Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 162 of 290
Found at i:55401353 original size:15 final size:15
Alignment explanation
Indices: 55401333--55401375 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
55401323 TGTTGTAAAT
*
55401333 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
55401348 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
55401363 TGGATTTCTTTAT
1 TGGATTTCTTTAT
55401376 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:55401413 original size:15 final size:15
Alignment explanation
Indices: 55401332--55401414 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 15
55401322 GTGTTGTAAA
55401332 TTGGATTTC-CTTATC
1 TTGGATTTCTC-TATC
* *
55401347 ATGGATTTCTTTATC
1 TTGGATTTCTCTATC
*
55401362 TTGGATTTCTTTAT-
1 TTGGATTTCTCTATC
** **
55401376 TCTGGGCTTCTCCGTC
1 T-TGGATTTCTCTATC
**
55401392 TCAGATTTCTCTATC
1 TTGGATTTCTCTATC
55401407 TTGGATTT
1 TTGGATTT
55401415 TTTGAATATT
Statistics
Matches: 49, Mismatches: 16, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (15 bp):
TTGGATTTCTCTATC
Found at i:55402001 original size:14 final size:15
Alignment explanation
Indices: 55401982--55402010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55401972 AAATTTCATA
55401982 TGGATT-TTCTTGTC
1 TGGATTATTCTTGTC
55401996 TGGATTATTCTTGTC
1 TGGATTATTCTTGTC
55402011 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.21, T:0.55
Consensus pattern (15 bp):
TGGATTATTCTTGTC
Found at i:55408184 original size:55 final size:55
Alignment explanation
Indices: 55408095--55408211 Score: 180
Period size: 55 Copynumber: 2.1 Consensus size: 55
55408085 GTGAGCCAAC
* * * *
55408095 GGGCGTGTGTCTTGGTCGTGCCTTAAAGTCAGTGTTTCCCATGAATTAAAGGCAT
1 GGGCGTGTGTCTTGGCCGTGCCTAAAAGTCAGTGTTGCCCACGAATTAAAGGCAT
*
55408150 GGGCGTGTGTCTTGGCCGTGCCTAAAAGTTAGTGTTGCCCACGAATTAAAGGCAT
1 GGGCGTGTGTCTTGGCCGTGCCTAAAAGTCAGTGTTGCCCACGAATTAAAGGCAT
*
55408205 GGACGTG
1 GGGCGTG
55408212 CCCTAGGCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (55 bp):
GGGCGTGTGTCTTGGCCGTGCCTAAAAGTCAGTGTTGCCCACGAATTAAAGGCAT
Found at i:55409871 original size:14 final size:15
Alignment explanation
Indices: 55409854--55409882 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55409844 GCACGAAAAT
55409854 TTCACACAT-ATAAA
1 TTCACACATAATAAA
55409868 TTCACACATAATAAA
1 TTCACACATAATAAA
55409883 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:55410352 original size:18 final size:18
Alignment explanation
Indices: 55410329--55410379 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
55410319 ATAAATAAAA
* *
55410329 TTTAGGGTTTTAAGTGTT
1 TTTAGGGTTTTAAGAGAT
55410347 TTTA-GGTTTTAAGAGAT
1 TTTAGGGTTTTAAGAGAT
*
55410364 TTTAGAGTTTT-AGAGA
1 TTTAGGGTTTTAAGAGA
55410380 GGATTAGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (18 bp):
TTTAGGGTTTTAAGAGAT
Found at i:55410630 original size:8 final size:8
Alignment explanation
Indices: 55410617--55410641 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55410607 CACACTCTAA
55410617 AATTTTGG
1 AATTTTGG
55410625 AATTTTGG
1 AATTTTGG
55410633 AATTTTGG
1 AATTTTGG
55410641 A
1 A
55410642 CTAACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (8 bp):
AATTTTGG
Found at i:55420739 original size:41 final size:42
Alignment explanation
Indices: 55420677--55420796 Score: 172
Period size: 41 Copynumber: 2.9 Consensus size: 42
55420667 TCAGTGATAT
55420677 TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATAATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATAATA
*
55420719 TCGGGCTTTA-TGCCTAGCAGGCTTTGTGCCGGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATAATA
** * * *
55420760 TCAAGC-TTATTGCCTAACAGGCTCTATGCCGGTGTAT
1 TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTAT
55420797 TATACTAGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
40 3 0.04
41 58 0.82
42 10 0.14
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (42 bp):
TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATAATA
Found at i:55420815 original size:41 final size:41
Alignment explanation
Indices: 55420681--55420817 Score: 163
Period size: 41 Copynumber: 3.3 Consensus size: 41
55420671 TGATATTCGG
* **
55420681 GCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATAATATCGG
1 GCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA-CTA
*
55420723 GCTTTA-TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
1 GCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA-CTA
* * *
55420764 GC-TTATTGCCTAACAGGCTCTATGCCGGTGTATTATACTA
1 GCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATACTA
55420804 GACTTTA-TGCCTAG
1 G-CTTTATTGCCTAG
55420818 AAAATTTTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
40 6 0.07
41 69 0.82
42 9 0.11
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
GCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATACTA
Found at i:55423647 original size:46 final size:46
Alignment explanation
Indices: 55423597--55423772 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55423587 TGTTTGGGCA
*
55423597 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55423643 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55423688 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55423736 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55423773 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55423752 original size:93 final size:93
Alignment explanation
Indices: 55423593--55423764 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55423583 AGGATGTTTG
* * *
55423593 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55423658 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55423686 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55423751 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55423765 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55432631 original size:78 final size:79
Alignment explanation
Indices: 55432542--55432707 Score: 307
Period size: 78 Copynumber: 2.1 Consensus size: 79
55432532 TCCTTGTGCC
*
55432542 AATAATCCGTTTATTTATGTCTTCTTTACCTTTAATACATGTAATATTTTTCAAAATTCACTATT
1 AATAATCCGTTTATTCATGTCTTCTTTACCTTTAATACATGTAATATTTTTCAAAATTCACTATT
55432607 CATCCATAATTT-T
66 CATCCATAATTTAT
55432620 AATAATCCGTTTATTCATGTCTTCTTTACCTTTAATACATGTAATATTTTTCAAAATTCACTATT
1 AATAATCCGTTTATTCATGTCTTCTTTACCTTTAATACATGTAATATTTTTCAAAATTCACTATT
55432685 CATCCATAATTTACT
66 CATCCATAATTTA-T
55432700 AATAATCC
1 AATAATCC
55432708 TTACCATGTA
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
78 76 0.89
80 9 0.11
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (79 bp):
AATAATCCGTTTATTCATGTCTTCTTTACCTTTAATACATGTAATATTTTTCAAAATTCACTATT
CATCCATAATTTAT
Found at i:55433854 original size:45 final size:46
Alignment explanation
Indices: 55433803--55433993 Score: 151
Period size: 46 Copynumber: 4.2 Consensus size: 46
55433793 TCCCATCCAC
* * * *
55433803 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
* * * *
55433848 GGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
* * * * *
55433894 GGACTTACACAT-TTCAT-ATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACTCATCTTC-TGA-CATGATGCCATAGTATCTTTCAACCAT
* * *
55433940 GGTCTTA-TACAT-TTCAT-ATCAGGCTGCCATGGTATCTTTCAACCAT
1 GGTCTTACT-CATCTTC-TGA-CATGATGCCATAGTATCTTTCAACCAT
55433986 GGTCTTAC
1 GGTCTTAC
55433994 ACATTTCATA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
45 15 0.12
46 111 0.88
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
GGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACCAT
Found at i:55433886 original size:46 final size:46
Alignment explanation
Indices: 55433826--55434007 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
55433816 TTTGACATGA
* * * * * *
55433826 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
55433872 TGCCATGGTATCTTTCAACCATGGACTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
55433918 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
55433964 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55434008 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:55437432 original size:23 final size:23
Alignment explanation
Indices: 55437405--55437450 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
55437395 ACCATGGTCT
55437405 TACACATTTCATATCAGGCTGCC
1 TACACATTTCATATCAGGCTGCC
*
55437428 TACACATTTCATATCAGGTTGCC
1 TACACATTTCATATCAGGCTGCC
55437451 ATGGTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (23 bp):
TACACATTTCATATCAGGCTGCC
Found at i:55438928 original size:27 final size:27
Alignment explanation
Indices: 55438898--55439075 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55438888 ATATTGAGTC
* * * *
55438898 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55438925 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55438952 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55438980 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55439007 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55439034 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55439061 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55439076 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:55439037 original size:82 final size:81
Alignment explanation
Indices: 55438919--55439074 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55438909 TGCTATATAA
* *
55438919 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55438984 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55439001 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55439065 CACTTAGTGC
65 CACTTAGTGC
55439075 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:55447823 original size:27 final size:26
Alignment explanation
Indices: 55447779--55447829 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
55447769 CTCGCTGCAA
*
55447779 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
55447806 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
55447830 AGCAGCCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:55454282 original size:28 final size:28
Alignment explanation
Indices: 55454239--55454292 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
55454229 TCTCCACTTG
55454239 CAAATGATAGTATCTCGACCTCAAATCA
1 CAAATGATAGTATCTCGACCTCAAATCA
*
55454267 CAAATGATAGTGTCTCGACCTCAAAT
1 CAAATGATAGTATCTCGACCTCAAAT
55454293 TAATCTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (28 bp):
CAAATGATAGTATCTCGACCTCAAATCA
Found at i:55457343 original size:49 final size:48
Alignment explanation
Indices: 55457290--55457418 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 48
55457280 GTAAGGTACC
* *
55457290 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATC-T-TCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCA-CATACCGA--CT
* * *
55457339 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCACATAACCTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAT-ACCGACT
*
55457388 GATTCCATGTCCCAGACATGGTCTTACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
55457419 AAACATTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
48 1 0.01
49 67 0.96
51 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATACCGACT
Found at i:55457518 original size:46 final size:46
Alignment explanation
Indices: 55457432--55457604 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
55457422 CATTTATTAA
* * * * * * *
55457432 CCGATGCATGTCCCAGACATATTTTATATTGGC-TTACGTCCCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCCCAAGG
* **
55457478 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAATA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAAGG
* * * * *** *
55457524 CCGATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCATAATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCCCAAGG
55457572 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
55457605 TCACACAAAT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
46 51 0.50
47 27 0.27
48 23 0.23
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAAGG
Found at i:55457543 original size:47 final size:46
Alignment explanation
Indices: 55457480--55457604 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
55457470 TCCCGAGGCT
*
55457480 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAATA-CC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCACAATAGCC
* * *
55457526 GATGCCATGTCCTAGACATAGTCTTACACT-G-GCTCTCATAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCACAATA--GCC
55457574 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
55457605 TCACACAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 6 0.09
46 17 0.25
47 28 0.42
48 16 0.24
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCTCACAATAGCC
Found at i:55465255 original size:26 final size:26
Alignment explanation
Indices: 55465220--55465269 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
55465210 AAGAATTCTA
*
55465220 AAAATATTAACATTCTAAATTTCTTT
1 AAAATATTAAAATTCTAAATTTCTTT
* *
55465246 AAAATCTTAAAATTTTAAATTTCT
1 AAAATATTAAAATTCTAAATTTCT
55465270 ATTCCAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAATATTAAAATTCTAAATTTCTTT
Found at i:55465919 original size:21 final size:19
Alignment explanation
Indices: 55465885--55465940 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
55465875 GCTAAATATT
**
55465885 ATAAAAATAATATATTGATTA
1 ATAAAAATGTTATATT-A-TA
55465906 ATAAAAATGTTATAATTATA
1 ATAAAAATGTTAT-ATTATA
*
55465926 A-AAATATGTTATATT
1 ATAAAAATGTTATATT
55465941 TTTTTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAAATGTTATATTATA
Found at i:55469193 original size:17 final size:17
Alignment explanation
Indices: 55469173--55469205 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55469163 AAAAAACTGT
55469173 GAAAGAACAAA-AGAAAA
1 GAAAGAA-AAAGAGAAAA
55469190 GAAAGAAAAAGAGAAA
1 GAAAGAAAAAGAGAAA
55469206 GACTGTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAGAAAA
Found at i:55469257 original size:19 final size:19
Alignment explanation
Indices: 55469211--55469262 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
55469201 AGAAAGACTG
55469211 TGAAAAA-AAAAAAGAGAA
1 TGAAAAAGAAAAAAGAGAA
* *
55469229 TGAGAGAAAGAAAAATGAGAT
1 TGA-A-AAAGAAAAAAGAGAA
55469250 TGAAAAAGAAAAA
1 TGAAAAAGAAAAA
55469263 GAACTTGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 10 0.34
20 4 0.14
21 12 0.41
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (19 bp):
TGAAAAAGAAAAAAGAGAA
Found at i:55469270 original size:18 final size:18
Alignment explanation
Indices: 55469211--55469291 Score: 67
Period size: 18 Copynumber: 4.3 Consensus size: 18
55469201 AGAAAGACTG
* *
55469211 TGAAAAAAAAAAAGAGAA
1 TGAAAAAGAAAAAGAGAT
55469229 TGAGAGAAAGAAAAATGAGAT
1 TGA-A-AAAGAAAAA-GAGAT
55469250 TGAAAAAGAAAAAGA-ACT
1 TGAAAAAGAAAAAGAGA-T
**
55469268 TGATCAAG-AAAAGAAGAT
1 TGAAAAAGAAAAAG-AGAT
55469286 TGAAAA
1 TGAAAA
55469292 GGAGAGTGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.12
18 18 0.35
19 11 0.22
20 9 0.18
21 7 0.14
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.12
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAGAT
Found at i:55469854 original size:19 final size:21
Alignment explanation
Indices: 55469813--55469858 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
55469803 TGTGATGGTG
55469813 GTGTAACATTGCTGCCTTGTT
1 GTGTAACATTGCTGCCTTGTT
55469834 GTGTAA-ATT-CTG-CTTGCTT
1 GTGTAACATTGCTGCCTTG-TT
55469853 GTGTAA
1 GTGTAA
55469859 GTTTGATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 3 0.12
21 6 0.25
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.43
Consensus pattern (21 bp):
GTGTAACATTGCTGCCTTGTT
Found at i:55477238 original size:44 final size:45
Alignment explanation
Indices: 55477057--55477270 Score: 230
Period size: 44 Copynumber: 4.9 Consensus size: 45
55477047 ATATCGTACA
* ** *
55477057 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC--ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
* *
55477100 ATGCC-ACTGTCTCAGATAG-GGTCTTACACG-AATCA-A-ATA-CG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGAAATCACATATATCG
* * * *
55477141 ATGCCAATGTTCCAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
*
55477186 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
* *
55477230 ATGTCAACGTCCCAGATGTGGTCTTACACGAAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATAT
55477271 CGGAATTCTA
Statistics
Matches: 143, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
41 24 0.17
42 14 0.10
43 23 0.16
44 44 0.31
45 38 0.27
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
Found at i:55477259 original size:89 final size:86
Alignment explanation
Indices: 55477057--55477270 Score: 231
Period size: 89 Copynumber: 2.5 Consensus size: 86
55477047 ATATCGTACA
* * *
55477057 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCTC--ATATCGATGCCACTGTCTCAGATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATATCGATGCCACTGTCCCAGATAG
* *
55477119 GGTCTTACACGAATCAAATACG
65 GGTCTTACACAAAACAAATACG
* * * *
55477141 ATGCCAATGTTCCAGACATGGTCTTACACGTAATCACATATATCGATGCCAAC-GTCCCAGA-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATATCGATGCC-ACTGTCCCAGATAG
55477204 TGGTCTTACACAAAACACATATATCG
65 -GGTCTTACACAAAACA-A-ATA-CG
* * *
55477230 ATGTCAACGTCCCAGATGTGGTCTTACACGAAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
55477271 CGGAATTCTA
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
83 1 0.01
84 30 0.28
85 1 0.01
86 32 0.30
87 3 0.03
88 3 0.03
89 37 0.35
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATATCGATGCCACTGTCCCAGATAGG
GTCTTACACAAAACAAATACG
Found at i:55483824 original size:5 final size:5
Alignment explanation
Indices: 55483814--55483857 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
55483804 TTGTGTGTTC
55483814 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
55483858 ACAAATTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:55492098 original size:19 final size:19
Alignment explanation
Indices: 55492067--55492113 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
55492057 GGGTTATTCT
55492067 AATT-TTAATCATTTAAAAA
1 AATTGTTAATCA-TTAAAAA
55492086 AATTGTTAA-CATTAAAAA
1 AATTGTTAATCATTAAAAA
55492104 AATTGATTAA
1 AATTG-TTAA
55492114 ATTATTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.46
19 10 0.38
20 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
AATTGTTAATCATTAAAAA
Found at i:55492102 original size:18 final size:18
Alignment explanation
Indices: 55492079--55492117 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55492069 TTTTAATCAT
55492079 TTAAAAAAATTG-TTAACA
1 TTAAAAAAATTGATTAA-A
55492097 TTAAAAAAATTGATTAAA
1 TTAAAAAAATTGATTAAA
55492115 TTA
1 TTA
55492118 TTCACTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
TTAAAAAAATTGATTAAA
Found at i:55495000 original size:2 final size:2
Alignment explanation
Indices: 55494988--55495135 Score: 289
Period size: 2 Copynumber: 74.5 Consensus size: 2
55494978 TGCTTCACTA
55494988 TC TC T- TC TC TC 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
55495029 TC TC TC TC TC TC 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
55495071 TC TC TC TC TC TC 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
55495113 TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
55495136 TTAACTTTAT
Statistics
Matches: 145, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
1 1 0.01
2 144 0.99
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:55498973 original size:17 final size:17
Alignment explanation
Indices: 55498951--55498984 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55498941 ATCCACTAAT
*
55498951 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
55498968 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
55498985 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:55500698 original size:11 final size:11
Alignment explanation
Indices: 55500679--55500708 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
55500669 CAATTCATTC
*
55500679 TTTTCTTTTCT
1 TTTTTTTTTCT
55500690 TTTTTTTTTCT
1 TTTTTTTTTCT
55500701 TTTTTTTT
1 TTTTTTTT
55500709 AAATTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:55500700 original size:16 final size:15
Alignment explanation
Indices: 55500679--55500708 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55500669 CAATTCATTC
55500679 TTTTCTTTTCTTTTTT
1 TTTTCTTTT-TTTTTT
55500695 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
55500709 AAATTTATTC
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:55509483 original size:25 final size:25
Alignment explanation
Indices: 55509451--55509504 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
55509441 ATATGGTCCC
*
55509451 TAATACGAGCCTTCGAGACCTAAAA
1 TAATACGAGCCCTCGAGACCTAAAA
*
55509476 TAATACGAGCCCTCGAGGCCTAAAA
1 TAATACGAGCCCTCGAGACCTAAAA
55509501 TAAT
1 TAAT
55509505 CATTAGAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (25 bp):
TAATACGAGCCCTCGAGACCTAAAA
Found at i:55511003 original size:28 final size:28
Alignment explanation
Indices: 55510963--55511019 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55510953 AATCTGGGCC
55510963 TAAGTCCTTTTTCAGTATCAGATCCAGT
1 TAAGTCCTTTTTCAGTATCAGATCCAGT
55510991 TAAGTCCTTTTTCAGTATCAGATCCAGT
1 TAAGTCCTTTTTCAGTATCAGATCCAGT
55511019 T
1 T
55511020 TCAGTTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (28 bp):
TAAGTCCTTTTTCAGTATCAGATCCAGT
Found at i:55515796 original size:94 final size:92
Alignment explanation
Indices: 55515680--55515850 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
55515670 TCTCGTAGCT
* * *
55515680 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATACATATCCCAGACA
1 GATGCATATCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATACATATCCCAGACA
55515743 TGTCTTACACTAGCACTCATCTCAATGCC
64 TGTCTTACACTAGCACTCATCTCAATGCC
* * * *
55515772 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACA
1 GATG-CATATCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATACATATCCCAGACA
55515837 TGTCTTACACTAGC
64 TGTCTTACACTAGC
55515851 TCACAATAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.06
93 12 0.18
94 50 0.74
95 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (92 bp):
GATGCATATCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCAATACATATCCCAGACATG
TCTTACACTAGCACTCATCTCAATGCC
Found at i:55515810 original size:48 final size:45
Alignment explanation
Indices: 55515647--55515847 Score: 167
Period size: 46 Copynumber: 4.4 Consensus size: 45
55515637 GCTATGTCCT
* * * *
55515647 AGACATGGTCTTACACTGACAC-C-TCTCGTAGCTGATGCATGTCCC
1 AGACAT-GTCTTACACTGGCACTCATCTCAT-GCCGATGCATATCCC
* * * *
55515692 AAACATGTCTTACACTGGC-TTACATCTCGAGGCCGATACATATCCC
1 AGACATGTCTTACACTGGCACT-CATCTC-ATGCCGATGCATATCCC
*
55515738 AGACATGTCTTACACTAGCACTCATCTCAATGCCGATGCCATATCCC
1 AGACATGTCTTACACTGGCACTCATCTC-ATGCCGATG-CATATCCC
* * * * *
55515785 AGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATGCATGTCCC
1 AGACAT-GTCTTACACTGGCACTCAT-CTCAT-GCCGATGCATATCCC
55515832 AGACATGTCTTACACT
1 AGACATGTCTTACACT
55515848 AGCTCACAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
44 12 0.09
45 6 0.05
46 56 0.44
47 29 0.23
48 23 0.18
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (45 bp):
AGACATGTCTTACACTGGCACTCATCTCATGCCGATGCATATCCC
Found at i:55518212 original size:125 final size:125
Alignment explanation
Indices: 55517985--55518226 Score: 394
Period size: 125 Copynumber: 1.9 Consensus size: 125
55517975 GTAGACACAT
* * *
55517985 GGGCATGTGTCTAGGCCGTGTGTGACACAAGGTCTGCCCCACGGGCGTGTTGAATGGATGTGTGT
1 GGGCATGTGTCTAGGCCATATGTGACACAAGGTCTGCCCCACGGGCGTGTTGAATGGACGTGTGT
* *
55518050 CCTCTGCACTCTAATTTTGCAAGTTAGTATGCTCAGTAGTAAACACACGGGCTAAGACAC
66 CCCCTGCACTCTAATTTTGCAAGTCAGTATGCTCAGTAGTAAACACACGGGCTAAGACAC
* * * * *
55518110 GGGCGTGTGTCTTGGCCATATGTGACACACGGTCTGCCCCACGTGCGTGTTGAATGGCCGTGTGT
1 GGGCATGTGTCTAGGCCATATGTGACACAAGGTCTGCCCCACGGGCGTGTTGAATGGACGTGTGT
55518175 CCCCTGCACTCTAATTTTGCAAGTCAGTATGCTCAGTAGTAAACACACGGGC
66 CCCCTGCACTCTAATTTTGCAAGTCAGTATGCTCAGTAGTAAACACACGGGC
55518227 GTGTGTCTTG
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 107 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (125 bp):
GGGCATGTGTCTAGGCCATATGTGACACAAGGTCTGCCCCACGGGCGTGTTGAATGGACGTGTGT
CCCCTGCACTCTAATTTTGCAAGTCAGTATGCTCAGTAGTAAACACACGGGCTAAGACAC
Found at i:55519431 original size:25 final size:25
Alignment explanation
Indices: 55519397--55519448 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
55519387 ATAAACAAAG
55519397 TAAGCTATTAAGCTTAGTAAGCTCA
1 TAAGCTATTAAGCTTAGTAAGCTCA
55519422 TAAGCTATTAAGCTTAGTAAGCTCA
1 TAAGCTATTAAGCTTAGTAAGCTCA
55519447 TA
1 TA
55519449 TGGCTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (25 bp):
TAAGCTATTAAGCTTAGTAAGCTCA
Found at i:55524001 original size:46 final size:46
Alignment explanation
Indices: 55523942--55524210 Score: 223
Period size: 46 Copynumber: 5.8 Consensus size: 46
55523932 TATTTGGGCA
*
55523942 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
55523988 TTCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
55524033 CATCAGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
55524081 TCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G
*
55524126 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
55524174 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55524211 GCGGGTGACA
Statistics
Matches: 178, Mismatches: 25, Indels: 40
0.73 0.10 0.16
Matches are distributed among these distances:
42 10 0.06
43 8 0.04
45 5 0.03
46 84 0.47
47 48 0.27
48 5 0.03
50 8 0.04
51 10 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55524054 original size:47 final size:47
Alignment explanation
Indices: 55523998--55524156 Score: 175
Period size: 47 Copynumber: 3.4 Consensus size: 47
55523988 TTCGAACTCG
* *
55523998 TTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCAGAGCTCA
1 TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCA
* * * *
55524045 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAACTCA
1 TTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTCA
* *
55524091 TTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCA
55524138 TTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTC
55524157 ACTTATGGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 26 0.29
47 44 0.49
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCA
Found at i:55524097 original size:93 final size:93
Alignment explanation
Indices: 55523952--55524203 Score: 416
Period size: 93 Copynumber: 2.7 Consensus size: 93
55523942 TCCGAACTTG
*
55523952 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAGTTGAGTTCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
55524017 GTGAGATGTAACTAGGCATCAGAGCTCA
66 GTGAGATGTAACTAGGCATCAGAGCTCA
* * *
55524045 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCGAGTTT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
* *
55524110 GTGAGATGTAACTAGGCATCCGAGCTCG
66 GTGAGATGTAACTAGGCATCAGAGCTCA
* *
55524138 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAG-TCTGAGTT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTC-GAGTT
55524202 CG
65 CG
55524204 CTTATGGGCG
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 1 0.01
93 146 0.99
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
GTGAGATGTAACTAGGCATCAGAGCTCA
Found at i:55526574 original size:40 final size:40
Alignment explanation
Indices: 55526529--55526720 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
55526519 TATAACCACA
* ** *
55526529 AGCACAAATGCCTTCAGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
55526569 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
55526609 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
55526649 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
55526689 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
55526721 TCATTCAAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:55526649 original size:80 final size:79
Alignment explanation
Indices: 55526501--55526721 Score: 309
Period size: 80 Copynumber: 2.8 Consensus size: 79
55526491 ACCCAAGTTT
* * * * * * *
55526501 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCAGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55526565 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
55526580 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
55526645 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
55526660 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55526722 CATTCAAATG
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 114 0.90
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:55530510 original size:30 final size:29
Alignment explanation
Indices: 55530476--55530533 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
55530466 CATAGTATCG
55530476 TATCTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATT-TGGGTTTCTC
*
55530506 TATCTTGGATTTCTTTATTTGGTTTTCT
1 TATCTTGGATTTCTTTATTTGGGTTTCT
55530534 TGTTATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.10, C:0.14, G:0.16, T:0.60
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTTGGGTTTCTC
Found at i:55530532 original size:14 final size:14
Alignment explanation
Indices: 55530480--55530534 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
55530470 GTATCGTATC
55530480 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
* *
55530494 TCTGGGTTTCTCTAT
1 T-TGGATTTCTTTAT
55530509 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
*
55530524 TTGGTTTTCTT
1 TTGGATTTCTT
55530535 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.32
15 22 0.65
16 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.16, T:0.62
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:55533053 original size:46 final size:46
Alignment explanation
Indices: 55532994--55533262 Score: 198
Period size: 46 Copynumber: 5.8 Consensus size: 46
55532984 TATTTGGGCA
55532994 TCCGAAC-CTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTC-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
55533040 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * * *
55533085 CATCAGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
55533133 TCCGAACTCATTGAGTTGATTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G
* *
55533178 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
55533226 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55533263 GTGGGTTACA
Statistics
Matches: 175, Mismatches: 27, Indels: 42
0.72 0.11 0.17
Matches are distributed among these distances:
42 10 0.06
43 8 0.05
45 5 0.03
46 81 0.46
47 48 0.27
48 5 0.03
50 8 0.05
51 10 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55533106 original size:47 final size:47
Alignment explanation
Indices: 55533040--55533208 Score: 159
Period size: 47 Copynumber: 3.6 Consensus size: 47
55533030 GATGCGAACG
* * *
55533040 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * * *
55533087 TCAGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---G--
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
* * *
55533133 TCCGAACTCATTGAGTTGATTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
55533180 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTC
55533209 AGTTATGGAT
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 24 0.26
47 49 0.53
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAGCTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:55533149 original size:93 final size:93
Alignment explanation
Indices: 55533004--55533255 Score: 400
Period size: 93 Copynumber: 2.7 Consensus size: 93
55532994 TCCGAACCTG
55533004 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
55533069 GTGAGATGTAACTAGGCATCAGAGCTCA
66 GTGAGATGTAACTAGGCATCAGAGCTCA
* *
55533097 TTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGA-TTCCGAGTT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTT-CGAGTT
* * *
55533161 TGTGAGATGTAACTAGGCATCCGAGCTCG
65 CGTGAGATGTAACTAGGCATCAGAGCTCA
* * *
55533190 TTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAG-TCTGAGTT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTC-GAGTT
55533254 CG
65 CG
55533256 CTTATGGGTG
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
92 3 0.02
93 142 0.98
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTTCGAGTTC
GTGAGATGTAACTAGGCATCAGAGCTCA
Found at i:55546594 original size:39 final size:39
Alignment explanation
Indices: 55546548--55546687 Score: 192
Period size: 39 Copynumber: 3.6 Consensus size: 39
55546538 ATAGTGATTT
* ** *
55546548 GAAGCCCGAAGTCTAGTTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
* * * *
55546587 GATGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
55546626 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAC-
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
55546664 GAAAGCCCGAAGGCTAACTGAAGC
1 G-AAGCCCGAAGGCTAACTGAAGC
55546688 TCATCAGAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 88 0.99
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
Found at i:55562965 original size:42 final size:42
Alignment explanation
Indices: 55562906--55562990 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
55562896 ACCTAATTGT
* *
55562906 AAAGTCGAGTTTGGTATTGAGCTTTATCCTAGTATTACACTG
1 AAAGTAGAGTTTGGTATTGAGCTTTATCCTAGTACTACACTG
*
55562948 AAAGTAGAGTTTGGTATTGAGCTTTATCCTAGTACTACGCTG
1 AAAGTAGAGTTTGGTATTGAGCTTTATCCTAGTACTACACTG
55562990 A
1 A
55562991 CATCTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAAGTAGAGTTTGGTATTGAGCTTTATCCTAGTACTACACTG
Found at i:55566727 original size:48 final size:49
Alignment explanation
Indices: 55566653--55566825 Score: 210
Period size: 48 Copynumber: 3.6 Consensus size: 49
55566643 TCTTATATTG
* * * *
55566653 ATGCCATGTCAC-AAACATGGTTTTACACGAAATCAT-ATATCGATGCCA
1 ATGCCATGTC-CTAGACATGGTCTTACATGAGATCATAATATCGATGCCA
* * *
55566701 ATGCCATATCCTAGATATGGTCTTACATGAGATC-TAATATCAATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGAGATCATAATATCGATGCCA
* * * *
55566749 ATGCCATGTCCCAGACATGGTCTTACATGGGAT-ATCATATCGATACCA
1 ATGCCATGTCCTAGACATGGTCTTACATGAGATCATAATATCGATGCCA
55566797 ATGCCATGTCCTAGACATGGTCTTACATG
1 ATGCCATGTCCTAGACATGGTCTTACATG
55566826 GGACCTCATA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
47 2 0.02
48 105 0.98
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACATGAGATCATAATATCGATGCCA
Found at i:55566835 original size:48 final size:48
Alignment explanation
Indices: 55566689--55566836 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
55566679 ACGAAATCAT
* * * *
55566689 ATATCGATGCCAATGCCATATCCTAGATATGGTCTTACATGAGATCTA
1 ATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTC
* * *
55566737 ATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATC
1 ATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTC
* *
55566785 ATATCGATACCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTC
1 ATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTC
55566833 ATAT
1 ATAT
55566837 AACCGTAATG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTC
Found at i:55567429 original size:21 final size:22
Alignment explanation
Indices: 55567399--55567439 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
55567389 TAGTAAAAGT
55567399 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
55567421 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
55567440 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:55569046 original size:15 final size:15
Alignment explanation
Indices: 55569026--55569056 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55569016 AATCGATGAA
55569026 AGTTTTGAATTTCAC
1 AGTTTTGAATTTCAC
55569041 AGTTTTGAATTTCAC
1 AGTTTTGAATTTCAC
55569056 A
1 A
55569057 ACTAATCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (15 bp):
AGTTTTGAATTTCAC
Found at i:55573417 original size:46 final size:46
Alignment explanation
Indices: 55573350--55573524 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
55573340 AACCCGCCCC
* *
55573350 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
* * * * *
55573396 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA
* * * **
55573442 TTTCA-CGAATTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
55573489 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
55573525 CTCAACCATC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 66 0.65
47 32 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:55578278 original size:43 final size:43
Alignment explanation
Indices: 55578115--55578279 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
55578105 TTCTGATGTG
* * *
55578115 TGATTTCGTGTAAGACCACATCTGGAACGTTGGCATCGAT-TT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
* * * * * *
55578157 GAGATTTACGTGTAAGACCATGTGTGGGACATCGACATCG-TATT
1 -TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
* * *
55578201 TGATTTCGTGTAAGAACC-TGTCTGGGATAG-TGGCATCGATATT
1 TGATTACGTGTAAG-ACCACGTCTGGGA-CGTTGGCATCGATATT
*
55578244 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
55578280 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 20, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
42 28 0.29
43 38 0.40
44 29 0.31
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT
Found at i:55581251 original size:40 final size:40
Alignment explanation
Indices: 55581214--55581397 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
55581204 GCTACTCGTT
*
55581214 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * **
55581254 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGTG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
55581294 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
55581333 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
55581374 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
55581398 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 73 0.62
41 14 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55581325 original size:79 final size:79
Alignment explanation
Indices: 55581181--55581361 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
55581171 AAATCACGTA
* * *
55581181 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTGCAAATGCCTTCGGGACATAGCCCGGATATAGT
*
55581246 AACTCGCACAATTG
66 AACTCGCACAAATG
* * *
55581260 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTGCAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTGCAAATGCCTTCGGGACATAGCCCGGATA-T
*
55581322 AGTATCTCGCACAAATG
63 AGTAACTCGCACAAATG
* *
55581339 CCTTCGGATCTTAGTCCGGATAT
1 CCTTCGGAACTTA-ACCGGATAT
55581362 GGTCACTTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.65
80 29 0.34
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTGCAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:55591100 original size:28 final size:28
Alignment explanation
Indices: 55591018--55591107 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 28
55591008 TAAGCATGAC
55591018 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
55591047 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
55591076 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
55591104 TATA
1 TATA
55591108 TAGGTATGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:55594597 original size:42 final size:42
Alignment explanation
Indices: 55594518--55594610 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
55594508 ATGGACATCA
*
55594518 GCATCGTATTTGATTTCATGTAAGACCCTGTCAGGGATAG-TG
1 GCATCGTATTTGATTTAATGTAAGACCCTGTCAGGGAT-GTTG
*
55594560 GCATCGATATTTGA-TTAATGTAAGACCAC-GTCTGGGATGTTG
1 GCATCG-TATTTGATTTAATGTAAGACC-CTGTCAGGGATGTTG
*
55594602 GCATTGTAT
1 GCATCGTAT
55594611 GAGTTTTCCG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
41 4 0.09
42 33 0.73
43 8 0.18
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
GCATCGTATTTGATTTAATGTAAGACCCTGTCAGGGATGTTG
Found at i:55595566 original size:33 final size:34
Alignment explanation
Indices: 55595519--55595590 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
55595509 ACAGTGCATG
* *
55595519 CAGTACCAGTCTGGGCCTGAGCCCTACT-CAGTAT
1 CAGTACCAATCTGGGCCTGAGCCCTA-TACAGTAA
*
55595553 CAGTA-CAATCTGGGCCTTAGCCCTATACAGTAA
1 CAGTACCAATCTGGGCCTGAGCCCTATACAGTAA
55595586 CAGTA
1 CAGTA
55595591 TGGGCCTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 28 0.82
34 5 0.15
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (34 bp):
CAGTACCAATCTGGGCCTGAGCCCTATACAGTAA
Found at i:55595595 original size:28 final size:28
Alignment explanation
Indices: 55595563--55595618 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
55595553 CAGTACAATC
* *
55595563 TGGGCCTTAGCCCTATACAGTAACAGTA
1 TGGGCCTAAGCCCAATACAGTAACAGTA
* *
55595591 TGGGCCTAAGCCCAATTCAGTATCAGTA
1 TGGGCCTAAGCCCAATACAGTAACAGTA
55595619 CAGTGCAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (28 bp):
TGGGCCTAAGCCCAATACAGTAACAGTA
Found at i:55595622 original size:33 final size:31
Alignment explanation
Indices: 55595519--55595622 Score: 90
Period size: 33 Copynumber: 3.3 Consensus size: 31
55595509 ACAGTGCATG
*
55595519 CAGTACCAGTCTGGGCCTGAGCCCTACTCAGTAT
1 CAGTA-CAGTCTGGGCCTAAGCCC-A-TCAGTAT
* *
55595553 CAGTACAATCTGGGCCTTAGCCC-T-A-TA-
1 CAGTACAGTCTGGGCCTAAGCCCATCAGTAT
*
55595580 CAGTAACAGTATGGGCCTAAGCCCAATTCAGTAT
1 CAGT-ACAGTCTGGGCCTAAGCCC-A-TCAGTAT
55595614 CAGTACAGT
1 CAGTACAGT
55595623 GCAGTCATGC
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
27 4 0.07
28 18 0.31
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 23 0.40
34 9 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (31 bp):
CAGTACAGTCTGGGCCTAAGCCCATCAGTAT
Found at i:55603359 original size:24 final size:25
Alignment explanation
Indices: 55603292--55603359 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
55603282 GTTGATGAAG
55603292 AGTAAGCTC-TATCGAGCTG-GAAAT
1 AGTAAGCTCTTA-CGAGCTGAGAAAT
* *
55603316 AGTAAGCTCTGACAAGCTGAG-AAT
1 AGTAAGCTCTTACGAGCTGAGAAAT
55603340 AGTAAGCTCTTACGAGCTGA
1 AGTAAGCTCTTACGAGCTGA
55603360 TATATTGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 36 0.95
25 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (25 bp):
AGTAAGCTCTTACGAGCTGAGAAAT
Found at i:55604124 original size:14 final size:14
Alignment explanation
Indices: 55604101--55604130 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55604091 GAGCTAGCTA
*
55604101 GAATAGGAAGCAAC
1 GAATACGAAGCAAC
55604115 GAATACGAAGCAAC
1 GAATACGAAGCAAC
55604129 GA
1 GA
55604131 TCACAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.27, T:0.07
Consensus pattern (14 bp):
GAATACGAAGCAAC
Found at i:55617996 original size:40 final size:40
Alignment explanation
Indices: 55617948--55618037 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
55617938 CGACGATAAA
* * *
55617948 TCGACTATATTTTCCACTAAGTGTGCG-TTTCAAAATAGCT
1 TCGACTATATATACCACTAAGTGTGCGAATT-AAAATAGCT
* * * *
55617988 TCGGCTATAAATAGCACTAAGTGTGCGAATTAGAATAGCT
1 TCGACTATATATACCACTAAGTGTGCGAATTAAAATAGCT
55618028 TCGACTATAT
1 TCGACTATAT
55618038 GAGGCACTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (40 bp):
TCGACTATATATACCACTAAGTGTGCGAATTAAAATAGCT
Found at i:55626708 original size:126 final size:127
Alignment explanation
Indices: 55626482--55626736 Score: 503
Period size: 126 Copynumber: 2.0 Consensus size: 127
55626472 TACCAAAAGG
55626482 GGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
1 GGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
55626547 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAA
66 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAA
55626609 GGGGGCTTTGATAGTGT-GGCGACTTTGACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
1 GGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
55626673 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAA
66 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAA
55626735 GG
1 GG
55626737 AATTCCAGCA
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 111 0.87
127 17 0.13
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (127 bp):
GGGGGCTTTGATAGTGTGGGCGACTTTGACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAA
Found at i:55627062 original size:42 final size:42
Alignment explanation
Indices: 55627016--55627098 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
55627006 CCAAATCACG
55627016 TACCTTAGGAATTTAACCGGATATAGCTCCTCGTTCAAATGA
1 TACCTTAGGAATTTAACCGGATATAGCTCCTCGTTCAAATGA
*
55627058 TACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATG
1 TACCTTAGGAATTTAACCGGATATAGCTCCTCGTTCAAATG
55627099 CCTTCGGGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
TACCTTAGGAATTTAACCGGATATAGCTCCTCGTTCAAATGA
Found at i:55627178 original size:79 final size:80
Alignment explanation
Indices: 55627093--55627277 Score: 261
Period size: 79 Copynumber: 2.3 Consensus size: 80
55627083 GCTCCTCGTT
* *
55627093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTA-ATCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTATATCGCACAAATGCCTTCGGG-CTTAACCCG
*
55627156 GATTTAGTAACTCG-CA
64 GAATTAGTAACTCGCCA
* *
55627172 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGGCTTAACCCGGA
*
55627237 ATTAGTATCTCGCTCA
66 ATTAGTAACTCGC-CA
55627253 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55627278 CATCATTCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
79 49 0.51
80 41 0.43
81 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGGCTTAACCCGGA
ATTAGTAACTCGCCA
Found at i:55627182 original size:40 final size:40
Alignment explanation
Indices: 55627093--55627277 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
55627083 GCTCCTCGTT
* *
55627093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
55627132 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
55627172 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
55627212 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCG--CA
55627253 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55627278 CATCATTCAA
Statistics
Matches: 136, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
39 52 0.38
40 67 0.49
41 17 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:55629074 original size:38 final size:38
Alignment explanation
Indices: 55629032--55629107 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55629022 TTCATCCTTT
55629032 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
55629070 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
55629108 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:55630395 original size:40 final size:40
Alignment explanation
Indices: 55630294--55630474 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
55630284 TACTCGAATG
* *
55630294 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCT-AGCGACT
* *
55630335 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCTAGCGACT
* * *
55630375 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGCGACT
* * * * **
55630415 ATATCCGGGTTAAGA-CCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCTAGCGACT
*
55630454 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
55630475 ATGCTTGATT
Statistics
Matches: 119, Mismatches: 17, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 12 0.10
39 17 0.14
40 60 0.50
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGCGACT
Found at i:55632191 original size:303 final size:303
Alignment explanation
Indices: 55631639--55632244 Score: 1185
Period size: 303 Copynumber: 2.0 Consensus size: 303
55631629 ATGCATATAT
* *
55631639 GAGTCTAGTTTCAGGGAAAAATCATGAAGCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTT
1 GAGTCTAGTTTCAGGGAAAAATCACGAACCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTT
55631704 TAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGT
66 TAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGT
55631769 GATTTAAGTCTGCAAACCCCTCGTGTCTGACTCCGGCGACGGACTCGGGTACGGGGTGTTACAAT
131 GATTTAAGTCTGCAAACCCCTCGTGTCTGACTCCGGCGACGGACTCGGGTACGGGGTGTTACAAT
55631834 TTTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCT
196 TTTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCT
55631899 ATACATGCCATTTTGTGATTATTTGATAGTGTGGTGATTTCTG
261 ATACATGCCATTTTGTGATTATTTGATAGTGTGGTGATTTCTG
*
55631942 GAGTTTAGTTTCAGGGAAAAATCACGAACCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTT
1 GAGTCTAGTTTCAGGGAAAAATCACGAACCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTT
55632007 TAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGT
66 TAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGT
55632072 GATTTAAGTCTGCAAACCCCTCGTGTCTGACTCCGGCGACGGACTCGGGTACGGGGTGTTACAAT
131 GATTTAAGTCTGCAAACCCCTCGTGTCTGACTCCGGCGACGGACTCGGGTACGGGGTGTTACAAT
55632137 TTTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCT
196 TTTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCT
55632202 ATACATGCCATTTTGTGATTATTTGATAGTGTGGTGATTTCTG
261 ATACATGCCATTTTGTGATTATTTGATAGTGTGGTGATTTCTG
55632245 ACGATTGAAA
Statistics
Matches: 300, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 300 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (303 bp):
GAGTCTAGTTTCAGGGAAAAATCACGAACCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTT
TAAGGTGACAGTGACGCAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGT
GATTTAAGTCTGCAAACCCCTCGTGTCTGACTCCGGCGACGGACTCGGGTACGGGGTGTTACAAT
TTTATTGGTATCAGAGCTACGGTTTAGTCGATTCTAGGACTACCGTAATACGTTTGGGTCTAGCT
ATACATGCCATTTTGTGATTATTTGATAGTGTGGTGATTTCTG
Found at i:55633070 original size:22 final size:23
Alignment explanation
Indices: 55633045--55633087 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
55633035 AAAGCCGAGG
55633045 AGCTAAGTAT-GGAG-AAAGGAAA
1 AGCTAA-TATGGGAGCAAAGGAAA
*
55633067 AGCTGATATGGGAGCAAAGGA
1 AGCTAATATGGGAGCAAAGGA
55633088 GTTTCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.44, C:0.07, G:0.35, T:0.14
Consensus pattern (23 bp):
AGCTAATATGGGAGCAAAGGAAA
Found at i:55634686 original size:40 final size:40
Alignment explanation
Indices: 55634634--55634764 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
55634624 TTTGGGCTCA
* *
55634634 CTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
* * *
55634674 CTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
* * * *
55634714 TTAAGACCCGAAGGC-CTTGTGCGAGTGATTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
55634752 CTAA-ACCCCGAAG
1 CTAAGA-CCCGAAG
55634765 ATGCTTGACT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 12 0.16
39 16 0.21
40 48 0.62
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
Found at i:55636266 original size:48 final size:48
Alignment explanation
Indices: 55636214--55636565 Score: 437
Period size: 48 Copynumber: 7.3 Consensus size: 48
55636204 CCATGTTAAC
*
55636214 CCGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
* * ** * *
55636262 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAAT
55636310 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
* * ** * *
55636358 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAAT
55636406 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
* * ** * *
55636454 CCGCACACATAGTGCCATA-TAAATC-CGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATAT--TGACATTCAAAT
55636502 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
55636550 CCGCACACATAGTGCC
1 CCGCACACATAGTGCC
55636566 ATACAAATTA
Statistics
Matches: 255, Mismatches: 37, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
46 21 0.08
47 15 0.06
48 183 0.72
49 15 0.06
50 21 0.08
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
Found at i:55636271 original size:24 final size:24
Alignment explanation
Indices: 55636244--55636614 Score: 328
Period size: 24 Copynumber: 15.5 Consensus size: 24
55636234 TAATTCACAT
* *
55636244 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
55636268 ACATAGTGCCATAT-AAATCCGCAC
1 ACATAGTGCCAT-TCAAATCCGCAC
* *
55636292 ATATAGTGCCATACAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* * *
55636316 ACATAGTGCC-TT-AGTAATTCACAT
1 ACATAGTGCCATTCA--AATCCGCAC
* *
55636340 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
55636364 ACATAGTGCCATAT-AAATCCGCAC
1 ACATAGTGCCAT-TCAAATCCGCAC
* *
55636388 ATATAGTGCCATACAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* * *
55636412 ACATAGTGCC-TT-AGTAATTCACAT
1 ACATAGTGCCATTCA--AATCCGCAC
* *
55636436 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
55636460 ACATAGTGCCATAT-AAATCCGCAC
1 ACATAGTGCCAT-TCAAATCCGCAC
* *
55636484 ATATAGTGCCATACAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* * *
55636508 ACATAGTGCC-TT-AGTAATTCACAT
1 ACATAGTGCCATTCA--AATCCGCAC
* *
55636532 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGCCATTCAAATCCGCAC
* ** *
55636556 ACATAGTGCCATACAAATTAGTAC
1 ACATAGTGCCATTCAAATCCGCAC
* **
55636580 ACATAGTGCCATTCAGATTAGCAC
1 ACATAGTGCCATTCAAATCCGCAC
55636604 ACATAGTGCCA
1 ACATAGTGCCA
55636615 AAGTCATTTC
Statistics
Matches: 278, Mismatches: 51, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.01
23 3 0.01
24 260 0.94
25 9 0.03
26 3 0.01
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCATTCAAATCCGCAC
Found at i:55636331 original size:96 final size:96
Alignment explanation
Indices: 55636214--55636613 Score: 710
Period size: 96 Copynumber: 4.2 Consensus size: 96
55636204 CCATGTTAAC
*
55636214 CCGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
55636279 TATAAATCCGCACATATAGTGCCATACAAAT
66 TATAAATCCGCACATATAGTGCCATACAAAT
55636310 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
55636375 TATAAATCCGCACATATAGTGCCATACAAAT
66 TATAAATCCGCACATATAGTGCCATACAAAT
55636406 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
55636471 TATAAATCCGCACATATAGTGCCATACAAAT
66 TATAAATCCGCACATATAGTGCCATACAAAT
55636502 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
* ** * * * *
55636567 TACAAATTAGTACACATAGTGCCATTCAGAT
66 TATAAATCCGCACATATAGTGCCATACAAAT
**
55636598 TAGCACACATAGTGCC
1 CCGCACACATAGTGCC
55636614 AAAGTCATTT
Statistics
Matches: 294, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 294 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (96 bp):
CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
TATAAATCCGCACATATAGTGCCATACAAAT
Found at i:55636584 original size:48 final size:48
Alignment explanation
Indices: 55636214--55636614 Score: 369
Period size: 48 Copynumber: 8.4 Consensus size: 48
55636204 CCATGTTAAC
* * * * *
55636214 CCGCACACATAGTACCTTAGTAATTCA-CATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATT-AGCACACATAGTGACATTCAAAT
* ** * * *
55636262 CCGCACACATAGTGCCATATAAATCCGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGAAATTAGCACACATAGTGACATTCAAAT
* * * *
55636310 CCGCACACATAGTGCCTTAGTAATTCA-CATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATT-AGCACACATAGTGACATTCAAAT
* ** * * *
55636358 CCGCACACATAGTGCCATATAAATCCGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGAAATTAGCACACATAGTGACATTCAAAT
* * * *
55636406 CCGCACACATAGTGCCTTAGTAATTCA-CATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATT-AGCACACATAGTGACATTCAAAT
* ** * * *
55636454 CCGCACACATAGTGCCATATAAATCCGCACATATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATAGAAATTAGCACACATAGTGACATTCAAAT
* * * *
55636502 CCGCACACATAGTGCCTTAGTAATTCA-CATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATAGAAATT-AGCACACATAGTGACATTCAAAT
* * * *
55636550 CCGCACACATAGTGCCATACAAATTAGTACACATAGTGCCATTCAGAT
1 CCGCACACATAGTGCCATAGAAATTAGCACACATAGTGACATTCAAAT
**
55636598 TAGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
55636615 AAGTCATTTC
Statistics
Matches: 275, Mismatches: 71, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
47 1 0.00
48 274 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCATAGAAATTAGCACACATAGTGACATTCAAAT
Found at i:55639445 original size:180 final size:180
Alignment explanation
Indices: 55639191--55639552 Score: 697
Period size: 180 Copynumber: 2.0 Consensus size: 180
55639181 GCCCTGTCTC
*
55639191 ACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCTATGAAAGT
1 ACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCTATGAAAAT
* *
55639256 AGATTCATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTG
66 AGATTCATCAAGGTTAGTTTACATAATTCATTCACTATTTAATTCCATTCCTACTATTTTTAGTG
55639321 ATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAG
131 ATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAG
55639371 ACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCTATGAAAAT
1 ACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCTATGAAAAT
55639436 AGATTCATCAAGGTTAGTTTACATAATTCATTCACTATTTAATTCCATTCCTACTATTTTTAGTG
66 AGATTCATCAAGGTTAGTTTACATAATTCATTCACTATTTAATTCCATTCCTACTATTTTTAGTG
55639501 ATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAG
131 ATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAG
55639551 AC
1 AC
55639553 TTTACCTATT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 179 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (180 bp):
ACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCTATGAAAAT
AGATTCATCAAGGTTAGTTTACATAATTCATTCACTATTTAATTCCATTCCTACTATTTTTAGTG
ATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAG
Found at i:55640359 original size:79 final size:81
Alignment explanation
Indices: 55640257--55640440 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
55640247 GCTCCTCGTT
* *
55640257 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
55640319 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
55640337 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
55640401 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
55640417 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55640441 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:55640374 original size:39 final size:41
Alignment explanation
Indices: 55640257--55640440 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
55640247 GCTCCTCGTT
* *
55640257 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
55640297 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
55640337 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
55640376 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
55640417 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55640441 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:55663890 original size:5 final size:5
Alignment explanation
Indices: 55663880--55663908 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
55663870 ATGTAAAATT
55663880 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
55663909 GGCTAAATTA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:55664999 original size:30 final size:30
Alignment explanation
Indices: 55664965--55665022 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
55664955 CACGGACTGG
*
55664965 CACATAGGAGTGTGTCCAACCCGTGTGATA
1 CACATAGGAGTGTGTCCAACCCATGTGATA
* * *
55664995 CACATGGGCGTGTGTCCTACCCATGTGA
1 CACATAGGAGTGTGTCCAACCCATGTGA
55665023 CTCCTGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (30 bp):
CACATAGGAGTGTGTCCAACCCATGTGATA
Found at i:55667774 original size:55 final size:56
Alignment explanation
Indices: 55667709--55667823 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
55667699 AGCATGGCTG
* * *
55667709 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTATGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCA
* * * *
55667765 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
55667820 CCAG
1 CCAG
55667824 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
Found at i:55667776 original size:28 final size:27
Alignment explanation
Indices: 55667734--55667823 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
55667724 GTGACAGAGT
*
55667734 CACCAGATACAGATATTTTATGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
** *
55667763 CACCAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
55667790 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
55667818 CACCAG
1 CACCAG
55667824 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:55667976 original size:28 final size:28
Alignment explanation
Indices: 55667930--55668244 Score: 603
Period size: 28 Copynumber: 11.2 Consensus size: 28
55667920 AATTAACCCT
* *
55667930 GGGGATATAAAGGTCATTTTGCATACATA
1 GGGG-TATAATGGTAATTTTGCATACATA
55667959 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55667987 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668015 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668043 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668071 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668099 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668127 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668155 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668183 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668211 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAATGGTAATTTTGCATACATA
55668239 GGGGTA
1 GGGGTA
55668245 CTCTAGTACA
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
28 280 0.99
29 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (28 bp):
GGGGTATAATGGTAATTTTGCATACATA
Found at i:55675936 original size:27 final size:27
Alignment explanation
Indices: 55675892--55675973 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
55675882 GTCACCAAAT
55675892 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
* *
55675920 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
55675947 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
55675974 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:55676126 original size:28 final size:28
Alignment explanation
Indices: 55676081--55676142 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
55676071 ATTAACCCTG
*
55676081 GGGGTATAAAGGTCATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCATACATA
*
55676109 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCATACATA
55676137 GGGGTA
1 GGGGTA
55676143 CTCTAGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCATACATA
Found at i:55678233 original size:43 final size:43
Alignment explanation
Indices: 55678169--55678274 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 43
55678159 CGTCTTAGAC
* *
55678169 GTGGTCTTA-ACATGTAATCAAATATTGATACCACTGTCCCAGACA-
1 GTGGTCTTACACAT-AAATCAAATA-TGATACCAATGTCCCA-A-AT
* *
55678214 G-GGTCTTACACA-AAATCAAATATGATGCCAATGTTCCAAAT
1 GTGGTCTTACACATAAATCAAATATGATACCAATGTCCCAAAT
55678255 GTGGTCTTACACATAAATCA
1 GTGGTCTTACACATAAATCA
55678275 TAAGTCAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 24 0.45
43 15 0.28
44 7 0.13
45 4 0.08
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (43 bp):
GTGGTCTTACACATAAATCAAATATGATACCAATGTCCCAAAT
Found at i:55684150 original size:22 final size:22
Alignment explanation
Indices: 55684122--55684165 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55684112 ATGTACATGC
55684122 CACAATTCTGAGCTTAATCAAG
1 CACAATTCTGAGCTTAATCAAG
55684144 CACAATTCTGAGCTTAATCAAG
1 CACAATTCTGAGCTTAATCAAG
55684166 AAAAAGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (22 bp):
CACAATTCTGAGCTTAATCAAG
Found at i:55687969 original size:266 final size:266
Alignment explanation
Indices: 55687495--55688025 Score: 1026
Period size: 266 Copynumber: 2.0 Consensus size: 266
55687485 GGTGGCGTGT
*
55687495 GGAGCATAAGGGAAGACCTGGGATCGATTCCCTGTGTTGGCAGATAAGAGTATTTATTTTTATGT
1 GGAGCATAAGGGAAGACCTGGGATCGATTCCCTGTGTTGGCAAATAAGAGTATTTATTTTTATGT
55687560 ACAGGAAGGGTAAGTGTTGGAACCTAAGTGGATTCTGTAAGAGGAGAGTTGGATCAAGTCAAACA
66 ACAGGAAGGGTAAGTGTTGGAACCTAAGTGGATTCTGTAAGAGGAGAGTTGGATCAAGTCAAACA
*
55687625 CATGGATTAAGGAGGGATAAGGGGAGAGATTTTAGGGATTTGAGAGAAGGATTGAGCTTAGCCGT
131 CATGGATTAAGGAGGGATAAGGGGAGAGATTTTAGGGATTTGAGAGAAGGATAGAGCTTAGCCGT
55687690 TTGGAAGGGGTTAGAGAGGGGAATTCGGCAGAAGGGTATTAGGTTAGTAATTTCGGCATTGGGGT
196 TTGGAAGGGGTTAGAGAGGGGAATTCGGCAGAAGGGTATTAGGTTAGTAATTTCGGCATTGGGGT
55687755 CTTAGC
261 CTTAGC
55687761 GGAGCATAAGGGAAGACCTGGGATCGATTCCCTGTGTTGGCAAATAAGAGTATTTATTTTTATGT
1 GGAGCATAAGGGAAGACCTGGGATCGATTCCCTGTGTTGGCAAATAAGAGTATTTATTTTTATGT
* *
55687826 GCAGGAAGGGTAAGTGTTGGAACCTAAGTGGATTCTGTAAGAGGAGAGTTGGATCAAGTCAAACG
66 ACAGGAAGGGTAAGTGTTGGAACCTAAGTGGATTCTGTAAGAGGAGAGTTGGATCAAGTCAAACA
55687891 CATGGATTAAGGAGGGATAAGGGGAGAGATTTTAGGGATTTGAGAGAAGGATAGAGCTTAGCCGT
131 CATGGATTAAGGAGGGATAAGGGGAGAGATTTTAGGGATTTGAGAGAAGGATAGAGCTTAGCCGT
55687956 TTGGAAGGGGTTAGAGAGGGGAATTCGGCAGAAGGGTATTAGGTTAGTAATTTCGGCATTGGGGT
196 TTGGAAGGGGTTAGAGAGGGGAATTCGGCAGAAGGGTATTAGGTTAGTAATTTCGGCATTGGGGT
55688021 CTTAG
261 CTTAG
55688026 TTGTGCCGAT
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 261 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.27
Consensus pattern (266 bp):
GGAGCATAAGGGAAGACCTGGGATCGATTCCCTGTGTTGGCAAATAAGAGTATTTATTTTTATGT
ACAGGAAGGGTAAGTGTTGGAACCTAAGTGGATTCTGTAAGAGGAGAGTTGGATCAAGTCAAACA
CATGGATTAAGGAGGGATAAGGGGAGAGATTTTAGGGATTTGAGAGAAGGATAGAGCTTAGCCGT
TTGGAAGGGGTTAGAGAGGGGAATTCGGCAGAAGGGTATTAGGTTAGTAATTTCGGCATTGGGGT
CTTAGC
Found at i:55692983 original size:55 final size:55
Alignment explanation
Indices: 55692869--55693003 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 55
55692859 GCCTTGGGTG
* * * * *
55692869 AACCTGCCAAAACAAAATC-GGAGTACGACACGCCCGTGCCTAGAAACTGTGGCTG
1 AACCTGCCAAAACAACA-CGGGCGTGCGACACGCCCGTGCCAAGAAACTGTGGCTA
* ** * * *
55692924 AACCTGTCAAATTAACATGGGCGTGCGACACGTCTGTGCCAAGAAACTGTGGGC-A
1 AACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACTGT-GGCTA
55692979 AACCTGCCAAAACAACACGGGCGTG
1 AACCTGCCAAAACAACACGGGCGTG
55693004 GAAGGAGCAA
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
55 60 0.95
56 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (55 bp):
AACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACTGTGGCTA
Found at i:55697683 original size:42 final size:42
Alignment explanation
Indices: 55697590--55697739 Score: 169
Period size: 42 Copynumber: 3.5 Consensus size: 42
55697580 GTTACAAATG
* * * *
55697590 TGGTCTTACATGTAATCAAATATCGATACCACTATCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAATATCCCAGACA
* *
55697633 GGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACA
1 TGGTCTTACACGAAATCAAATACGATGCCAATATCCCAGACA
* *
55697675 TGGTCTTACACGTAAATCTCAAAT-CGATGCCAACATCCCAGACG
1 TGGTCTTACACG-AAA--TCAAATACGATGCCAATATCCCAGACA
*
55697719 TGGTCTTAAACG-AATCAAATA
1 TGGTCTTACACGAAATCAAATA
55697740 TAAAAAATTC
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
40 6 0.07
42 30 0.33
43 22 0.24
44 28 0.30
45 6 0.07
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAATATCCCAGACA
Found at i:55703154 original size:33 final size:33
Alignment explanation
Indices: 55703107--55703171 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
55703097 AAATCTTAGG
* *
55703107 TAACTCATTCTCTCGGAACCACATATATCAACA
1 TAACTCATTCTCTCGAAACCACAGATATCAACA
* *
55703140 TAACTCATTTTCTCGAAACCATAGATATCAAC
1 TAACTCATTCTCTCGAAACCACAGATATCAAC
55703172 GTCTTCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (33 bp):
TAACTCATTCTCTCGAAACCACAGATATCAACA
Found at i:55704007 original size:41 final size:41
Alignment explanation
Indices: 55703962--55704043 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
55703952 CGTATAAAAG
55703962 TTTCCAGACACTTAGAAAAATTTCTTGTAATCACAGGTCAC
1 TTTCCAGACACTTAGAAAAATTTCTTGTAATCACAGGTCAC
*
55704003 TTTCCAGACACTTAGAAAAATTTCTTGTAATCATAGGTCAC
1 TTTCCAGACACTTAGAAAAATTTCTTGTAATCACAGGTCAC
55704044 ACACCTGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (41 bp):
TTTCCAGACACTTAGAAAAATTTCTTGTAATCACAGGTCAC
Found at i:55705362 original size:42 final size:44
Alignment explanation
Indices: 55705297--55705381 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 44
55705287 ACATGTAATC
55705297 AAATATCGATGCCACTGTCCCAGAAAGGGTCTTACACA-AAATA
1 AAATATCGATGCCACTGTCCCAGAAAGGGTCTTACACATAAATA
* *
55705340 AAATA-CGATGCCGA-TGTCCCAGACATGGTCTTACACATAAAT
1 AAATATCGATGCC-ACTGTCCCAGAAAGGGTCTTACACATAAAT
55705382 CTCAAATCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 28 0.74
43 10 0.26
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (44 bp):
AAATATCGATGCCACTGTCCCAGAAAGGGTCTTACACATAAATA
Found at i:55705728 original size:15 final size:17
Alignment explanation
Indices: 55705708--55705747 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
55705698 ATCTATATAA
*
55705708 ATTCAAATCTGAC-TT-
1 ATTCAAATCTCACATTC
55705723 ATTC-AATCTCACATTC
1 ATTCAAATCTCACATTC
55705739 ATTCAAATC
1 ATTCAAATC
55705748 AATCCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.33
15 6 0.29
16 4 0.19
17 4 0.19
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTCAAATCTCACATTC
Found at i:55707448 original size:22 final size:22
Alignment explanation
Indices: 55707422--55707466 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
55707412 ATTATGTGTA
55707422 TTAATTAATAATATAAT-TAATT
1 TTAATT-ATAATATAATCTAATT
*
55707444 TTAATTATAATCTAATCTAATT
1 TTAATTATAATATAATCTAATT
55707466 T
1 T
55707467 GGGTCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTATAATATAATCTAATT
Found at i:55707861 original size:20 final size:20
Alignment explanation
Indices: 55707823--55707862 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55707813 TTTTGGGTTA
*
55707823 TTATTCTATTTTATATTATT
1 TTATTCTATTTGATATTATT
* *
55707843 TTATTCTCTTTGATTTTATT
1 TTATTCTATTTGATATTATT
55707863 GTACTTTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
TTATTCTATTTGATATTATT
Found at i:55719480 original size:3 final size:3
Alignment explanation
Indices: 55719472--55719506 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
55719462 GGATTCCGAT
*
55719472 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
55719507 TCTCATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:55721699 original size:16 final size:16
Alignment explanation
Indices: 55721680--55721712 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55721670 TAATTCATAA
55721680 TATAAT-CAATTTTAAT
1 TATAATCCAA-TTTAAT
55721696 TATAATCCAATTTAAT
1 TATAATCCAATTTAAT
55721712 T
1 T
55721713 TGGGTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATCCAATTTAAT
Found at i:55732476 original size:52 final size:51
Alignment explanation
Indices: 55732358--55732535 Score: 204
Period size: 52 Copynumber: 3.5 Consensus size: 51
55732348 ATTAGTGCCT
*
55732358 CAAGTGTGTTACTATGTGAAGGCCAC-TTTG-AGAAGAGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAAGAGATAGCTTGGTCA
* *
55732407 CAAGTGTGGTACTATGTGAAGGTCACTTTATGAAGAA-AGATAGTTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTT-TGAAGAAGAGATAG-CTTGGTCA
* * * *
55732459 CAAGTGCGGTACTATGTGAAGGCCACTTTGTGAATAAG-G-TAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTT-TGAAGAAGAGATAGCTTGGTC-A
* *
55732510 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
55732536 CGGGAATCCG
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
49 24 0.22
50 6 0.05
51 35 0.32
52 45 0.41
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAAGAGATAGCTTGGTCA
Found at i:55732533 original size:51 final size:49
Alignment explanation
Indices: 55732358--55732535 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 49
55732348 ATTAGTGCCT
* * * *
55732358 CAAGTGTGTTACTATGTGAAGGCCACTTTGAGAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAGATAGCTTTGCT-A
* * * *
55732407 CAAGTGTGGTACTATGTGAAGGTCACTTTATGAAGAAAGATAGTTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-A-AAAGATAGCTTTGCT-A
* *
55732459 CAAGTGCGGTACTATGTGAAGGCCACTTTGTGAATAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-AAGATAGCTTTG-CTA
* *
55732510 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
55732536 CGGGAATCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 28 0.26
50 2 0.02
51 42 0.39
52 37 0.34
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (49 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAGATAGCTTTGCTA
Found at i:55738030 original size:15 final size:14
Alignment explanation
Indices: 55738010--55738055 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
55738000 AATAATAAAT
55738010 AAATAACAATAACTA
1 AAATAACAATAA-TA
55738025 AAATAACAAATTAATA
1 AAATAAC-AA-TAATA
*
55738041 AAATAATAATAATA
1 AAATAACAATAATA
55738055 A
1 A
55738056 CAAAATAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 10 0.36
17 3 0.11
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAACAATAATA
Found at i:55738054 original size:25 final size:26
Alignment explanation
Indices: 55738000--55738064 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
55737990 ACAAGTAAAG
*
55738000 AATAATAAATAAATAACAATAACTAA
1 AATAACAAATAAATAACAATAACTAA
*
55738026 AATAACAAATTAATAA-AATAA-TAA
1 AATAACAAATAAATAACAATAACTAA
55738050 TAATAACAAAATAAA
1 -AATAAC-AAATAAA
55738065 GTAAAATGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 11 0.32
26 20 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (26 bp):
AATAACAAATAAATAACAATAACTAA
Found at i:55763720 original size:37 final size:37
Alignment explanation
Indices: 55763664--55763742 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
55763654 CCGAGCTCTA
* * *
55763664 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* * *
55763701 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
55763738 AAGAC
1 AAGAC
55763743 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55767065 original size:25 final size:25
Alignment explanation
Indices: 55767029--55767076 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
55767019 ATCGTTCATC
55767029 TAATGACAAGATTCAAGAACAAACA
1 TAATGACAAGATTCAAGAACAAACA
*
55767054 TAATGATC-AGATTCAATAACAAA
1 TAATGA-CAAGATTCAAGAACAAA
55767077 ACACAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (25 bp):
TAATGACAAGATTCAAGAACAAACA
Found at i:55769444 original size:20 final size:19
Alignment explanation
Indices: 55769402--55769444 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
55769392 ATTAAACTTT
*
55769402 AAAATTGGACCTGAGATCC
1 AAAATTGGACCTGAGACCC
55769421 AAAATTGGACCTGAGAACCC
1 AAAATTGGACCTGAG-ACCC
55769441 AAAA
1 AAAA
55769445 CCGAGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (19 bp):
AAAATTGGACCTGAGACCC
Found at i:55775489 original size:25 final size:25
Alignment explanation
Indices: 55775452--55775513 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
55775442 ATGCTAATTT
55775452 GAGCTA-AAGATCGATATGCTCTCAC
1 GAGCTATAA-ATCGATATGCTCTCAC
* *
55775477 GAGTTATAAATCGGTATGCTCTCAC
1 GAGCTATAAATCGATATGCTCTCAC
55775502 GAGCTATAAATC
1 GAGCTATAAATC
55775514 AGTAACCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (25 bp):
GAGCTATAAATCGATATGCTCTCAC
Found at i:55780242 original size:3 final size:3
Alignment explanation
Indices: 55780234--55780279 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
55780224 TATAGTGGCT
55780234 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
55780280 TGTAACACCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:55782627 original size:27 final size:26
Alignment explanation
Indices: 55782582--55782695 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 26
55782572 CCCTGTTTAG
* * *
55782582 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACCAA
* *
55782609 AATACGCTTAGTTTGTAAAAATACTAA
1 AATAC-CTTAGTTTGTAAAATTACCAA
* * *
55782636 AATACCCTCGATTTGTAAAATTACTAA
1 AATACCTTAG-TTTGTAAAATTACCAA
* * *
55782663 AGTACCTTCGACTTGTAAAATTACCAA
1 AATACCTTAG-TTTGTAAAATTACCAA
*
55782690 AGTACC
1 AATACC
55782696 CCCGATTTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 3 0.04
27 63 0.86
28 7 0.10
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACCAA
Found at i:55782711 original size:27 final size:27
Alignment explanation
Indices: 55782681--55782742 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
55782671 CGACTTGTAA
55782681 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
55782708 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
55782735 AATTACCA
1 AATTACCA
55782743 TTTTACCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:55782743 original size:27 final size:27
Alignment explanation
Indices: 55782692--55782885 Score: 129
Period size: 27 Copynumber: 6.8 Consensus size: 27
55782682 ATTACCAAAG
55782692 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
55782719 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
55782746 TACCCCC-ATTTTACCTCAACTTACAGAATTACCGTTT
1 TACCCCCGA--TT---T--AC--AG--AATTACCATTT
* * *
55782783 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* ** * **
55782810 TATCCTTGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** *
55782837 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
55782864 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
55782886 TAGAATACCC
Statistics
Matches: 139, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.01
27 109 0.78
28 2 0.01
29 1 0.01
31 3 0.02
33 3 0.02
35 1 0.01
36 2 0.01
37 16 0.12
38 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:55782750 original size:54 final size:54
Alignment explanation
Indices: 55782692--55782885 Score: 163
Period size: 54 Copynumber: 3.4 Consensus size: 54
55782682 ATTACCAAAG
* * *
55782692 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * *
55782746 TACCCCCATTTTACCTCAACTTACAGAATTACCGTTTTACCCTCGATTTACAGAAGTACCGTTT
1 TACCCCC----GA--T----TTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* ** * * * *
55782810 TATCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* *
55782864 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
55782886 TAGAATACCC
Statistics
Matches: 110, Mismatches: 20, Indels: 20
0.73 0.13 0.13
Matches are distributed among these distances:
54 63 0.57
58 2 0.02
60 2 0.02
64 43 0.39
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Done.