGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTA
Found at i:33234562 original size:6 final size:6
Alignment explanation
Indices: 33234541--33234580 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
33234531 GTTTAAAAAC
* *
33234541 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
33234581 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:33235663 original size:48 final size:48
Alignment explanation
Indices: 33235605--33235742 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 48
33235595 ATTCTCATAT
33235605 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
***
33235653 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATGT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
* * * * * * *
33235701 CGAAGCCGATGCCATATCCCATATATGGTCTTATACGGGATC
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
33235743 TCATCAACCC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
Found at i:33242144 original size:24 final size:24
Alignment explanation
Indices: 33242117--33242165 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
33242107 ACTAAACTTA
*
33242117 GCATACAACTGTTTGTCTCTCAAG
1 GCATACAACTGCTTGTCTCTCAAG
33242141 GCATACAACTGCTTGTCTCTCAAG
1 GCATACAACTGCTTGTCTCTCAAG
33242165 G
1 G
33242166 TTTGCAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
GCATACAACTGCTTGTCTCTCAAG
Found at i:33247720 original size:20 final size:20
Alignment explanation
Indices: 33247695--33247763 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
33247685 GTCACATAAA
33247695 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
** * *
33247715 TCATGAGTTCAGATGTCACATATA
1 TCATGAACTCAGA--CCACA-A-C
33247739 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
33247759 TCATG
1 TCATG
33247764 TGTTCAGATC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 16 0.43
21 1 0.03
22 8 0.22
23 1 0.03
24 11 0.30
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:33247747 original size:44 final size:44
Alignment explanation
Indices: 33247684--33247772 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
33247674 CCCGAACATG
33247684 TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
1 TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
* *
33247728 TGTCACATATATCATGAACTCAGACCACAACTCATGTGTTCAGA
1 TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
33247772 T
1 T
33247773 CACATACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (44 bp):
TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:33254924 original size:11 final size:11
Alignment explanation
Indices: 33254908--33254946 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 11
33254898 ATTAAATATT
33254908 AAAATATTTAA
1 AAAATATTTAA
33254919 AAAATATGTTTAA
1 AAAATA--TTTAA
33254932 AAAATA-TTAA
1 AAAATATTTAA
33254942 AAAAT
1 AAAAT
33254947 CTAAACATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
13 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:33264677 original size:13 final size:13
Alignment explanation
Indices: 33264661--33264685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33264651 TGAATAATGT
33264661 ATGATGTAAATTA
1 ATGATGTAAATTA
33264674 ATGATGTAAATT
1 ATGATGTAAATT
33264686 CCCGGTTAAA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGATGTAAATTA
Found at i:33264792 original size:45 final size:45
Alignment explanation
Indices: 33264741--33265141 Score: 516
Period size: 45 Copynumber: 8.8 Consensus size: 45
33264731 TGGGTGACAC
* *
33264741 GTGAGCCAGTGTAAGACCATGATGGACATGGCATCAGCATTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
* * * **
33264786 GTGAGCCAGTGTAAGACCATGTTGAAAATGGCAACGGTGTTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
* * * *
33264831 ATGAGCCAGTGTAAGACCACGTTGGACATGGCATTGGTATTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
* *
33264876 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
* * *
33264921 GTGAGCTAGTGTAAGACCATGTTGGACATGGCATCAGCGTTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
*
33264966 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGAC-TTGGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATT-GATT
* *
33265011 TTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATT
1 GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
* * * *
33265056 GTGAGCTAGTCTAAGACCATGTCTGGGACATGGCATCGGCATCGACAT
1 GTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCATTGA-TT
* *
33265104 GTGAGCCAATGTAAGACCATGTCTGGGACATGACATCG
1 GTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCG
33265142 ACAATTCACC
Statistics
Matches: 313, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.01
45 255 0.81
46 3 0.01
47 18 0.06
48 35 0.11
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (45 bp):
GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATT
Found at i:33266904 original size:19 final size:18
Alignment explanation
Indices: 33266876--33266911 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33266866 TATACGGCCT
33266876 AAGGACACGGGCGTGTCG
1 AAGGACACGGGCGTGTCG
*
33266894 AAGGCACACGGGTGTGTC
1 AAGG-ACACGGGCGTGTC
33266912 CCTGTGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.14
Consensus pattern (18 bp):
AAGGACACGGGCGTGTCG
Found at i:33266941 original size:24 final size:22
Alignment explanation
Indices: 33266898--33266941 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
33266888 GTGTCGAAGG
*
33266898 CACACGGGTGTGTCCCTGTGTC
1 CACACGGGTGTGACCCTGTGTC
*
33266920 CACACGGGCGTGTGACCTTGTG
1 CACAC-GG-GTGTGACCCTGTG
33266942 ACATGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 2 0.11
24 11 0.61
ACGTcount: A:0.11, C:0.30, G:0.34, T:0.25
Consensus pattern (22 bp):
CACACGGGTGTGACCCTGTGTC
Found at i:33267314 original size:24 final size:24
Alignment explanation
Indices: 33267282--33267332 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
33267272 TACAAATCAC
33267282 TCATAGATGTTTAAAAAGAATTGG
1 TCATAGATGTTTAAAAAGAATTGG
33267306 TCATAGATGTTTAAAAAGAATTGG
1 TCATAGATGTTTAAAAAGAATTGG
33267330 TCA
1 TCA
33267333 ATCATTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (24 bp):
TCATAGATGTTTAAAAAGAATTGG
Found at i:33268783 original size:34 final size:34
Alignment explanation
Indices: 33268740--33268806 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
33268730 GTTTCAGTTA
* *
33268740 GGGCTTTAGCCCAATAT-AGTAACAGTATCAGTAT
1 GGGCCTTAG-CCAATATCAGTAACAGTAACAGTAT
* *
33268774 GGGCCTTAGCCTATTTCAGTAACAGTAACAGTA
1 GGGCCTTAGCCAATATCAGTAACAGTAACAGTA
33268807 CAGATATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (34 bp):
GGGCCTTAGCCAATATCAGTAACAGTAACAGTAT
Found at i:33285350 original size:119 final size:119
Alignment explanation
Indices: 33285138--33285352 Score: 331
Period size: 119 Copynumber: 1.8 Consensus size: 119
33285128 TATATATATG
** * *
33285138 TAATGGCATGCTTGATTACAATCATACATCTCATAAGGGCATAATCGTCACTTTAGTACATAGGG
1 TAATGGCATGCTCAATTACAAACATACATCTCATAAGGGCATAATAGTCACTTTAGTACATAGGG
* * **
33285203 AACAACAGTCATTTGTCAGTTTGGGGGTCTACATATACTTATCGACCCAACATC
66 AACAACAATCATTTGTCACTTTAAGGGTCTACATATACTTATCGACCCAACATC
33285257 TAATGGCATGCTCAATTACAAACATACATCTCATAAGGGCATAATAGTCACTTTAGTACATAGGG
1 TAATGGCATGCTCAATTACAAACATACATCTCATAAGGGCATAATAGTCACTTTAGTACATAGGG
* * *
33285322 CATAACAATCATTTGTTACTTTAAGGGTCTA
66 AACAACAATCATTTGTCACTTTAAGGGTCTA
33285353 GGTATTCTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
119 85 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (119 bp):
TAATGGCATGCTCAATTACAAACATACATCTCATAAGGGCATAATAGTCACTTTAGTACATAGGG
AACAACAATCATTTGTCACTTTAAGGGTCTACATATACTTATCGACCCAACATC
Found at i:33288520 original size:6 final size:6
Alignment explanation
Indices: 33288509--33288548 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
33288499 CCTTGTTCCC
* *
33288509 AAAACA AAAACA AAAACG AAAACA AAATCA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
33288549 ACAATAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.80, C:0.15, G:0.03, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:33291317 original size:40 final size:40
Alignment explanation
Indices: 33291267--33291347 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
33291257 TATCCTAGAC
33291267 ATGGTCTCATATGTAATCAAACATCGATGCCACTATCCCA
1 ATGGTCTCATATGTAATCAAACATCGATGCCACTATCCCA
33291307 ATGGTCTCATATGTAATCAAACATCGATGCCACTATCCCA
1 ATGGTCTCATATGTAATCAAACATCGATGCCACTATCCCA
33291347 A
1 A
33291348 ACAGGGTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (40 bp):
ATGGTCTCATATGTAATCAAACATCGATGCCACTATCCCA
Found at i:33294885 original size:27 final size:27
Alignment explanation
Indices: 33294855--33295160 Score: 317
Period size: 27 Copynumber: 11.3 Consensus size: 27
33294845 TTAGTTTACC
33294855 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
33294882 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33294909 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
33294936 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33294963 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
33294990 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
33295017 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33295044 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * ***
33295071 AAATTACTGAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*** **
33295098 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * *
33295125 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33295152 GAATTACCA
1 AAATTACCA
33295161 TTTTACCCTC
Statistics
Matches: 234, Mismatches: 43, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 3 0.01
27 228 0.97
28 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:33295167 original size:27 final size:27
Alignment explanation
Indices: 33295110--33295362 Score: 254
Period size: 27 Copynumber: 9.4 Consensus size: 27
33295100 ATTATTGAAA
* ** ***
33295110 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCATTT
* * *
33295137 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
33295164 TACCCTCGATATACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
33295191 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * * *
33295218 TACACTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
33295245 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
33295272 TACCCTCGATTTATAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
33295299 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
**
33295326 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
33295353 TACCCTCGAT
1 TACCCTCGAT
33295363 GGACGGAGGC
Statistics
Matches: 190, Mismatches: 36, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:33295168 original size:54 final size:54
Alignment explanation
Indices: 33295110--33295362 Score: 281
Period size: 54 Copynumber: 4.7 Consensus size: 54
33295100 ATTATTGAAA
* * *** * *
33295110 TACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * * * *
33295164 TACCCTCGATATACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
33295218 TACACTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * *
33295272 TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* **
33295326 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGAT
33295363 GGACGGAGGC
Statistics
Matches: 166, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 166 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:33295182 original size:81 final size:81
Alignment explanation
Indices: 33295110--33295362 Score: 362
Period size: 81 Copynumber: 3.1 Consensus size: 81
33295100 ATTATTGAAA
* * *** * * * *
33295110 TACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACCATTTTACCCTCGATA
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
33295175 TACAAAATTACTATTT
66 TACAAAATTACTATTT
* * * *
33295191 TACCCTTGATTTACAAAATTACCGTTTTACACTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
*
33295256 TACAGAATTACTATTT
66 TACAAAATTACTATTT
*
33295272 TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
*
33295337 TACAAAATTACTGTTT
66 TACAAAATTACTATTT
33295353 TACCCTCGAT
1 TACCCTCGAT
33295363 GGACGGAGGC
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 151 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
TACAAAATTACTATTT
Found at i:33298109 original size:43 final size:42
Alignment explanation
Indices: 33298062--33298206 Score: 100
Period size: 43 Copynumber: 3.4 Consensus size: 42
33298052 TCCTAGCTGT
** *
33298062 GGTCTTACATGAAATCAAAAATCGATGCC-ACTGTCCTAGACAG
1 GGTCTTACACAAAATCAAAAA-CGATGCCGA-TGTCCCAGACAG
* *
33298105 GGTCTTAGACAAAATCAAATACGATGCCGATGTCCCAGACA-
1 GGTCTTACACAAAATCAAAAACGATGCCGATGTCCCAGACAG
** ** * *
33298146 TATCTTACACGTAAAA-CAGAAGTCGATGCCAACGTCCCAGAC-G
1 GGTCTTACAC--AAAATCA-AAAACGATGCCGATGTCCCAGACAG
*
33298189 TCGTCTTACACAAAATCA
1 -GGTCTTACACAAAATCA
33298207 CATAACGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
41 7 0.09
42 23 0.28
43 43 0.53
44 8 0.10
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
GGTCTTACACAAAATCAAAAACGATGCCGATGTCCCAGACAG
Found at i:33307305 original size:23 final size:24
Alignment explanation
Indices: 33307282--33307328 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
33307272 GAGGCGCATT
33307282 TTCACAACTCGGGTGAGCATATTTA
1 TTCACAACTCGGGTGAGCATA-TTA
* *
33307307 TTCACAGCTCGTGTGAGCATAT
1 TTCACAACTCGGGTGAGCATAT
33307329 ATGTAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
TTCACAACTCGGGTGAGCATATTA
Found at i:33309953 original size:26 final size:26
Alignment explanation
Indices: 33309924--33310033 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
33309914 TGGTACAAAT
33309924 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
33309950 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
33309976 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
33310002 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
33310028 TGATAA
1 TGATAA
33310034 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:33311290 original size:27 final size:27
Alignment explanation
Indices: 33311249--33311388 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
33311239 GAGGAAGCGT
*
33311249 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
33311276 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
33311303 TCTGGTGGCTCTGCCACATAGATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33311330 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
33311358 TCTAGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
33311384 TCTGG
1 TCTGG
33311389 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.04
27 80 0.82
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:33311334 original size:54 final size:55
Alignment explanation
Indices: 33311249--33311388 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
33311239 GAGGAAGCGT
* * *
33311249 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
33311303 TCTGGTGGCTCTGCCACATAGATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
33311358 TCTAGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
33311389 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 58 0.77
55 17 0.23
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:33315391 original size:26 final size:26
Alignment explanation
Indices: 33315362--33315469 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
33315352 TACAAATTGA
33315362 ATAATAGGTTAGGTAAATG-TTCAATG
1 ATAATAGGTTAGGTAAATGTTTC-ATG
*
33315388 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
33315414 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
33315440 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
33315466 ATAA
1 ATAA
33315470 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTTCATG
Found at i:33316669 original size:16 final size:15
Alignment explanation
Indices: 33316643--33316672 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33316633 ACTAGATTGG
33316643 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
33316658 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
33316673 TCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:33317108 original size:27 final size:27
Alignment explanation
Indices: 33317067--33317207 Score: 178
Period size: 27 Copynumber: 5.2 Consensus size: 27
33317057 GAGGAAGCGT
*
33317067 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
33317094 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33317121 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
33317148 TCTGGTGGCTCTGCCAC-GATATTCTGTA
1 TCTGGTGGCTCTGCCACAAATA-TCTG-A
* * * *
33317176 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
33317202 TCTGGT
1 TCTGGT
33317208 AGCCATGCTT
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.09
27 76 0.75
28 17 0.17
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:33317152 original size:54 final size:55
Alignment explanation
Indices: 33317067--33317207 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 55
33317057 GAGGAAGCGT
* * *
33317067 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAA-ATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATAT-TCTGTA
*
33317121 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATATTCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATATTCTGTA
* *
33317176 TCTGGTGACTCTGTCACAT-TATCTGTTCTGGT
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGT
33317208 AGCCATGCTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
54 59 0.75
55 20 0.25
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATATTCTGTA
Found at i:33320134 original size:14 final size:14
Alignment explanation
Indices: 33320115--33320146 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33320105 TAAAATGCTT
33320115 TTTAAATTTATTTA
1 TTTAAATTTATTTA
*
33320129 TTTAAATTTATTTC
1 TTTAAATTTATTTA
33320143 TTTA
1 TTTA
33320147 TATATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTAAATTTATTTA
Found at i:33323692 original size:43 final size:43
Alignment explanation
Indices: 33323645--33323966 Score: 253
Period size: 43 Copynumber: 7.5 Consensus size: 43
33323635 AAATATAATG
*
33323645 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTA
1 GCACACATAGTGCATCATCGAGAAAGTCGAAGTAATTATACTA
* * * * *
33323688 GCACACGA-AGTGCATCATCGA-ATAGACTGAATTAATTATATTG
1 GCACAC-ATAGTGCATCATCGAGAAAGTC-GAAGTAATTATACTA
* * * *
33323731 GCACACATAATGCATCATCG-GATAAATCGAAGCAATCATACTA
1 GCACACATAGTGCATCATCGAGA-AAGTCGAAGTAATTATACTA
*
33323774 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTA
1 GCACACATAGTGCATCATCGAGAAAGTCGAAGTAATTATACTA
** * * * * *
33323817 GCACATGGT-GTGCATCATCGA-ACAGACCGAAGTAGTTATATTG
1 GCACA-CATAGTGCATCATCGAGAAAG-TCGAAGTAATTATACTA
* * * * *
33323860 GCACACATAATGCATCATC-AGATAAATCAAAGCAATCATACTA
1 GCACACATAGTGCATCATCGAGA-AAGTCGAAGTAATTATACTA
* ** * * *
33323903 GCACATATAGTGCATCATC-AGATAAACCAAAGCAAATATACTA
1 GCACACATAGTGCATCATCGAGA-AAGTCGAAGTAATTATACTA
* *
33323946 GCACTCATAATGCATCATCGA
1 GCACACATAGTGCATCATCGA
33323967 CTAAACCAAA
Statistics
Matches: 219, Mismatches: 48, Indels: 23
0.76 0.17 0.08
Matches are distributed among these distances:
42 9 0.04
43 202 0.92
44 8 0.04
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (43 bp):
GCACACATAGTGCATCATCGAGAAAGTCGAAGTAATTATACTA
Found at i:33323856 original size:129 final size:129
Alignment explanation
Indices: 33323645--33323921 Score: 464
Period size: 129 Copynumber: 2.1 Consensus size: 129
33323635 AAATATAATG
33323645 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACACGAAGTGCATCATCGAA
1 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACACGAAGTGCATCATCGAA
* * * * *
33323710 TAGACTGAATTAATTATATTGGCACACATAATGCATCATCGGATAAATCGAAGCAATCATACTA
66 CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
* **
33323774 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACATGGTGTGCATCATCGAA
1 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACACGAAGTGCATCATCGAA
*
33323839 CAGACCGAAGTAGTTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
66 CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
*
33323903 GCACATATAGTGCATCATC
1 GCACACATAGTGCATCATC
33323922 AGATAAACCA
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 138 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (129 bp):
GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACACGAAGTGCATCATCGAA
CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
Found at i:33323943 original size:129 final size:129
Alignment explanation
Indices: 33323645--33323966 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 129
33323635 AAATATAATG
**** * *
33323645 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACACGAAGTGCATCATCGAA
1 GCACACATAGTGCATCATCGAGAAAACCAAAGCAAATATACTAGCACACGAAGTGCATCATCGAA
* * * * *
33323710 TAGACTGAATTAATTATATTGGCACACATAATGCATCATCGGATAAATCGAAGCAATCATACTA
66 CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
**** * * * **
33323774 GCACACATAGTGCATCATCGAGAAAGTTGAAGTAATTATACTAGCACATGGTGTGCATCATCGAA
1 GCACACATAGTGCATCATCGAGAAAACCAAAGCAAATATACTAGCACACGAAGTGCATCATCGAA
*
33323839 CAGACCGAAGTAGTTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
66 CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
* * *
33323903 GCACATATAGTGCATCATC-AGATAAACCAAAGCAAATATACTAGCACTC-ATAATGCATCATCG
1 GCACACATAGTGCATCATCGAGA-AAACCAAAGCAAATATACTAGCACACGA-AGTGCATCATCG
33323966 A
64 A
33323967 CTAAACCAAA
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
128 3 0.02
129 167 0.98
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (129 bp):
GCACACATAGTGCATCATCGAGAAAACCAAAGCAAATATACTAGCACACGAAGTGCATCATCGAA
CAGACCGAAGTAATTATATTGGCACACATAATGCATCATCAGATAAATCAAAGCAATCATACTA
Found at i:33328610 original size:12 final size:12
Alignment explanation
Indices: 33328593--33328618 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33328583 TAATTTATAC
33328593 TTTTTTATAATT
1 TTTTTTATAATT
33328605 TTTTTTATAATT
1 TTTTTTATAATT
33328617 TT
1 TT
33328619 ATAATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:33329203 original size:27 final size:27
Alignment explanation
Indices: 33329156--33329461 Score: 85
Period size: 27 Copynumber: 11.3 Consensus size: 27
33329146 ACGTATTTTA
*
33329156 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTATAAACCGAGGGTACTTTG
* *
33329183 GTAATTTTACT-AATCGAGGGTATTTTG
1 GTAATTTTA-TAAACCGAGGGTACTTTG
* ** *
33329210 GTAATTTTGTAAACTAAGGGTA-TTTCA
1 GTAATTTTATAAACCGAGGGTACTTT-G
* * * * *****
33329237 ATAATTTTGTAAATCGAGGATAAAACA
1 GTAATTTTATAAACCGAGGGTACTTTG
* * * ****
33329264 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAACCGAGGGTACTTTG
* * ***
33329291 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAACCGAGGGTACTTTG
* * ****
33329318 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAACCGAGGGTACTTTG
* * *** *
33329345 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTATAAACCGAGGGTACTTTG
* * ****
33329372 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAACCGAGGGTACTTTG
* * ****
33329399 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAACCGAGGGTACTTTG
* * *
33329426 ATAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAACCGAGGGTACTTTG
33329453 GTAATTTTA
1 GTAATTTTA
33329462 CAATTTGAGG
Statistics
Matches: 241, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.02
27 236 0.98
28 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (27 bp):
GTAATTTTATAAACCGAGGGTACTTTG
Found at i:33329284 original size:54 final size:54
Alignment explanation
Indices: 33329246--33329447 Score: 343
Period size: 54 Copynumber: 3.7 Consensus size: 54
33329236 AATAATTTTG
* *
33329246 TAAATCGAGGATAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
**
33329300 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
*
33329354 TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
33329408 TAAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTA
1 TAAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTA
33329448 CTTTGGTAAT
Statistics
Matches: 141, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
53 1 0.01
54 140 0.99
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
Found at i:33329472 original size:81 final size:81
Alignment explanation
Indices: 33329246--33329447 Score: 334
Period size: 81 Copynumber: 2.5 Consensus size: 81
33329236 AATAATTTTG
* * *
33329246 TAAATCGAGGATAAAAC-AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGG
1 TAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGG
*
33329310 GTAAAATGGTAATTCTA
65 GTAAAACGGTAATTCTA
* *
33329327 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
33329392 TAAAACGGTAATTCTA
66 TAAAACGGTAATTCTA
33329408 TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
1 TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
33329448 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
81 113 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
TAAAACGGTAATTCTA
Found at i:33330993 original size:38 final size:38
Alignment explanation
Indices: 33330942--33331021 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
33330932 CTAGAGATTG
33330942 TCAAACTTTGTGGATTTGTTTTCATATCTAAATACAAA
1 TCAAACTTTGTGGATTTGTTTTCATATCTAAATACAAA
33330980 TCAAACTTTGTGGATTTGTTTTCATATCTAAATACAAA
1 TCAAACTTTGTGGATTTGTTTTCATATCTAAATACAAA
33331018 TCAA
1 TCAA
33331022 GTGTTTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (38 bp):
TCAAACTTTGTGGATTTGTTTTCATATCTAAATACAAA
Found at i:33338524 original size:13 final size:13
Alignment explanation
Indices: 33338506--33338530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33338496 TAAAATAAAA
33338506 GAAATAAAGAAAT
1 GAAATAAAGAAAT
33338519 GAAATAAAGAAA
1 GAAATAAAGAAA
33338531 AAGGAAAAAG
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:33339766 original size:18 final size:18
Alignment explanation
Indices: 33339707--33339766 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
33339697 GACTGTCTGC
*
33339707 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTAT
* *
33339725 TACAGAATAAACGACTGA-
1 TACTGAATAAATGACT-AT
* *
33339743 TGCTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
33339761 TACTGA
1 TACTGA
33339767 TTAACCGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:33349227 original size:39 final size:40
Alignment explanation
Indices: 33349150--33349336 Score: 121
Period size: 40 Copynumber: 4.7 Consensus size: 40
33349140 TAGCTCCTCG
* * *
33349150 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
33349190 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
33349229 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * * *
33349269 CACAAAGGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
33349309 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
33349337 ATTAATAACT
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 27 0.20
40 105 0.80
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:33349245 original size:40 final size:40
Alignment explanation
Indices: 33349193--33349416 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 40
33349183 TAACTCATTC
* *
33349193 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
33349233 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
* * *
33349273 AAGGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
*
33349313 AAGGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGA-AACTCGCACA
* ** ** *
33349353 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGAAAC-TCGCACA
*
33349394 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33349417 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 8 0.05
40 141 0.88
41 11 0.07
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:33349255 original size:79 final size:80
Alignment explanation
Indices: 33349156--33349416 Score: 228
Period size: 80 Copynumber: 3.3 Consensus size: 80
33349146 CTCGTTCAAG
* * * ** * *
33349156 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
33349219 TTA-AAACTCGCACGAA
64 TTAGAAACTCGCACAAA
* *
33349235 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
* *
33349300 AGTATCTCGCACAAA
66 AGAAACTCGCACAAA
* * * ** **
33349315 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGG-AT
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGA-CTTAACCCGGAAT
** *
33349378 ATAGTCACTTAGCACAAA
65 -TAGAAAC-TCGCACAAA
*
33349396 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
33349417 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
79 36 0.24
80 109 0.71
81 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AGAAACTCGCACAAA
Found at i:33349347 original size:120 final size:120
Alignment explanation
Indices: 33349196--33349416 Score: 299
Period size: 120 Copynumber: 1.8 Consensus size: 120
33349186 CTCATTCAAT
* * *
33349196 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
33349259 TAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
64 TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
**
33349316 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
*
33349380 AGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 AGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33349417 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
119 7 0.08
120 71 0.80
121 10 0.11
122 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:33357120 original size:39 final size:40
Alignment explanation
Indices: 33357043--33357189 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
33357033 TAGCTCCTCG
* * *
33357043 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
33357083 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
33357122 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
33357162 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
33357190 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:33357200 original size:80 final size:80
Alignment explanation
Indices: 33357089--33357269 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
33357079 CTCATTCAAT
* * *
33357089 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
33357152 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
33357168 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
33357232 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
33357249 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
33357270 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:33357229 original size:40 final size:40
Alignment explanation
Indices: 33357086--33357269 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33357076 TAACTCATTC
* *
33357086 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
33357126 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
33357166 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
33357206 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
33357247 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33357270 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:33359922 original size:53 final size:53
Alignment explanation
Indices: 33359852--33359961 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
33359842 TTCTTTCGGC
33359852 CACTTTACTATCAAGCACACAGGAAAAATAAGCTTCACAACCTTTTCTCACAT
1 CACTTTACTATCAAGCACACAGGAAAAATAAGCTTCACAACCTTTTCTCACAT
33359905 CACTTTACTATCAAGCACACAGGAAAAATAAGCTTCACAACCTTTTCTCACAT
1 CACTTTACTATCAAGCACACAGGAAAAATAAGCTTCACAACCTTTTCTCACAT
33359958 -ACTT
1 CACTT
33359962 CTGAGCTAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 4 0.07
53 53 0.93
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.27
Consensus pattern (53 bp):
CACTTTACTATCAAGCACACAGGAAAAATAAGCTTCACAACCTTTTCTCACAT
Found at i:33392966 original size:39 final size:39
Alignment explanation
Indices: 33392909--33393071 Score: 218
Period size: 39 Copynumber: 4.2 Consensus size: 39
33392899 GGACTTTAGC
* * * ** *
33392909 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
* * *
33392948 CCGGTTATAATTCTAGCACATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
33392987 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
**
33393026 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
*
33393065 CTGGATA
1 CCGGATA
33393072 AACATCACTG
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
Found at i:33401064 original size:78 final size:76
Alignment explanation
Indices: 33400971--33401168 Score: 213
Period size: 78 Copynumber: 2.6 Consensus size: 76
33400961 AAATTTAAAC
* * * * * *
33400971 CCGGTATAATACCAGCTCGA-AGCCTGCAGGA-CTTTAG-CTCGGACATATTTCTAGCACGTAGC
1 CCGGTATAATTCCAGCAC-ATAGCCTGCA-GACCTTAAGTC-CGGACATAATTCCAGCACATAGC
*
33401033 ATGCGGACCGTAAGT
63 ATGCGGACCCT-AGT
* *
33401048 CCGGTTATAATTCCAGCACATAGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATTCCAGCACATAGCCTGCAGACCTTAAGTCCGGACATAATTCCAGCACATAGCAT
33401113 GCGGACCCTAGT
65 GCGGACCCTAGT
* * *
33401125 CCGGATATAATTCCAGCACATAACCTGCGGACCCTAAGTCCGGA
1 CCGG-TATAATTCCAGCACATAGCCTGCAGACCTTAAGTCCGGA
33401169 TAAACATCAC
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
77 50 0.48
78 53 0.51
79 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (76 bp):
CCGGTATAATTCCAGCACATAGCCTGCAGACCTTAAGTCCGGACATAATTCCAGCACATAGCATG
CGGACCCTAGT
Found at i:33401135 original size:38 final size:39
Alignment explanation
Indices: 33401023--33401170 Score: 226
Period size: 39 Copynumber: 3.8 Consensus size: 39
33401013 ACATATTTCT
* * * *
33401023 AGCACGTAGCATGCGGACCGTAAGTCCGGTTATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
* *
33401062 AGCACATAGCCTGCAGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
33401101 AGCACATAGCCTGCGGACCCT-AGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
*
33401139 AGCACATAACCTGCGGACCCTAAGTCCGGATA
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATA
33401171 AACATCACTA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 37 0.37
39 63 0.63
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
Found at i:33401144 original size:77 final size:78
Alignment explanation
Indices: 33401023--33401170 Score: 226
Period size: 77 Copynumber: 1.9 Consensus size: 78
33401013 ACATATTTCT
* * * * *
33401023 AGCACGTAGCATGCGGACCGTAAGTCCGGTTATAATTCCAGCACATAGCCTGCAGACCTTAAGTC
1 AGCACATAGCATGCGGACCCTAAGTCCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGTC
33401088 CGGATATAATTCC
66 CGGATATAATTCC
* *
33401101 AGCACATAGCCTGCGGACCCT-AGTCCGGATATAATTCCAGCACATAACCTGCGGACCCTAAGTC
1 AGCACATAGCATGCGGACCCTAAGTCCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGTC
33401165 CGGATA
66 CGGATA
33401171 AACATCACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 45 0.71
78 18 0.29
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (78 bp):
AGCACATAGCATGCGGACCCTAAGTCCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGTC
CGGATATAATTCC
Found at i:33405084 original size:13 final size:13
Alignment explanation
Indices: 33405066--33405092 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33405056 GGAGTAGTCA
33405066 CACACGGGCGTGT
1 CACACGGGCGTGT
33405079 CACACGGGCGTGT
1 CACACGGGCGTGT
33405092 C
1 C
33405093 CCTGCCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33407849 original size:40 final size:40
Alignment explanation
Indices: 33407768--33407984 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
33407758 CAACCCGGTA
* * * *
33407768 CCTTCGGGATTTAG-CCGAATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
*
33407807 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33407847 CCTTCGTGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33407887 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33407927 CCTTCGGG-CTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33407966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33407985 TTATCGTCCG
Statistics
Matches: 158, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 48 0.30
40 109 0.69
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33412892 original size:46 final size:46
Alignment explanation
Indices: 33412842--33413017 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
33412832 TGGTTGAGCA
33412842 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
33412888 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
33412933 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
33412981 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33413018 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 8 0.07
45 1 0.01
46 64 0.57
47 27 0.24
48 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:33412998 original size:93 final size:93
Alignment explanation
Indices: 33412839--33413008 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
33412829 GGATGGTTGA
* * *
33412839 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33412904 TGAGTCCGAGTTTGAGAGATGTAACTAG
66 TGAGTCCGAGTTTGAGAGATGTAACTAG
* *
33412932 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33412997 TGAGTCCGAGTT
66 TGAGTCCGAGTT
33413009 CACTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGAGAGATGTAACTAG
Found at i:33416014 original size:29 final size:29
Alignment explanation
Indices: 33415928--33416011 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
33415918 CATAGTATCG
* * * *
33415928 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
33415958 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
33415987 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
33416012 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:33416015 original size:14 final size:15
Alignment explanation
Indices: 33415937--33416015 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
33415927 GTATCTTGGG
*
33415937 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
33415952 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
33415967 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
33415981 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
33415996 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
33416010 TTTCTT
1 TTTCTT
33416016 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:33424255 original size:45 final size:45
Alignment explanation
Indices: 33424012--33424265 Score: 210
Period size: 45 Copynumber: 5.6 Consensus size: 45
33424002 GAGAAATGAA
* * * *
33424012 TAAGACCATAGTTGAAAGACACTAT-G-A-CACTATATCAGAATTGAG
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAT-TCAG-A-CGAG
* * * *
33424057 TAAGGCCATAGTTGAAACACGTTATGGCATCACGATTCAGACGAG
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACGAG
* * * *
33424102 TAAGACCATAGCT-AACAGACACTATGGCCTTACGATTTAGACGAG
1 TAAGACCATAGCTGAA-AGACGCTATGGCATCACGATTCAGACGAG
* * * * *
33424147 TAAGACTATAGCTGAAAGATGCTATGGAATCACGATTCAAATGAG
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACGAG
* * * * * * *
33424192 TAAGACCATAGCTAAAAGATGTTATCGCATCACGGTTCAGATGTG
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACGAG
* *
33424237 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATAGCTGAAAGACGCTATGGCA
33424266 ACATGACAGG
Statistics
Matches: 167, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.01
45 151 0.90
46 4 0.02
47 5 0.03
48 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACGAG
Found at i:33424297 original size:46 final size:46
Alignment explanation
Indices: 33424237--33424347 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
33424227 TTCAGATGTG
*
33424237 TAAGACCATAGTTGAAAGACACTATGGCAACATGACAGG-AAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATAAC-GGAAAATGAA
* *
33424283 TAAGACCATGGTTGAAAGACACTATGGCAATATAACGGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATAACGGAAAATGAA
33424329 TAAGACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGA
33424348 TATGTCATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.03
46 58 0.97
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACATAACGGAAAATGAA
Found at i:33424477 original size:26 final size:26
Alignment explanation
Indices: 33424447--33424511 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
33424437 ATGACGAATA
33424447 GTTATATG-AATTAATTATACA-AAATG
1 GTTATATGAAATT-ATTATA-AGAAATG
* *
33424473 GTTATGTGAAATTATTATAAGAATTG
1 GTTATATGAAATTATTATAAGAAATG
33424499 GTTATATGGAAAT
1 GTTATAT-GAAAT
33424512 AGATGTACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 1 0.03
26 23 0.70
27 9 0.27
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (26 bp):
GTTATATGAAATTATTATAAGAAATG
Found at i:33424570 original size:27 final size:28
Alignment explanation
Indices: 33424540--33424600 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
33424530 TATGAATTAG
33424540 TTATATGGAAACAGATAAACA-AAATAA
1 TTATATGGAAACAGATAAACAGAAATAA
* * * *
33424567 TTATAT-GAATCGGATATATAGAAATAA
1 TTATATGGAAACAGATAAACAGAAATAA
33424594 TTATATG
1 TTATATG
33424601 AAGTGTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (28 bp):
TTATATGGAAACAGATAAACAGAAATAA
Found at i:33426138 original size:20 final size:21
Alignment explanation
Indices: 33426097--33426155 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
33426087 CTCTCGTTCC
** * *
33426097 CTTTTTTTATTTTTTTCTTTA
1 CTTTTTTTATCATCTTCCTTA
33426118 CTTTTTTTATC-TCTTCCTTA
1 CTTTTTTTATCATCTTCCTTA
*
33426138 CTTTTTTTTTCATCTTCC
1 CTTTTTTTATCATCTTCC
33426156 CCTTTCTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTTTTTATCATCTTCCTTA
Found at i:33427112 original size:20 final size:21
Alignment explanation
Indices: 33427069--33427129 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
33427059 TATCCATTAA
*
33427069 TAAAAATATAATTATATTATT
1 TAAAAATAAAATTATATTATT
33427090 TAAAAATAAAATT-TA-TATCT
1 TAAAAATAAAATTATATTAT-T
* *
33427110 TAAAATTAAAA-TATTTTATT
1 TAAAAATAAAATTATATTATT
33427130 ATTTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 4 0.12
20 15 0.44
21 15 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAAATAAAATTATATTATT
Found at i:33432284 original size:20 final size:20
Alignment explanation
Indices: 33432259--33432299 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33432249 GAATATGATA
33432259 AAGGAAAAGACCGTTGCTGG
1 AAGGAAAAGACCGTTGCTGG
33432279 AAGGAAAAGACCGTTGCTGG
1 AAGGAAAAGACCGTTGCTGG
33432299 A
1 A
33432300 TTATGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.34, T:0.15
Consensus pattern (20 bp):
AAGGAAAAGACCGTTGCTGG
Found at i:33433880 original size:18 final size:18
Alignment explanation
Indices: 33433857--33433892 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33433847 GAGTTCGATG
33433857 TATGTTGTCAAATGCTAA
1 TATGTTGTCAAATGCTAA
33433875 TATGTTGTCAAATGCTAA
1 TATGTTGTCAAATGCTAA
33433893 CTTACCGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
TATGTTGTCAAATGCTAA
Found at i:33440958 original size:17 final size:18
Alignment explanation
Indices: 33440936--33440969 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33440926 AATAAATCAC
33440936 TAAAAAT-TTATAAAAAA
1 TAAAAATATTATAAAAAA
*
33440953 TAAAAATATTTTAAAAA
1 TAAAAATATTATAAAAA
33440970 TTAGTTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATATTATAAAAAA
Found at i:33446169 original size:46 final size:43
Alignment explanation
Indices: 33446046--33446174 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 43
33446036 GAGGGGGTGT
* * * * *
33446046 TAGGATTATTATCGGATATTAGCTTTTAACAATTTGATTTCTAA
1 TAGGA-TATTATAGGATATTATCTTTTAGCAATTTGATTCCAAA
*
33446090 TAGGATATTATAGGATATTATCTCTTAGCAATTTGATTCCAAA
1 TAGGATATTATAGGATATTATCTTTTAGCAATTTGATTCCAAA
*
33446133 TAGGATATTATTAAGGATTATTATCTTTTAGTAATTTGATTC
1 TAGGATATTA-T-AGGA-TATTATCTTTTAGCAATTTGATTC
33446175 TTACATAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 42 0.57
44 6 0.08
45 4 0.05
46 22 0.30
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (43 bp):
TAGGATATTATAGGATATTATCTTTTAGCAATTTGATTCCAAA
Found at i:33447506 original size:41 final size:41
Alignment explanation
Indices: 33447461--33447551 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
33447451 GTATATTATG
* *
33447461 TCAGGCCTTGAGCCTGGCAGGCTTTGTA-CCAATGTATTGAA
1 TCAGGCCTTAAGCCTGGCAAGCTTTG-AGCCAATGTATTGAA
* * *
33447502 TCAGGCGTTAAGCCTGGCAAGCTTTGAGTCAGTGTATTGAA
1 TCAGGCCTTAAGCCTGGCAAGCTTTGAGCCAATGTATTGAA
*
33447543 TCAAGCCTT
1 TCAGGCCTT
33447552 CATCGTAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.02
41 41 0.98
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
TCAGGCCTTAAGCCTGGCAAGCTTTGAGCCAATGTATTGAA
Found at i:33451546 original size:38 final size:38
Alignment explanation
Indices: 33451503--33451578 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
33451493 GGTAAATGTA
*
33451503 CCAAAGTATGTGTTATGGGTTGGTTTGAATAATGTATG
1 CCAAAGTATGTGTTATGGGTCGGTTTGAATAATGTATG
*
33451541 CCAAAGTATGTGTTATGGGTCGGTTTGAATAATTTATG
1 CCAAAGTATGTGTTATGGGTCGGTTTGAATAATGTATG
33451579 TATTAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (38 bp):
CCAAAGTATGTGTTATGGGTCGGTTTGAATAATGTATG
Found at i:33451939 original size:20 final size:20
Alignment explanation
Indices: 33451914--33451951 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33451904 CTAGGAACTA
*
33451914 TGTGATCTGAGCTCATGAGT
1 TGTGATATGAGCTCATGAGT
*
33451934 TGTGATATGAGTTCATGA
1 TGTGATATGAGCTCATGA
33451952 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
TGTGATATGAGCTCATGAGT
Found at i:33459186 original size:12 final size:12
Alignment explanation
Indices: 33459169--33459193 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33459159 TTTTGATCAA
33459169 AGATAATCACTT
1 AGATAATCACTT
33459181 AGATAATCACTT
1 AGATAATCACTT
33459193 A
1 A
33459194 TTGGAATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
AGATAATCACTT
Found at i:33467266 original size:36 final size:36
Alignment explanation
Indices: 33467214--33467284 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
33467204 AGTAAACTTT
* * *
33467214 ATTCAGTTCAGTAGCCTTTTGGATCTATTCTAACTG
1 ATTCAGTTCAGCAGCCTTTCGAATCTATTCTAACTG
33467250 ATTCAGTTCAGCAGCCTTTCGAATCTATTCTAACT
1 ATTCAGTTCAGCAGCCTTTCGAATCTATTCTAACT
33467285 AATGCGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCCTTTCGAATCTATTCTAACTG
Found at i:33469750 original size:20 final size:20
Alignment explanation
Indices: 33469725--33469768 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
33469715 CAATGCACAA
33469725 GCCCGTGTGCTTAGGGACAC
1 GCCCGTGTGCTTAGGGACAC
33469745 GCCCGTGTGCTTAGGGACAC
1 GCCCGTGTGCTTAGGGACAC
33469765 GCCC
1 GCCC
33469769 ATGTCCCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (20 bp):
GCCCGTGTGCTTAGGGACAC
Found at i:33473938 original size:56 final size:56
Alignment explanation
Indices: 33473871--33473978 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
33473861 TCGTTCCTCG
33473871 GTACACATACTCTATCTCTGAACATCAAACATCCATCAAAACCAATCTGAAACTCA
1 GTACACATACTCTATCTCTGAACATCAAACATCCATCAAAACCAATCTGAAACTCA
33473927 GTACACATACTCTATCTCTGAACATCAAACATCCATCAAAACCAATCTGAAA
1 GTACACATACTCTATCTCTGAACATCAAACATCCATCAAAACCAATCTGAAA
33473979 ATCTGATTCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.23
Consensus pattern (56 bp):
GTACACATACTCTATCTCTGAACATCAAACATCCATCAAAACCAATCTGAAACTCA
Found at i:33475223 original size:18 final size:18
Alignment explanation
Indices: 33475200--33475236 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33475190 TTCAGAAGAG
33475200 ATACAGCATACATTACAC
1 ATACAGCATACATTACAC
33475218 ATACAGCATACATTACAC
1 ATACAGCATACATTACAC
33475236 A
1 A
33475237 CTTCTTAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.22
Consensus pattern (18 bp):
ATACAGCATACATTACAC
Found at i:33481350 original size:16 final size:16
Alignment explanation
Indices: 33481309--33481351 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
33481299 TTAGATTGGC
*
33481309 AAATCTCGAAATACCG
1 AAATATCGAAATACCG
** *
33481325 AAATGCCGAAATGCCG
1 AAATATCGAAATACCG
33481341 AAATATCGAAA
1 AAATATCGAAA
33481352 AGCCAAAAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (16 bp):
AAATATCGAAATACCG
Found at i:33481625 original size:29 final size:29
Alignment explanation
Indices: 33481593--33481724 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
33481583 TTCAGGCCGG
*
33481593 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
* *
33481622 ATGGGCCATACGAATGTGATTTAGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
33481651 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
**
33481680 ATGGGCCATATGAATAAGA-TTGGGCCTA
1 ATGGGCCATATGAATGTGATTTGGGCCTA
* *
33481708 GTGGGCCATATGCATGT
1 ATGGGCCATATGAATGT
33481725 ATGTAGACTT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 22 0.24
29 70 0.76
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGTGATTTGGGCCTA
Found at i:33481655 original size:58 final size:57
Alignment explanation
Indices: 33481576--33481719 Score: 191
Period size: 58 Copynumber: 2.5 Consensus size: 57
33481566 ACATTGCTTG
* **
33481576 GAATTGATTCAGGCCGGATGGGCCATATGAACGTGATTTGGGCCTAATGGGCCATAC
1 GAATTGATTTAGGCCTAATGGGCCATATGAACGTGATTTGGGCCTAATGGGCCATAC
* *
33481633 GAATGTGATTTAGGCCTAATGGGCCATATGAATGTGATTTGGGCCTAATGGGCCATAT
1 GAAT-TGATTTAGGCCTAATGGGCCATATGAACGTGATTTGGGCCTAATGGGCCATAC
* * *
33481691 GAATAAGA-TTGGGCCTAGTGGGCCATATG
1 GAAT-TGATTTAGGCCTAATGGGCCATATG
33481720 CATGTATGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 23 0.30
58 54 0.70
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (57 bp):
GAATTGATTTAGGCCTAATGGGCCATATGAACGTGATTTGGGCCTAATGGGCCATAC
Found at i:33485262 original size:11 final size:11
Alignment explanation
Indices: 33485246--33485271 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33485236 ATTGCATGTA
33485246 TGATATTATTG
1 TGATATTATTG
33485257 TGATATTATTG
1 TGATATTATTG
33485268 TGAT
1 TGAT
33485272 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:33492762 original size:17 final size:19
Alignment explanation
Indices: 33492736--33492781 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33492726 ATATTATGCG
33492736 AAAAACTAAA-T-AAAACA
1 AAAAACTAAATTAAAAACA
*
33492753 AAAAATTAAATTAAAAACA
1 AAAAACTAAATTAAAAACA
*
33492772 AATAACTAAA
1 AAAAACTAAA
33492782 CATATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 1 0.04
19 14 0.58
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAACTAAATTAAAAACA
Found at i:33496522 original size:2 final size:2
Alignment explanation
Indices: 33496515--33496544 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33496505 TTTGAATCAT
33496515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33496545 AACATTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33499798 original size:21 final size:23
Alignment explanation
Indices: 33499774--33499820 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 23
33499764 TATTTTTAAA
33499774 AAAAAATTTA-AATTTTT-T--T
1 AAAAAATTTATAATTTTTATGAT
*
33499793 ATAAAATTTATAATTTTTATGAT
1 AAAAAATTTATAATTTTTATGAT
33499816 AAAAA
1 AAAAA
33499821 TATCTCGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.41
20 7 0.32
21 1 0.05
23 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAAAAATTTATAATTTTTATGAT
Found at i:33502399 original size:17 final size:17
Alignment explanation
Indices: 33502377--33502437 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
33502367 ATTGAATCAA
33502377 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
33502394 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
33502414 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
33502431 TACATAA
1 TACATAA
33502438 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:33502410 original size:37 final size:36
Alignment explanation
Indices: 33502368--33502459 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 36
33502358 ATTAACCGAA
33502368 TTGAATCAATACATAATTAAAAACATTACATAAGTC
1 TTGAATCAATACATAATTAAAAACATTACATAAGTC
*
33502404 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 -TTGAATCAATACATAATTAAAAACATTACATAAGTC
* *
33502441 TTGAAATTAACACATAATT
1 TTG-AATCAATACATAATT
33502460 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 3 0.06
37 47 0.94
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (36 bp):
TTGAATCAATACATAATTAAAAACATTACATAAGTC
Found at i:33505142 original size:27 final size:27
Alignment explanation
Indices: 33505118--33505172 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
33505108 AGTTAATAGG
33505118 ATAATTTACCCTTTGCCAACAAATAAA
1 ATAATTTACCCTTTGCCAACAAATAAA
33505145 ATAATTTACCCTTTGCCAACAAATAAA
1 ATAATTTACCCTTTGCCAACAAATAAA
33505172 A
1 A
33505173 ATAAGCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (27 bp):
ATAATTTACCCTTTGCCAACAAATAAA
Found at i:33508088 original size:34 final size:34
Alignment explanation
Indices: 33508045--33508109 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
33508035 AGAAACAAAC
33508045 TATATACATAAATAGATTTAAAAGAAAATATATA
1 TATATACATAAATAGATTTAAAAGAAAATATATA
33508079 TATATACATAAATAGATTTAAAAGAAAATAT
1 TATATACATAAATAGATTTAAAAGAAAATAT
33508110 TTACATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (34 bp):
TATATACATAAATAGATTTAAAAGAAAATATATA
Found at i:33508128 original size:28 final size:30
Alignment explanation
Indices: 33508078--33508157 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 30
33508068 GAAAATATAT
* *
33508078 ATATATACAT-AAATAGATTTAAAA-GAA-A
1 ATATATACATAAAATA-ATATAAAATCAATA
*
33508106 ATATTTACATAAAATAATATAAAATCAATA
1 ATATATACATAAAATAATATAAAATCAATA
*
33508136 ATATATACAAAAAAATAATATA
1 ATATATAC-ATAAAATAATATA
33508158 CAACATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 16 0.37
29 7 0.16
30 8 0.19
31 12 0.28
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (30 bp):
ATATATACATAAAATAATATAAAATCAATA
Found at i:33508167 original size:15 final size:15
Alignment explanation
Indices: 33508118--33508169 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
33508108 ATTTACATAA
*
33508118 AATAATATAAAATCAAT
1 AATAATATACAA-C-AT
* *
33508135 AAT-ATATACAAAAA
1 AATAATATACAACAT
33508149 AATAATATACAACAT
1 AATAATATACAACAT
33508164 AATAAT
1 AATAAT
33508170 GTGTAAAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.52
16 7 0.24
17 3 0.10
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATATACAACAT
Found at i:33510920 original size:33 final size:33
Alignment explanation
Indices: 33510883--33510970 Score: 140
Period size: 33 Copynumber: 2.7 Consensus size: 33
33510873 ACTACCACAA
*
33510883 CAATATTCCACTCCTCCTAGCCCATTACCACCG
1 CAATACTCCACTCCTCCTAGCCCATTACCACCG
* *
33510916 CAATACTCTACTCCTCCTAGCCCATTACCACTG
1 CAATACTCCACTCCTCCTAGCCCATTACCACCG
*
33510949 CAATACTCCACTCCTCCCAGCC
1 CAATACTCCACTCCTCCTAGCC
33510971 TAAGTTCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.24, C:0.47, G:0.06, T:0.24
Consensus pattern (33 bp):
CAATACTCCACTCCTCCTAGCCCATTACCACCG
Found at i:33514464 original size:30 final size:30
Alignment explanation
Indices: 33514430--33514523 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 30
33514420 ATTTATCTTT
33514430 TTTCTTTCTTTTCTTTTCTTTTTCTTCTCA
1 TTTCTTTCTTTTCTTTTCTTTTTCTTCTCA
* *
33514460 TTTCTTTC-TTTCTTTCTTTTTTTCCTCTCA
1 TTTCTTTCTTTTCTTT-TCTTTTTCTTCTCA
*
33514490 TTCTCTTCTTCTTTACTGCTTTCTTTCTTCTTCT
1 TT-TC-T-TTCTTTTCT--TTTCTTT-TTCTTCT
33514524 TTTTTTACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
29 7 0.14
30 22 0.43
31 2 0.04
32 1 0.02
33 3 0.06
34 4 0.08
35 4 0.08
36 8 0.16
ACGTcount: A:0.03, C:0.27, G:0.01, T:0.69
Consensus pattern (30 bp):
TTTCTTTCTTTTCTTTTCTTTTTCTTCTCA
Found at i:33514543 original size:26 final size:26
Alignment explanation
Indices: 33514485--33514546 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
33514475 CTTTTTTTCC
*
33514485 TCTCATTC-TCTTCTTCTTTACTGCT
1 TCTCATTCTTCTTCTTCTTTACTACT
* *
33514510 T-TCTTTCTTCTTCTTTTTTTACTACT
1 TCTCATTCTTCTTC-TTCTTTACTACT
33514536 TCTC-TTCTTCT
1 TCTCATTCTTCT
33514547 CTACAAGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 5 0.16
25 6 0.19
26 18 0.58
27 2 0.06
ACGTcount: A:0.06, C:0.29, G:0.02, T:0.63
Consensus pattern (26 bp):
TCTCATTCTTCTTCTTCTTTACTACT
Found at i:33515732 original size:41 final size:40
Alignment explanation
Indices: 33515601--33515741 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
33515591 AACACACCAG
* * * * *
33515601 TTTGACATCCAGTGCCTCATGGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGAATAATCCGAAGTAATAA
* * * *
33515641 TTTGATACCCAGTGTCTTATCTG-CTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATC-GAATAATCCGAAGTAATAA
*
33515679 -TTGGCACCCAGTGTCTCATCGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGAA-TAATCCGAAGTAATAA
33515719 TTTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAGTGTCTCATCGA
33515742 CTCGACGTTG
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
36 1 0.01
37 17 0.21
38 12 0.15
39 2 0.02
40 27 0.33
41 22 0.27
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGAATAATCCGAAGTAATAA
Found at i:33524145 original size:26 final size:25
Alignment explanation
Indices: 33524098--33524147 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
33524088 TTAGTGTTAA
*
33524098 TTAATTTTAATTTATTTAATTAAGT
1 TTAATTTTAATTTATGTAATTAAGT
33524123 TTAATTGTTAATTT-TGTATATTAAG
1 TTAATT-TTAATTTATGTA-ATTAAG
33524148 GAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTAATTTTAATTTATGTAATTAAGT
Found at i:33532218 original size:41 final size:41
Alignment explanation
Indices: 33532157--33532255 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
33532147 TTTAGATATA
*
33532157 TCCTTTTCAA-CTTTTCATGTGTTATCCCTTTCAGGTAATT
1 TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
* * *
33532197 TCCTTTTCAACCTTTTCATGTGTTATTCTTTTCGGGTAACT
1 TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
33532238 TCCTTTTCAACCTTTTCA
1 TCCTTTTCAACCTTTTCA
33532256 AGAATTTGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 10 0.19
41 44 0.81
ACGTcount: A:0.16, C:0.24, G:0.09, T:0.51
Consensus pattern (41 bp):
TCCTTTTCAACCTTTTCATGTGTTATCCCTTTCAGGTAACT
Done.