Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 168 of 295
Found at i:57468933 original size:19 final size:20
Alignment explanation
Indices: 57468892--57468933 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
57468882 TGGGATTTTG
*
57468892 TTAAGGAGGAAGTGATTCTA
1 TTAAGGAGGAAGTGATACTA
57468912 TTAAGGAGGAAGT-ATACTA
1 TTAAGGAGGAAGTGATACTA
57468931 TTA
1 TTA
57468934 CTAATGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (20 bp):
TTAAGGAGGAAGTGATACTA
Found at i:57471930 original size:42 final size:44
Alignment explanation
Indices: 57471821--57471965 Score: 120
Period size: 42 Copynumber: 3.4 Consensus size: 44
57471811 GTTATCGTTC
* * * * * *
57471821 AAGACCAAGTCTA-GGACATTGGCATCAATTTGTGATTTACGTGT
1 AAGACCATGTC-AGGGACAGTGGCATCGATATATGATTTACGAGT
* *
57471865 AAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-CGAGT
1 AAGACCATGTCAGGGACAGTGGCATCGATATATGATTTACGAGT
* * *
57471907 AAGACCCTGTCAGGGATAGTGGCATCGATATTTGA-TTAC-ATGT
1 AAGACCATGTCAGGGACAGTGGCATCGATATATGATTTACGA-GT
* *
57471950 AAGGCCATGTCTGGGA
1 AAGACCATGTCAGGGA
57471966 TGTTGGCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
42 30 0.36
43 30 0.36
44 23 0.28
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
AAGACCATGTCAGGGACAGTGGCATCGATATATGATTTACGAGT
Found at i:57471966 original size:43 final size:43
Alignment explanation
Indices: 57471821--57471974 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
57471811 GTTATCGTTC
* * * * * *
57471821 AAGACCAAGTCTAGGACATTGGCATCAAT-TTGTGATTTACGTGT
1 AAGACCATGTCTGGGATAGTGGCATCGATATT-TGA-TTACATGT
* * * *
57471865 AAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCGA-GT
1 AAGACCATGTCTGGGATAGTGGCATCGATATTTGATTAC-ATGT
* *
57471907 AAGACCCTGTCAGGGATAGTGGCATCGATATTTGATTACATGT
1 AAGACCATGTCTGGGATAGTGGCATCGATATTTGATTACATGT
*
57471950 AAGGCCATGTCTGGGAT-GTTGGCAT
1 AAGACCATGTCTGGGATAG-TGGCAT
57471975 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 30 0.33
43 35 0.39
44 25 0.28
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGACCATGTCTGGGATAGTGGCATCGATATTTGATTACATGT
Found at i:57477739 original size:38 final size:38
Alignment explanation
Indices: 57477696--57477771 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57477686 TTCATCCTTT
*
57477696 TTCATTTCTTTTGGTCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57477734 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57477772 GGAGTTCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:57479054 original size:40 final size:40
Alignment explanation
Indices: 57478960--57479104 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57478950 TACTCGAATG
*
57478960 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57479001 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57479041 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57479081 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57479105 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57487114 original size:40 final size:40
Alignment explanation
Indices: 57487020--57487164 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57487010 TACTCGAATG
*
57487020 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57487061 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57487101 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57487141 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57487165 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57488811 original size:33 final size:34
Alignment explanation
Indices: 57488774--57488842 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
57488764 ACAGCTCCGG
**
57488774 CGGACTCTCAAGGGA-TGCTAGCAATCCGAATGA
1 CGGACTCTCAACCGATTGCTAGCAATCCGAATGA
*
57488807 CGGACTCTCAACCGATTGCTAGTAATCCGAATGA
1 CGGACTCTCAACCGATTGCTAGCAATCCGAATGA
57488841 CG
1 CG
57488843 AAGCTAGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (34 bp):
CGGACTCTCAACCGATTGCTAGCAATCCGAATGA
Found at i:57493886 original size:38 final size:38
Alignment explanation
Indices: 57493844--57493919 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
57493834 GTTCATCCTT
57493844 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57493882 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57493920 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:57495202 original size:40 final size:40
Alignment explanation
Indices: 57495108--57495252 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57495098 TACTCGAATG
*
57495108 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57495149 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57495189 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57495229 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57495253 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57502509 original size:44 final size:44
Alignment explanation
Indices: 57502344--57502561 Score: 224
Period size: 44 Copynumber: 4.8 Consensus size: 44
57502334 ACGATGTGTG
* * *
57502344 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCCGCCAC-ATTA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GA
* * * *
57502388 TGAGAGCCAGTGAAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGA
1 T--GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGA
* * * * *
57502436 TGAGAGCCAATGTAAGTCATGTCTAGGACATGCATCGGCTACGAGA
1 T--GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
57502482 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
*
57502526 TGTGCTAGTGTAAGACATGTCTGGGATAATGCATCG
1 TGTGCTAGTGTAAGACATGTCTGGGA-CATGCATCG
57502562 CCATGATACC
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
44 65 0.44
45 8 0.05
46 24 0.16
47 29 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:57508694 original size:46 final size:45
Alignment explanation
Indices: 57508644--57508897 Score: 168
Period size: 46 Copynumber: 5.5 Consensus size: 45
57508634 TGTGTGTGCT
*
57508644 AGTGTAAGATATGTCTGGGACATGCATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG--ACATTGATGAGAGCC
* * * *
57508690 AGTGTAAGGCCATGTCTGGGACATGGTATCGG-CATTGAGACGAGAGCT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGACATT--GATGAGAGCC
* * * *
57508738 AGTGTAAGACATGTTTGGGACATGCAAC--ACCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGA-CATTGATGA-G--AGCC
* *
57508784 AGTTTAAGACATGTCTGGGACATGCATCGGA-TTTGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACATTGATGA-G--AGCC
* * * *
57508830 AGTGTAAGACATGTCTGGGACATGCATCAG-C-TATGA-CATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGACAT-TGATGA-GAGCC
57508874 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
57508898 GCATTGCCAT
Statistics
Matches: 172, Mismatches: 22, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 29 0.17
45 5 0.03
46 87 0.51
47 28 0.16
48 21 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACATTGATGAGAGCC
Found at i:57508840 original size:92 final size:91
Alignment explanation
Indices: 57508686--57508897 Score: 243
Period size: 92 Copynumber: 2.3 Consensus size: 91
57508676 ACATTATGAG
* * *
57508686 AGCCAGTGTAAGGCCATGTCTGGGACATGGTATCGGCATTGAGACGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCATTGAGACGAGAGCCAGTGTAAGACATG
* *
57508751 TTTGGGACATGCAACACCCT-CGAGATGT
64 TCTGGGACATGCAACA-CCTACGACATGT
* *
57508779 AAGCCAGTTTAAGACATGTCTGGGACATGCATCGG-ATTTGAGATGTA-AGCCAGTGTAAGACAT
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TTGAGACG-AGAGCCAGTGTAAGACAT
* * *
57508842 GTCTGGGACATGCATCAGCTATGACATGT
63 GTCTGGGACATGCAACACCTACGACATGT
*
57508871 -GCTAGTGTAAGACATGTCTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
57508898 GCATTGCCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
90 25 0.24
91 3 0.03
92 49 0.48
93 16 0.16
94 10 0.10
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (91 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTC
TGGGACATGCAACACCTACGACATGT
Found at i:57516275 original size:6 final size:6
Alignment explanation
Indices: 57516198--57516390 Score: 112
Period size: 6 Copynumber: 31.3 Consensus size: 6
57516188 AAGAAAAATT
* * * *
57516198 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATTAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
57516245 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
57516296 ATCAGT ATCAGGTA A-CTGA ATCAGA ATCAGA A-CAAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCA-G-A
* *
57516347 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAAA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
57516391 GTGAATGCAA
Statistics
Matches: 145, Mismatches: 23, Indels: 38
0.70 0.11 0.18
Matches are distributed among these distances:
5 11 0.08
6 113 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:57516292 original size:25 final size:25
Alignment explanation
Indices: 57516264--57516327 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
57516254 TCAAAATCAA
*
57516264 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
57516289 AATCAGAATCAGTATCAGGTAACTG
1 AATCAGAATCAGAATCAGGTAACAG
57516314 AATCAGAATCAGAA
1 AATCAGAATCAGAA
57516328 CAAGAATCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:57516306 original size:37 final size:37
Alignment explanation
Indices: 57516219--57516306 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
57516209 AATCAAAATG
* * * *
57516219 AGAATTAGAATCAGAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
* *
57516256 AAAATCAAAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
*
57516293 AGAATCAGTATCAG
1 AGAATCAGAATCAG
57516307 GTAACTGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
Found at i:57516327 original size:37 final size:37
Alignment explanation
Indices: 57516286--57516368 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 37
57516276 AATTAGGTAA
* *
57516286 CAGAATCAGAATCAGTATCAGGTAACTGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
*
57516323 CAGAA-CAAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATC-AGAATCAGAATCAGGTAACAGAATCAGAAT
*
57516360 CAGTATCAG
1 CAGAATCAG
57516369 GTAACAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 1 0.03
37 38 0.95
38 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:57516351 original size:25 final size:25
Alignment explanation
Indices: 57516330--57516390 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
57516320 AATCAGAACA
*
57516330 AGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
* *
57516355 AGAATCAGTATCAGGTAACAAAATC
1 AGAATCAGAATCAGGTAACAGAATC
57516380 AGAATCAGAAT
1 AGAATCAGAAT
57516391 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:57516383 original size:31 final size:31
Alignment explanation
Indices: 57516286--57516390 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
57516276 AATTAGGTAA
**
57516286 CAGAATCAGAATCAGTATCAGGTAACTGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAAAAT
* * * ***
57516317 CAGAATCAGAA-CAAGAATCAGAATTAGGTAA-
1 CAGAATCAGAATC-AGTATCAG-GTAACAAAAT
57516348 CAGAATCAGAATCAGTATCAGGTAACAAAAT
1 CAGAATCAGAATCAGTATCAGGTAACAAAAT
57516379 CAGAATCAGAAT
1 CAGAATCAGAAT
57516391 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
30 5 0.09
31 48 0.83
32 5 0.09
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAAAAT
Found at i:57516387 original size:62 final size:62
Alignment explanation
Indices: 57516225--57516390 Score: 253
Period size: 62 Copynumber: 2.7 Consensus size: 62
57516215 AATGAGAATT
* * * * *
57516225 AGAATCAGAATTAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTAAC
*
57516287 AGAATCAGAATCAGTATCAGGTAACTGAATCAGAATCAGAA-CAAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATC-AGAATCAGAATTAGGTAAC
*
57516349 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
57516391 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
61 1 0.01
62 93 0.99
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:57516584 original size:29 final size:27
Alignment explanation
Indices: 57516512--57516590 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
57516502 AGGCTGCCAA
* *
57516512 ATATTGTGACGAAGTCACCAGATACAG
1 ATATTGTGGCGAAGCCACCAGATACAG
* *
57516539 ATATTGTGGCTAGGCCACCAGA-ACAG
1 ATATTGTGGCGAAGCCACCAGATACAG
57516565 ATATATATGTGGCGAAGCCACCAGAT
1 --ATAT-TGTGGCGAAGCCACCAGAT
57516591 TGCAGCGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
26 4 0.10
27 18 0.43
28 4 0.10
29 16 0.38
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
ATATTGTGGCGAAGCCACCAGATACAG
Found at i:57516659 original size:67 final size:68
Alignment explanation
Indices: 57516536--57516675 Score: 210
Period size: 67 Copynumber: 2.1 Consensus size: 68
57516526 TCACCAGATA
* * *
57516536 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACA-ATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
57516601 CTGC
65 CTGC
* * *
57516605 CAGATATTGTGACGAAGTCACCAGAAC-ATATATATGTGGCGAGGCCACCAGATTGCAGCGAGGT
1 CAGATATTGTGACGAAGCCACCAGAACAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
57516669 TGC
66 TGC
57516672 CAGA
1 CAGA
57516676 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 42 0.65
69 23 0.35
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
TGC
Found at i:57516939 original size:27 final size:27
Alignment explanation
Indices: 57516897--57517165 Score: 283
Period size: 27 Copynumber: 10.0 Consensus size: 27
57516887 CCTACCATTT
* * *
57516897 TACCCCACAAGGGTATCTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57516924 TACCTTACAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
57516951 TACCCTATAGGGGCATTT-AGGTATTTC
1 TACCCTACAGGGGTATTTCA-GTAATTC
*
57516978 TACCCTACAAGGGTATTTC-GATAATTC
1 TACCCTACAGGGGTATTTCAG-TAATTC
*
57517005 TACCCTACAGGGGTATTTTAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
57517032 TACCCTACAGGGGTATTTCGGTATTTG
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57517059 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57517086 TACCCTACAGGGGAATTTC-GATATTTC
1 TACCCTACAGGGGTATTTCAG-TAATTC
* ** *
57517113 TACCCTACAAGGGTATTTCAACATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57517140 TACCCTACAAGGGTATTTCGGTAATT
1 TACCCTACAGGGGTATTTCAGTAATT
57517166 TTGTAAATCG
Statistics
Matches: 206, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 202 0.98
28 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:57517032 original size:81 final size:81
Alignment explanation
Indices: 57516893--57517165 Score: 320
Period size: 81 Copynumber: 3.4 Consensus size: 81
57516883 AACACCTACC
* * * * *
57516893 ATTT-TACCCCACAAGGGTATCTC-AGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCC
* *
57516956 TATAGGGGCATTTAGGT
65 TACAGGGGTATTTAGGT
57516973 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
*
57517038 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTAGGT
* * * * * * *
57517054 ATTTGTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGG-AATTTCGATATTTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAG-TAATTCTACCC
* **
57517118 TACAAGGGTATTTCA-AC
65 TACAGGGGTATTT-AGGT
*
57517135 ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATT
57517166 TTGTAAATCG
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 9 0.05
81 157 0.94
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTAGGT
Found at i:57517179 original size:27 final size:27
Alignment explanation
Indices: 57517160--57517316 Score: 233
Period size: 27 Copynumber: 5.8 Consensus size: 27
57517150 GGGTATTTCG
* *
57517160 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
*
57517187 GTAATTCCATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
* * *
57517214 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
*
57517241 GTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
**
57517268 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACA
57517295 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
57517317 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACA
Found at i:57517325 original size:81 final size:80
Alignment explanation
Indices: 57517149--57517327 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 80
57517139 CTACCCTACA
* *
57517149 AGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCCATAAATCGAGGGTAAAACA
1 AGGGTATTT-GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCCATAAATCGAGGGTAAAACA
* *
57517214 GTAATTTTGTAAATCG
65 GTAATTCTATAAATCG
*** * * **
57517230 AGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGT-ATTTGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCCATAAATCGAGGGTAAAACA
57517295 GTAATTCTATAAATCG
65 GTAATTCTATAAATCG
57517311 AGGGTACTTTGGTAATT
1 AGGGTA-TTTGGTAATT
57517328 TTACAAGTCG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 80 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (80 bp):
AGGGTATTTGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCCATAAATCGAGGGTAAAACAG
TAATTCTATAAATCG
Found at i:57517327 original size:54 final size:54
Alignment explanation
Indices: 57517160--57517316 Score: 260
Period size: 54 Copynumber: 2.9 Consensus size: 54
57517150 GGGTATTTCG
* *
57517160 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCCATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
*
57517214 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
* * *
57517268 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
57517317 CTTTGGTAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
Found at i:57517343 original size:27 final size:26
Alignment explanation
Indices: 57517293--57517492 Score: 84
Period size: 27 Copynumber: 7.4 Consensus size: 26
57517283 GAGGGTAAAA
* * *
57517293 TGGTAATTCTATAAATCGAGGGTACTT
1 TGGTAATTTTACAAGTCGAGGGTA-TT
*
57517320 TGGTAATTTTACAAGTCGAAGGTATT
1 TGGTAATTTTACAAGTCGAGGGTATT
** *
57517346 TCAATAATTTTACAGGTCGAGGGTAGTT
1 T-GGTAATTTTACAAGTCGAGGGTA-TT
**** * * *
57517374 CAAAAATTTCACAAAT-TAGGGATATTT
1 TGGTAATTTTACAAGTCGAGGG-TA-TT
* *
57517401 TGGTAATTTTACAA-ACTAGGGGTATTT
1 TGGTAATTTTACAAGTCGA-GGGTA-TT
* * *
57517428 TGATAATTTTACAA-ACTAGGGGTATTT
1 TGGTAATTTTACAAGTCGA-GGGTA-TT
* *
57517455 TGGTAATTTTACAA-ACTAGGGGTATTT
1 TGGTAATTTTACAAGTCGA-GGGTA-TT
57517482 TGGTAATTTTA
1 TGGTAATTTTA
57517493 TAAACCAAGT
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.05
27 133 0.92
28 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
TGGTAATTTTACAAGTCGAGGGTATT
Found at i:57517408 original size:54 final size:54
Alignment explanation
Indices: 57517366--57517478 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
57517356 TACAGGTCGA
* *
57517366 GGGTAGTTCAAAAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAACTAG
1 GGGTAGTTCAAAAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACGAG
* ** * * * *
57517420 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTAGTTCAAAAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACGAG
57517474 GGGTA
1 GGGTA
57517479 TTTTGGTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (54 bp):
GGGTAGTTCAAAAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACGAG
Found at i:57517553 original size:27 final size:27
Alignment explanation
Indices: 57517378--57517544 Score: 253
Period size: 27 Copynumber: 6.2 Consensus size: 27
57517368 GTAGTTCAAA
* * *
57517378 AATTTCACAAATTAGGGATATTTTGGT
1 AATTTTACAAACTAGGGGTATTTTGGT
*
57517405 AATTTTACAAACTAGGGGTATTTTGAT
1 AATTTTACAAACTAGGGGTATTTTGGT
57517432 AATTTTACAAACTAGGGGTATTTTGGT
1 AATTTTACAAACTAGGGGTATTTTGGT
57517459 AATTTTACAAACTAGGGGTATTTTGGT
1 AATTTTACAAACTAGGGGTATTTTGGT
* * * * *
57517486 AATTTTATAAACCAAGTGTATTTTAGT
1 AATTTTACAAACTAGGGGTATTTTGGT
57517513 AATTTTACAAACTAGGGGTATTTTGGT
1 AATTTTACAAACTAGGGGTATTTTGGT
57517540 AATTT
1 AATTT
57517545 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
AATTTTACAAACTAGGGGTATTTTGGT
Found at i:57519709 original size:24 final size:24
Alignment explanation
Indices: 57519682--57519727 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57519672 AGCCCATTAC
*
57519682 AGAATAAGAAACATTATCAGAACT
1 AGAATAAGAAACAGTATCAGAACT
* *
57519706 AGAATCAGAATCAGTATCAGAA
1 AGAATAAGAAACAGTATCAGAA
57519728 TCAGAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (24 bp):
AGAATAAGAAACAGTATCAGAACT
Found at i:57519715 original size:6 final size:6
Alignment explanation
Indices: 57519697--57519846 Score: 121
Period size: 6 Copynumber: 24.3 Consensus size: 6
57519687 AAGAAACATT
* *
57519697 ATCAGA A-CTAGA ATCAGA ATCAGT ATCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
57519746 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
57519795 ATTAGGTA A-CAGA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
57519845 AT
1 AT
57519847 GTGAATGCAA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
5 9 0.08
6 90 0.78
7 11 0.09
8 6 0.05
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:57519751 original size:25 final size:25
Alignment explanation
Indices: 57519697--57519783 Score: 108
Period size: 25 Copynumber: 3.5 Consensus size: 25
57519687 AAGAAACATT
*
57519697 ATCAGAA-CTAGAATCA-G-AATCAGT
1 ATCAGAATC-AGAATCAGGTAA-CAGA
*
57519721 ATCAGAATCAGAATTAGGTAACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
*
57519746 ATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
57519771 ATCAGAATCAGAA
1 ATCAGAATCAGAA
57519784 CCAGAATCAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.24
25 40 0.73
26 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTAACAGA
Found at i:57519780 original size:62 final size:62
Alignment explanation
Indices: 57519680--57519845 Score: 255
Period size: 62 Copynumber: 2.7 Consensus size: 62
57519670 TTAGCCCATT
* * * * *
57519680 ACAGAATAAGAAACATTATCA-G-AACTAGAATCAGAATCAGTATCAGAATCAGAATTAGGTA
1 ACAGAATCAGAATCAGTATCAGGTAAC-AGAATCAGAATCAGAACCAGAATCAGAATTAGGTA
57519741 ACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTA
1 ACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTA
*
57519803 ACAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAA
1 ACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
57519846 TGTGAATGCA
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
61 18 0.19
62 76 0.78
63 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (62 bp):
ACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTA
Found at i:57519783 original size:37 final size:37
Alignment explanation
Indices: 57519706--57519796 Score: 80
Period size: 37 Copynumber: 2.5 Consensus size: 37
57519696 TATCAGAACT
* * *
57519706 AGAATCAGAATCAGTATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGTATCAGGTAAC
* *
57519743 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGTATCAGGTAA-C
*
57519780 AGAACCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
57519797 TAGGTAACAG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 2 0.04
37 36 0.75
38 8 0.17
39 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:57519802 original size:37 final size:37
Alignment explanation
Indices: 57519742--57519818 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
57519732 AATTAGGTAA
* * *
57519742 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAAAAT
*
57519779 CAGAACCAGAATCAGAATTAGGTAACAGAATCAAAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAAAAT
57519816 CAG
1 CAG
57519819 TATCAGGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAGAATCAAAAT
Found at i:57519816 original size:25 final size:25
Alignment explanation
Indices: 57519767--57519846 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
57519757 TATCAGGTAA
*
57519767 CAGAATCA-G-AATCAGAACCAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAAT
* *
57519791 CAGAATTAGGTAACAGAATCAAAAT
1 CAGAATCAGGTAACAGAATCAGAAT
*
57519816 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAAT
57519841 CAGAAT
1 CAGAAT
57519847 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
24 7 0.15
25 38 0.81
26 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (25 bp):
CAGAATCAGGTAACAGAATCAGAAT
Found at i:57520040 original size:29 final size:27
Alignment explanation
Indices: 57519965--57520046 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
57519955 GCGAGGCTGC
* *
57519965 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
57519992 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
57520018 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
57520047 TGCAGCGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.47
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:57520115 original size:67 final size:68
Alignment explanation
Indices: 57519992--57520131 Score: 210
Period size: 67 Copynumber: 2.1 Consensus size: 68
57519982 TCACCAGATA
* * *
57519992 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACA-ATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
57520057 CTGC
65 CTGC
* * *
57520061 CAGATATTGTGACGAAGTCACCAGAAC-ATATATATGTGGCGAGGCCACCAGATTGCAGCGAGGT
1 CAGATATTGTGACGAAGCCACCAGAACAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
57520125 TGC
66 TGC
57520128 CAGA
1 CAGA
57520132 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 42 0.65
69 23 0.35
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
TGC
Found at i:57520395 original size:27 final size:27
Alignment explanation
Indices: 57520353--57520594 Score: 254
Period size: 27 Copynumber: 9.0 Consensus size: 27
57520343 CCTACCATTT
* * *
57520353 TACCCCACAAGGGTATCTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57520380 TACCTTACAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
57520407 TACCCTATAGGGGCATTT-AGGTATTTC
1 TACCCTACAGGGGTATTTCA-GTAATTC
*
57520434 TACCCTACAAGGGTATTTC-GATAATTC
1 TACCCTACAGGGGTATTTCAG-TAATTC
*
57520461 TACCCTACAGGGGTATTTTAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
57520488 TACCCTACAGGGGTATTTCGGTATTTG
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57520515 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
** * * *
57520542 TACCCTACAAAGGTATTTCTGCATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
57520569 TACCCTACAAGAGTATTTCAGTAATT
1 TACCCTACAGGGGTATTTCAGTAATT
57520595 TTGTAAATAG
Statistics
Matches: 181, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 178 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:57520488 original size:81 final size:80
Alignment explanation
Indices: 57520349--57520577 Score: 280
Period size: 81 Copynumber: 2.8 Consensus size: 80
57520339 AACACCTACC
* * * *
57520349 ATTTTACCCCACAAGGGTATCTC-AGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
57520413 ATAGGGGCATTTAGGT
65 ACAGGGGCATTTAGGT
*
57520429 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTT-TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
57520494 ACAGGGGTATTTCGGT
65 ACAGGGGCATTTAGGT
* * * ** * * *
57520510 ATTTGTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCTGCATTTCTACCCT
1 ATTT-TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
57520575 ACA
65 ACA
57520578 AGAGTATTTC
Statistics
Matches: 129, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 4 0.03
81 124 0.96
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (80 bp):
ATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAGGGGCATTTAGGT
Found at i:57520618 original size:27 final size:27
Alignment explanation
Indices: 57520588--57520718 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
57520578 AGAGTATTTC
*
57520588 AGTAATTTTGTAAATAGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAT
57520615 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAT
*
57520642 GGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAT
* * * *
57520669 AATAATTCTGTAAATCGAAGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAT
* * *
57520696 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
57520719 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.31
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAT
Found at i:57520745 original size:27 final size:27
Alignment explanation
Indices: 57520696--57520919 Score: 188
Period size: 27 Copynumber: 8.3 Consensus size: 27
57520686 AAGGTAAAAC
* * *
57520696 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
57520723 GGTAATTTTACAAGTCGACGGTAGTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
57520750 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
57520777 GGTAATTTTACAAA-CTAGAGGTATTTT
1 GGTAATTTTACAAATCGAG-GGTATTTT
* *
57520804 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
57520831 GGTAATTTTATAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
57520858 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
57520885 AGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
57520912 GGTAATTT
1 GGTAATTT
57520920 GGTAAACTAA
Statistics
Matches: 168, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 161 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:57520756 original size:81 final size:82
Alignment explanation
Indices: 57520585--57520756 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 82
57520575 ACAAGAGTAT
* * * * *
57520585 TTCAGTAATTTTGTAAATAGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTT
1 TTCAGTAATTCTGTAAATAGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTT
** *
57520650 TGTAAATCGAGGGTAAA
66 TACAAATCGACGGTAAA
* * * * ***
57520667 AT-AATAATTCTGTAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTT
1 TTCAGTAATTCTGTAAATAGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTT
* *
57520731 TACAAGTCGACGGT-AG
66 TACAAATCGACGGTAAA
57520747 TTCAGTAATT
1 TTCAGTAATT
57520757 TCACAAATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
80 2 0.03
81 67 0.96
82 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (82 bp):
TTCAGTAATTCTGTAAATAGAAGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTT
TACAAATCGACGGTAAA
Found at i:57520781 original size:81 final size:80
Alignment explanation
Indices: 57520696--57520899 Score: 221
Period size: 81 Copynumber: 2.5 Consensus size: 80
57520686 AAGGTAAAAC
* * * *
57520696 GGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGA-CGGTAGTTCAGTAATTTCA
1 GGTAATTTTATAAA-CAAGGGTATTTTGGTAATTTTACAA-ACGAGCGGTAGTTCAGTAATTTCA
*
57520760 CAAATTAGGGGTATTTT
64 CAAACTAGGGGTATTTT
* * * * * * ** * *
57520777 GGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTAT
1 GGTAATTTTATAAACAAG-GGTATTTTGGTAATTTTACAAACGAGCGGTAGTTCAGTAATTTCAC
57520842 AAACTAGGGGTATTTT
65 AAACTAGGGGTATTTT
*
57520858 GGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 GGTAATTTTATAAA-CAAGGGTATTTTGGTAATTTTACAAAC
57520900 CAGGGGTATT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 5 0.05
81 94 0.92
82 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTAATTTTATAAACAAGGGTATTTTGGTAATTTTACAAACGAGCGGTAGTTCAGTAATTTCACA
AACTAGGGGTATTTT
Found at i:57520926 original size:27 final size:27
Alignment explanation
Indices: 57520751--57520919 Score: 248
Period size: 27 Copynumber: 6.3 Consensus size: 27
57520741 CGGTAGTTCA
* *
57520751 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
57520778 GTAATTTTACAAACTAGAGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
57520805 ATAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
57520832 GTAATTTTATAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * *
57520859 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
*
57520886 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
57520913 GTAATTT
1 GTAATTT
57520920 GGTAAACTAA
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:57524870 original size:29 final size:29
Alignment explanation
Indices: 57524809--57524900 Score: 141
Period size: 29 Copynumber: 3.2 Consensus size: 29
57524799 CACATACCTG
*
57524809 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
57524837 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
57524866 TATATGGCCCATCAGGCTCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
57524895 TATATG
1 TATATG
57524901 TATGCTCACA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.31
29 41 0.69
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:57540579 original size:46 final size:46
Alignment explanation
Indices: 57540528--57540654 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
57540518 ATGGTTGAGC
*
57540528 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GA-T-GCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTAACTAG-GA
* * *
57540572 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGTAACTAGGA
57540620 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57540655 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 62 0.89
47 2 0.03
48 3 0.04
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTAACTAGGA
Found at i:57550423 original size:44 final size:42
Alignment explanation
Indices: 57550369--57550525 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 42
57550359 TTCTGATATG
* **
57550369 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGGCTT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGAATT
** * *
57550411 ATGATTTACGTGTAAGACCATGTTTGGGACATCAGTATCGTATT
1 -TGATTT-CGTGTAAGACCATGTTTGGGACATTGGCATCGAATT
* * * *
57550455 TGATTTCGTGTAAGACCCTATTTGGGACAGTGGCATCAATATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGA-ATT
* *
57550498 TGATTACATGTAAGACCATGTTTGGGAC
1 TGATTTCGTGTAAGACCATGTTTGGGAC
57550526 GTTGCCATTG
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 25 0.27
43 39 0.41
44 30 0.32
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGAATT
Found at i:57554003 original size:21 final size:21
Alignment explanation
Indices: 57553977--57554023 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
57553967 TCTGGGCCAC
57553977 CAAATCTTACGAGTAAGTTCA
1 CAAATCTTACGAGTAAGTTCA
57553998 CAAATCTTACGAGTAAGTTCA
1 CAAATCTTACGAGTAAGTTCA
*
57554019 TAAAT
1 CAAAT
57554024 TGTTTCTGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (21 bp):
CAAATCTTACGAGTAAGTTCA
Found at i:57557374 original size:109 final size:109
Alignment explanation
Indices: 57557178--57557390 Score: 390
Period size: 109 Copynumber: 2.0 Consensus size: 109
57557168 CACTTTGGTG
57557178 AAGAAAAATATTTTGTTTGAAGAGGGTGATTAAAAACTAAGATTTTAAACCAAGTAAACTAAATA
1 AAGAAAAATATTTTGTTTGAAGAGGGTGATTAAAAACTAAGATTTTAAACCAAGTAAACTAAATA
* *
57557243 AATAAATCTCAAATGTATGATTTCAAAATATGATTTAATAAATA
66 AATAAATCTCAAATGCACGATTTCAAAATATGATTTAATAAATA
* *
57557287 AAGAAAAATATTTTGTTTGAAGAGGGTGATTAAAAACTAAGATTTTAAACTAAGTAAACTGAATA
1 AAGAAAAATATTTTGTTTGAAGAGGGTGATTAAAAACTAAGATTTTAAACCAAGTAAACTAAATA
57557352 AATAAATCTCAAATGCACGATTTCAAAATATGATTTAAT
66 AATAAATCTCAAATGCACGATTTCAAAATATGATTTAAT
57557391 CAAGATGACA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 100 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (109 bp):
AAGAAAAATATTTTGTTTGAAGAGGGTGATTAAAAACTAAGATTTTAAACCAAGTAAACTAAATA
AATAAATCTCAAATGCACGATTTCAAAATATGATTTAATAAATA
Found at i:57559032 original size:25 final size:25
Alignment explanation
Indices: 57558998--57559064 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
57558988 AATCAAAATG
* *
57558998 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
57559023 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
57559048 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
57559065 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:57559198 original size:27 final size:28
Alignment explanation
Indices: 57559161--57559221 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
57559151 GCTACACACC
* *
57559161 ACAGA-ATTTGTAGCATGGCTGCCAG-A
1 ACAGATATTTGTAGCATAGCTACCAGAA
* *
57559187 ACAGATATTTGTGGCATAGCTACTAGAA
1 ACAGATATTTGTAGCATAGCTACCAGAA
57559215 ACAGATA
1 ACAGATA
57559222 ATGTGGCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.17
27 16 0.55
28 8 0.28
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (28 bp):
ACAGATATTTGTAGCATAGCTACCAGAA
Found at i:57559347 original size:22 final size:22
Alignment explanation
Indices: 57559322--57559385 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
57559312 CCCACAATAA
*
57559322 TGGCGCATAGCCATAATCAGGT
1 TGGCGCAAAGCCATAATCAGGT
* *
57559344 TGGCACAAAGCCAT-ATGTAGGT
1 TGGCGCAAAGCCATAAT-CAGGT
*
57559366 TGGAGCAAAGCCATAATCAG
1 TGGCGCAAAGCCATAATCAG
57559386 AATAATTGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (22 bp):
TGGCGCAAAGCCATAATCAGGT
Found at i:57559946 original size:54 final size:54
Alignment explanation
Indices: 57559888--57559996 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
57559878 TTAACACCCT
57559888 AAGGGCAAAATGGTAATTT-TACCCCACAAGGGTATCTCAATAATTCTACCCTAC
1 AAGGGCAAAATGGT-ATTTCTACCCCACAAGGGTATCTCAATAATTCTACCCTAC
* *** * * * *
57559942 AAGGGTATTTTGGTATTTCTACGCTACAAGGGTATTTCGATAATTCTACCCTAC
1 AAGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCAATAATTCTACCCTAC
57559996 A
1 A
57559997 GGGGTATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.09
54 42 0.91
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (54 bp):
AAGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCAATAATTCTACCCTAC
Found at i:57559961 original size:27 final size:27
Alignment explanation
Indices: 57559901--57560006 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
57559891 GGCAAAATGG
* * * **
57559901 TAATTTTACCCCACAAGGGTATCTCAA
1 TAATTCTACCCTACAAGGGTATTTTGA
*
57559928 TAATTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTTGA
* * *
57559955 TATTTCTACGCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTTGA
*
57559982 TAATTCTACCCTACAGGGGTATTTT
1 TAATTCTACCCTACAAGGGTATTTT
57560007 AGTAATTTTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTTGA
Found at i:57563590 original size:28 final size:28
Alignment explanation
Indices: 57563558--57563612 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
57563548 CAGTACAGTC
* *
57563558 TGGGCCTTAGCCCTATACAGTAATAGTG
1 TGGGCCTAAGCCCAATACAGTAATAGTG
* *
57563586 TGGGCCTAAGCCCAATGCAGTATTAGT
1 TGGGCCTAAGCCCAATACAGTAATAGT
57563613 ACAGTGTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (28 bp):
TGGGCCTAAGCCCAATACAGTAATAGTG
Found at i:57563792 original size:27 final size:27
Alignment explanation
Indices: 57563762--57563854 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 27
57563752 CAGCATAGCT
*
57563762 ACTAGAAACAGTAAATGTGGCAAAGCC
1 ACTAGTAACAGTAAATGTGGCAAAGCC
* * *
57563789 ACTAGTATCAGTAATTGTGGCATAGCC
1 ACTAGTAACAGTAAATGTGGCAAAGCC
* * *
57563816 ACCAGTAACAGTAAATGTGGCATAGTC
1 ACTAGTAACAGTAAATGTGGCAAAGCC
*
57563843 ACCAGT-ACAGTA
1 ACTAGTAACAGTA
57563855 CTTCCTCCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.10
27 52 0.90
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (27 bp):
ACTAGTAACAGTAAATGTGGCAAAGCC
Found at i:57564009 original size:26 final size:27
Alignment explanation
Indices: 57563979--57564036 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
57563969 CGGAACATAA
57563979 GGCATAATCG-TCATTTGACCCTACAG-
1 GGCATAA-CGATCATTTGACCCTACAGT
* *
57564005 GGCATCACGATCATTTTACCCTACAGT
1 GGCATAACGATCATTTGACCCTACAGT
57564032 GGCAT
1 GGCAT
57564037 TACAGTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 21 0.75
27 5 0.18
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (27 bp):
GGCATAACGATCATTTGACCCTACAGT
Found at i:57564045 original size:27 final size:25
Alignment explanation
Indices: 57563987--57564049 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
57563977 AAGGCATAAT
*
57563987 CGTCATTTGACCCTACAGGGCATCA
1 CGTCATTTTACCCTACAGGGCATCA
*
57564012 CGATCATTTTACCCTACAGTGGCATTA
1 CG-TCATTTTACCCTACAG-GGCATCA
57564039 CAGTCATTTTA
1 C-GTCATTTTA
57564050 TAATCTAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 15 0.45
27 15 0.45
28 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (25 bp):
CGTCATTTTACCCTACAGGGCATCA
Found at i:57568832 original size:29 final size:30
Alignment explanation
Indices: 57568775--57568832 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57568765 ATTTTGAAAA
* * *
57568775 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
57568805 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
57568833 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:57574036 original size:17 final size:18
Alignment explanation
Indices: 57574014--57574047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57574004 CACATTGAAG
57574014 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
57574031 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
57574048 CTTCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:57578721 original size:28 final size:28
Alignment explanation
Indices: 57578688--57578789 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
57578678 GCCCCCTTTA
*
57578688 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCG
57578716 GGCCCAATCACATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCG
* * * *
57578744 GGCTCAATCACTTTCATATGGCCCGTCA
1 GGCCCAATCACATTCATATGGCCCATCG
*
57578772 GGCCCAATCACACTCATA
1 GGCCCAATCACATTCATA
57578790 GTCATACAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCG
Found at i:57583748 original size:50 final size:50
Alignment explanation
Indices: 57583694--57583832 Score: 217
Period size: 49 Copynumber: 2.8 Consensus size: 50
57583684 CTGGTATGCA
* *
57583694 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* * *
57583744 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
*
57583793 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAAT
57583833 AGCTCATTTG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 45 0.56
50 35 0.44
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
Found at i:57584356 original size:30 final size:30
Alignment explanation
Indices: 57584322--57584381 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57584312 TTATCATACG
57584322 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
57584352 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
57584382 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:57586449 original size:15 final size:16
Alignment explanation
Indices: 57586424--57586456 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
57586414 AACAAAGAAG
57586424 CAAGAATAAAGAAATC
1 CAAGAATAAAGAAATC
57586440 CAAG-ATAAAGAAATC
1 CAAGAATAAAGAAATC
57586455 CA
1 CA
57586457 TGATCGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.61, C:0.15, G:0.12, T:0.12
Consensus pattern (16 bp):
CAAGAATAAAGAAATC
Found at i:57589236 original size:49 final size:49
Alignment explanation
Indices: 57589161--57589403 Score: 297
Period size: 49 Copynumber: 4.9 Consensus size: 49
57589151 GCCGAAGCTT
* * *
57589161 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACTA
* * * * *
57589210 TCCGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACTA
* * * *
57589260 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-CTA
* * *
57589311 TCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACTA
* * *
57589360 TATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
57589404 TCACAATAGC
Statistics
Matches: 164, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 78 0.48
50 46 0.28
51 40 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACTA
Found at i:57589348 original size:26 final size:26
Alignment explanation
Indices: 57589265--57589348 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
57589255 AACCATCTGA
57589265 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * * *
57589291 TACACA-CGT-G-ATCGAAGTTA-TCAGG
1 TACACATAGTAGCCT-GCACTTAGT-A-C
57589316 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
57589342 TACACAT
1 TACACAT
57589349 GCGACCAACA
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
23 2 0.05
24 7 0.17
25 8 0.20
26 15 0.37
27 7 0.17
28 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:57589934 original size:30 final size:30
Alignment explanation
Indices: 57589900--57589959 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57589890 TTATCATACG
57589900 AACTTTGGCAAAATTAC-CATTTTGCCCTTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCTTA
* *
57589930 AACTTTTGCATAATTACACTTTTGCCCTTA
1 AACTTTGGCAAAATTACACTTTTGCCCTTA
57589960 GACTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCTTA
Found at i:57595123 original size:30 final size:30
Alignment explanation
Indices: 57595087--57595155 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
57595077 CGCACGGGTA
*
57595087 GACACACGGGCGTGGGTTTAGGCTGTGTGT
1 GACACACGGGCGTGGGTCTAGGCTGTGTGT
57595117 GACACACGGGCGTGGGTCTAGGCTGTGTGT
1 GACACACGGGCGTGGGTCTAGGCTGTGTGT
57595147 GACACACGG
1 GACACACGG
57595156 CTTACCCCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.20, G:0.42, T:0.22
Consensus pattern (30 bp):
GACACACGGGCGTGGGTCTAGGCTGTGTGT
Found at i:57599677 original size:40 final size:40
Alignment explanation
Indices: 57599617--57599724 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
57599607 ACTTGATATC
* *
57599617 TCGCACACTAAGTGCAATATATAGCTGAAGCTCTCTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
* * **
57599657 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
*
57599697 TCGCACACTAAGTGCCACATATAGCTGA
1 TCGCACACTAAGTGCCATATATAGCTGA
57599725 TTTGATGTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAA
Found at i:57604083 original size:19 final size:15
Alignment explanation
Indices: 57604042--57604071 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57604032 ACAGTTCTTG
57604042 GATACTTTGTCAACT
1 GATACTTTGTCAACT
57604057 GATACTTTGTCAACT
1 GATACTTTGTCAACT
57604072 AGAACATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
GATACTTTGTCAACT
Found at i:57606910 original size:17 final size:17
Alignment explanation
Indices: 57606888--57606929 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
57606878 AAATAAATAA
57606888 AGTAAGCTTTATAGATT
1 AGTAAGCTTTATAGATT
*
57606905 AGTAAGCTTTATAGCTT
1 AGTAAGCTTTATAGATT
57606922 AGTAAGCT
1 AGTAAGCT
57606930 CATATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
AGTAAGCTTTATAGATT
Found at i:57607248 original size:41 final size:40
Alignment explanation
Indices: 57607182--57607289 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 40
57607172 ATAGCAAGAT
* * *
57607182 CTATCTCAAATCGCACACTAAGTGCCTTATATA-ACAGAAG
1 CTATCTCGAATCACACACTAAGTGCCATATATAGAC-GAAG
* *
57607222 CTATCTCGATCTCACACACTAAGTGCCATATATAGGCGAAG
1 CTATCTCGA-ATCACACACTAAGTGCCATATATAGACGAAG
* *
57607263 CTATGTCGAATCGCACACTAAGTGCCA
1 CTATCTCGAATCACACACTAAGTGCCA
57607290 CATGAGATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 24 0.41
41 33 0.57
42 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
CTATCTCGAATCACACACTAAGTGCCATATATAGACGAAG
Found at i:57616588 original size:49 final size:50
Alignment explanation
Indices: 57616525--57616699 Score: 146
Period size: 48 Copynumber: 3.6 Consensus size: 50
57616515 AAGTCAATGT
*
57616525 CATGTCCCAAACATGGTCTTACACTGACTATCA-AAATCAAGT-TCGACAC
1 CATGTCCCAAACATGGTCTTACACTGACTATCACAAATC-AGTGCCGACAC
* * * * **
57616574 CATGTCCCATACATGGTCTTACACT-AGCTCTCACATATCCGTGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTGA-CTATCACAAATCAGTGCCGACAC
* * * **
57616624 CATGTCCCAGACATGGTCTTACACTGAC-ACCAC-TATACA-TGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTGACTATCACAAAT-CAGTGCCGACAC
* * *
57616672 CATGTCCTAGACATGGTCTTACATTGAC
1 CATGTCCCAAACATGGTCTTACACTGAC
57616700 ACCTCTATAC
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
48 39 0.36
49 35 0.32
50 33 0.31
51 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (50 bp):
CATGTCCCAAACATGGTCTTACACTGACTATCACAAATCAGTGCCGACAC
Found at i:57616684 original size:48 final size:47
Alignment explanation
Indices: 57616573--57616747 Score: 212
Period size: 48 Copynumber: 3.7 Consensus size: 47
57616563 AAGTTCGACA
* * *
57616573 CCATGTCCCATACATGGTCTTACACT-AGCTCTCACATATCCGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CAC-CAC-TATAC-TGCCGATG
57616623 CCATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACACCACTATAC-TGCCGATG
* * * *
57616671 CCATGTCCTAGACATGGTCTTACATTGACACCTCTATAC-G-TGATG
1 CCATGTCCCAGACATGGTCTTACACTGACACCACTATACTGCCGATG
*
57616716 CCATGTCCCAGACATGGTCTTACACTAACACC
1 CCATGTCCCAGACATGGTCTTACACTGACACC
57616748 TCTCGAGGCC
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
45 33 0.29
46 1 0.01
48 48 0.42
49 3 0.03
50 27 0.24
51 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACACCACTATACTGCCGATG
Found at i:57616769 original size:45 final size:45
Alignment explanation
Indices: 57616616--57616832 Score: 174
Period size: 45 Copynumber: 4.8 Consensus size: 45
57616606 ACATATCCGT
* * *
57616616 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACA-C-CTCT-CAC
* * * *
57616664 GCCGATGCCATGTCCTAGACATGGTCTTACATTGACACCTCTATAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCT-CAC
* *
57616710 G-TGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTC-AC
* * * * *
57616755 GCCGATG-CAGGTCCCAAACAT-GTCTTA-ACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACAC-C-TCTC-AC
** *
57616800 ATCGATGCGATGTCCCAGACAT-GTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
57616833 GCACACAAAT
Statistics
Matches: 140, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
43 6 0.04
44 7 0.05
45 60 0.43
46 27 0.19
47 5 0.04
48 35 0.25
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTCAC
Found at i:57620885 original size:47 final size:47
Alignment explanation
Indices: 57620787--57620914 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
57620777 AATTGATAAG
* ** *
57620787 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCGGAT
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
** * *
57620834 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
* * *
57620881 TACCTATATCATGGCCCCTAGCCAAATTAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
57620915 TTATCTGCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:57624687 original size:17 final size:18
Alignment explanation
Indices: 57624665--57624698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57624655 CACATTGAAG
57624665 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
57624682 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
57624699 CTTCAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:57625776 original size:28 final size:28
Alignment explanation
Indices: 57625733--57625807 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
57625723 TGGCCCCTTT
*
57625733 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
57625761 -GGCCCCAATCACATTCATATGGCCTATC
1 AGG-CCCAATCACATTCATATGGCCCATC
57625789 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
57625808 GTCCTACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.05
28 39 0.91
29 2 0.05
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:57627746 original size:47 final size:47
Alignment explanation
Indices: 57627676--57627769 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
57627666 TGGGCTTAGC
* *
57627676 TTCCCCTTCTGTCCAAACCTTAATACCTTCTTCCACAGAGAGACCTT
1 TTCCCCTTCCGTCCAAACATTAATACCTTCTTCCACAGAGAGACCTT
*
57627723 TTCCCCTTCCGTCCAAACATTAATACCTTCTTCCACAGAGATACCTT
1 TTCCCCTTCCGTCCAAACATTAATACCTTCTTCCACAGAGAGACCTT
57627770 AAGAAAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.24, C:0.36, G:0.07, T:0.32
Consensus pattern (47 bp):
TTCCCCTTCCGTCCAAACATTAATACCTTCTTCCACAGAGAGACCTT
Found at i:57631577 original size:47 final size:46
Alignment explanation
Indices: 57631467--57631641 Score: 233
Period size: 46 Copynumber: 3.8 Consensus size: 46
57631457 TTCAACATGA
* * * * *
57631467 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCACGT
* * *
57631513 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CCTGTCACGT
* * *
57631560 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCACGT
*
57631606 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
57631642 TCTATCAGAG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
46 74 0.65
47 39 0.35
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCACGT
Found at i:57636972 original size:28 final size:28
Alignment explanation
Indices: 57636933--57636998 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
57636923 CCCCTTTAAG
* *
57636933 CCCAATCTCATTCATATGGCCCACCAGC
1 CCCAATCACATTCATATAGCCCACCAGC
** *
57636961 CCCAATCACATTCATATAGCCCATTAGG
1 CCCAATCACATTCATATAGCCCACCAGC
57636989 CCCAATCACA
1 CCCAATCACA
57636999 CCCACAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.21
Consensus pattern (28 bp):
CCCAATCACATTCATATAGCCCACCAGC
Found at i:57650533 original size:49 final size:49
Alignment explanation
Indices: 57650422--57651213 Score: 1325
Period size: 47 Copynumber: 16.5 Consensus size: 49
57650412 GTGTGTATAC
57650422 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650471 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
57650518 GTGAAAGTGTATATATATGTGATAAGGCCTAATAGCAGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
57650567 GTGAAAGTTTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650616 GTGAAAGT-TATATATATG-GATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
57650663 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
57650712 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650761 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650808 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650857 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57650906 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
57650955 GTGAAAGTG--TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
57651002 GGGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57651049 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57651096 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * *
57651143 GTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATTG-AT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA-TGAAT
57651190 GTGAAAGTGTATA-A-ATGTGATAAG
1 GTGAAAGTGTATATATATGTGATAAG
57651214 TCCCGAAGGG
Statistics
Matches: 716, Mismatches: 18, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
47 361 0.50
48 23 0.03
49 332 0.46
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:57650687 original size:145 final size:145
Alignment explanation
Indices: 57650422--57651213 Score: 1343
Period size: 145 Copynumber: 5.5 Consensus size: 145
57650412 GTGTGTATAC
57650422 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
57650487 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
57650552 GCAGATGTGATGAAT
131 GCCGATGTGATGAAT
* *
57650567 GTGAAAGTTTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-TATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
57650631 ATGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATAAGGCCTAAT
66 GT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
57650696 GGCCGATGTGATGAAT
130 GGCCGATGTGATGAAT
*
57650712 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
57650777 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
57650842 GCCGATGTGATGAAT
131 GCCGATGTGATGAAT
57650857 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
57650922 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGGTAAGGCCTAA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
57650985 TGGCCGATGTGATGAAT
129 TGGCCGATGTGATGAAT
*
57651002 GGGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
57651065 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
57651128 GCCGATGTGATGAAT
131 GCCGATGTGATGAAT
* * * * * *
57651143 GTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATTG-ATGTGAAAGTGTATAAA
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA-TGAATGTGAAAGTGTATATA
57651205 TGTGATAAG
65 TGTGATAAG
57651214 TCCCGAAGGG
Statistics
Matches: 622, Mismatches: 20, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
141 145 0.23
142 2 0.00
143 47 0.08
144 8 0.01
145 365 0.59
146 8 0.01
147 47 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (145 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAAT
Found at i:57651401 original size:37 final size:37
Alignment explanation
Indices: 57651332--57651410 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57651322 CCGAGCTCTA
* * *
57651332 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
* *
57651369 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
57651406 AAGAC
1 AAGAC
57651411 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:57653999 original size:46 final size:46
Alignment explanation
Indices: 57653945--57654121 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
57653935 ATGGTTGAGC
57653945 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* * * * *
57653991 TTCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* * *
57654034 AGGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC
1 ----ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
** *
57654084 GCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57654122 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 63 0.59
47 26 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:57654102 original size:93 final size:93
Alignment explanation
Indices: 57653943--57654113 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57653933 GGATGGTTGA
* *** *
57653943 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATTTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57654008 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
57654036 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57654101 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57654114 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57657042 original size:27 final size:28
Alignment explanation
Indices: 57657012--57657192 Score: 149
Period size: 27 Copynumber: 6.5 Consensus size: 28
57657002 ATATTAAGTC
* *
57657012 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
57657039 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
** *
57657067 CGCACACTTAGTGCTACGCATTGGTC-AATT
1 CGCACACTTAGTGCTA--CA-TAATCAAACT
** **
57657097 CGCACACTTAGTGC-ATCATTTTC-ATTT
1 CGCACACTTAGTGCTA-CATAATCAAACT
* **
57657124 CGCACACTTAGTGCAACATGGTCAAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
**
57657151 CGCACACTTAGTGCTACATAGCCAAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
57657178 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57657193 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
27 85 0.65
28 23 0.18
29 1 0.01
30 19 0.15
31 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:57657181 original size:54 final size:56
Alignment explanation
Indices: 57657033--57657192 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 56
57657023 TGCTATATAA
* *
57657033 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACGCATTGG
1 TCAAATCGCACACTTAGTG-CACATAATCAAA-TCGCACACTTAGTGCTACACATTGG
* ** **
57657091 TCAATTCGCACACTTAGTGCATCATTTTCATTTCGCACACTTAGTGC-A-ACA-TGG
1 TCAAATCGCACACTTAGTGCA-CATAATCAAATCGCACACTTAGTGCTACACATTGG
**
57657145 TCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGCT
1 TCAAATCGCACACTTAGTGC-ACATAATCAAATCGCACACTTAGTGCT
57657193 GTACAATTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 42 0.48
55 3 0.03
56 1 0.01
57 17 0.20
58 24 0.28
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (56 bp):
TCAAATCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCTACACATTGG
Found at i:57665320 original size:81 final size:82
Alignment explanation
Indices: 57665174--57665324 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 82
57665164 TATAATCAAC
* * * * *
57665174 TCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGTCGCATGGTCAATTCGCACACTT
1 TCGCACACTTAGTGCAACATAATCAAACTCGCACACTTAGTGTCACATAGCCAAATCGCACACTT
57665239 AGTGCATCATTTTCATT
66 AGTGCATCATTTTCATT
**
57665256 TCGCACACTTAGTGCAACATGGTCAAA-TCGCACACTTAGTG-CTACATAGCCAAATCGCACACT
1 TCGCACACTTAGTGCAACATAATCAAACTCGCACACTTAGTGTC-ACATAGCCAAATCGCACACT
57665319 TAGTGC
65 TAGTGC
57665325 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.02
81 36 0.59
82 24 0.39
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (82 bp):
TCGCACACTTAGTGCAACATAATCAAACTCGCACACTTAGTGTCACATAGCCAAATCGCACACTT
AGTGCATCATTTTCATT
Found at i:57665325 original size:27 final size:27
Alignment explanation
Indices: 57665148--57665325 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
57665138 ATATTAAGTC
* * * *
57665148 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57665175 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
57665203 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAGTCAAAT
** **
57665230 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
57665257 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
57665284 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57665311 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57665326 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57670354 original size:52 final size:52
Alignment explanation
Indices: 57670235--57670413 Score: 233
Period size: 51 Copynumber: 3.5 Consensus size: 52
57670225 ACGGATACCT
* * * * *
57670235 AGTGGCCTGCCCATAGTACCACCCTTGT-AGTCAAAGCTACCTTT-TTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTTCTTCACAA
57670286 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
* *
57670338 AGTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTGTC--TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
* *
57670387 AGTGGCCATCATATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
57670414 AGTCACTAGT
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 33 0.28
51 44 0.38
52 40 0.34
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (52 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
Found at i:57670403 original size:49 final size:51
Alignment explanation
Indices: 57670235--57670413 Score: 229
Period size: 52 Copynumber: 3.5 Consensus size: 51
57670225 ACGGATACCT
* * * * * *
57670235 AGTGGCCTGCCCATAGTACCACCCTTGT-AGTCAAAGCTACCTTTTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAA
57670286 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
* *
57670338 AGTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTGTC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
* *
57670387 AGTGGCCATCATATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
57670414 AGTCACTAGT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 33 0.28
51 41 0.35
52 42 0.36
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:57674876 original size:24 final size:24
Alignment explanation
Indices: 57674849--57674926 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
57674839 AAGGCTGTCA
*
57674849 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
57674873 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
57674897 GGAGAGGATTTAGGAGCTGATTAA-
1 GGAGAAGATTTAGGAGCTGA-TAAG
57674921 GGAGAA
1 GGAGAA
57674927 CGATGTTGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 47 0.94
25 3 0.06
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:57676435 original size:27 final size:26
Alignment explanation
Indices: 57676399--57676469 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
57676389 GTGGCTCCAC
57676399 CACATATATCTGTTCTGGTGACTCTG-
1 CACAT-TATCTGTTCTGGTGACTCTGT
*
57676425 CGACAATTATCTGTTATGGTGACTCTGT
1 C-AC-ATTATCTGTTCTGGTGACTCTGT
57676453 CACATTATCTGTTCTGG
1 CACATTATCTGTTCTGG
57676470 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 14 0.35
27 23 0.57
28 3 0.08
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
CACATTATCTGTTCTGGTGACTCTGT
Found at i:57680569 original size:47 final size:47
Alignment explanation
Indices: 57680501--57680630 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 47
57680491 CCCTTGTAGT
* *
57680501 CAAAGCTA-CATTTTTTTACAAAGTGGCCTTCACACCACACTTATGAC
1 CAAAGCTATC-TTTCTTCACAAAGTGGCCTTCACACCACACTTATGAC
* *
57680548 CAAAGCTATCTTTCTTCACAAAGTGGACTTCACATAGTACCACACTTGTGAC
1 CAAAGCTATCTTTCTTCACAAAGTGGCCTTCAC-----ACCACACTTATGAC
*
57680600 C-AAGCTATC--TCTTCTCAAAGTGGCCTTCACA
1 CAAAGCTATCTTTCTTCACAAAGTGGCCTTCACA
57680631 TAGTACCACA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
44 1 0.01
47 28 0.39
48 1 0.01
49 19 0.27
51 8 0.11
52 14 0.20
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (47 bp):
CAAAGCTATCTTTCTTCACAAAGTGGCCTTCACACCACACTTATGAC
Found at i:57680628 original size:49 final size:51
Alignment explanation
Indices: 57680534--57680644 Score: 172
Period size: 49 Copynumber: 2.2 Consensus size: 51
57680524 TGGCCTTCAC
*
57680534 ACCACACTTATGACCAAAGCTATCTTTCTTCACAAAGTGGACTTCACATAGT
1 ACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGTGGACTTCACATAGT
* *
57680586 ACCACACTTGTGACC-AAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGT
1 ACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGACTTCACATAGT
57680635 ACCACACTTG
1 ACCACACTTG
57680645 AGTCACTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
49 34 0.61
51 8 0.14
52 14 0.25
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (51 bp):
ACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGACTTCACATAGT
Found at i:57685603 original size:40 final size:40
Alignment explanation
Indices: 57685509--57685693 Score: 120
Period size: 40 Copynumber: 4.6 Consensus size: 40
57685499 TATTCGAATG
* * * * * * *
57685509 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTTCTAGGTGACT
1 ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGA-GCGACT
* * * *
57685550 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAG-CGACT
* * *
57685590 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGCGACT
* * * ** * * *
57685630 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGCGACT
* * *
57685670 ACATCCGGGCTTAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCAAAGGC
57685694 CTTGTGCAAG
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.76
41 27 0.23
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGCGACT
Found at i:57689267 original size:48 final size:47
Alignment explanation
Indices: 57689070--57689482 Score: 337
Period size: 48 Copynumber: 8.6 Consensus size: 47
57689060 TAAATTATCG
* * ** * *
57689070 ATGCCATGTCCCAGACATGGTCTTACACTGTCTCACATGTCGA-GGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATTGC-C
* * ** * *
57689118 ATGCCATGCCCCAGACATGGTCTTACACTGGCTCACATGTCGA-GGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATTGC-C
* * ** *
57689166 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTG-CC
* *
57689214 ATGCCATGTCCCAGACATGGTCTTACTCTGGCTCCCATAACATTGCC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCC
* * *
57689261 ACTGCCATGTTCCAAACATGGACTTACACTGGCTCTCATAACATTGCC
1 A-TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCC
* * * * *
57689309 GATGCCATGTTCCAAACATGGTTTTACACTGGCTCTCATAACATTTTCG
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACA-TTGCC
* * * * * * *
57689358 ATGTCATGT-TCTGAACATAGTGTTGCACTGGCTCTCATAGCATTGCC
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCTCATAACATTGCC
* * * *
57689405 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATAACATTGCTG
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGC-C
* * *
57689454 GTGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
57689483 AGCACACATA
Statistics
Matches: 310, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
47 8 0.03
48 296 0.95
49 6 0.02
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCC
Found at i:57689267 original size:96 final size:95
Alignment explanation
Indices: 57689068--57689495 Score: 376
Period size: 96 Copynumber: 4.5 Consensus size: 95
57689058 GGTAAATTAT
* * * * ** * *
57689068 CGATGCCATGTCCCAGACATGGTCTTACACT-GTCTCACATGTCGAGGCTAATGCCATGCCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCAATGCCGATGCCATGTCCCAA
* ** *
57689132 ACATGGTCTTACACTGGCTCACATGTCGA-GG
65 ACATGGTCTTACACTGGCTCTCATAAC-ATTG
* * * *
57689163 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCCATGCCATGTCCCAG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAA
* *
57689228 ACATGGTCTTACTCTGGCTCCCATAACATTG
65 ACATGGTCTTACACTGGCTCTCATAACATTG
* * * * * * * *
57689259 CCACTGCCATGTTCCAAACATGGACTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCAA
1 CGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAA
* *
57689324 ACATGGTTTTACACTGGCTCTCATAACATTTT
65 ACATGGTCTTACACTGGCTCTCATAACA-TTG
* * * * * * * * * *
57689356 CGATGTCATGT-TCTGAACATAGTGTTGCACTGGCTCTCATAGCATTGCCGATGCCATGTTCCAA
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAA
*
57689420 ACATAGTCTTACACTGGCTCTCATAACATTG
65 ACATGGTCTTACACTGGCTCTCATAACATTG
* * * * *
57689451 CTGGTGCCATGTTCCAAACATGGTCTTACACTAGCACACATATCA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
57689496 TCCAAATGTA
Statistics
Matches: 271, Mismatches: 54, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
95 7 0.03
96 258 0.95
97 6 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTCTCATAACATTG
Found at i:57689330 original size:144 final size:143
Alignment explanation
Indices: 57689070--57689485 Score: 424
Period size: 144 Copynumber: 2.9 Consensus size: 143
57689060 TAAATTATCG
* ** * * ** *
57689070 ATGCCATGTCCCAGACATGGTCTTACACTGTCTCACATGTCGA-GGCTAATGCCATGCCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC-ATTGC-CATGCCATGTTCCAAAC
* ** * * *
57689134 ATGGTCTTACACTGGCTCACATGTCGA-GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGC
64 ATGGTCTTACACTGGCTCTCATAAC-ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAGC
* **
57689198 TCTCGTCTCAATGCCC
128 TCTCATAACAATGCCC
* *
57689214 ATGCCATGTCCCAGACATGGTCTTACTCTGGCTCCCATAACATTGCCACTGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACATTGCCA-TGCCATGTTCCAAACA
* * * *
57689279 TGGACTTACACTGGCTCTCATAACATTGCCGATGCCATGTTCCAAACATGGTTTTACACTGGCTC
65 TGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTC
* ** *
57689344 TCATAACATTTTCG
130 TCATAACAATGCCC
* * * * * * * *
57689358 ATGTCATGT-TCTGAACATAGTGTTGCACTGGCTCTCATAGCATTGCCGATGCCATGTTCCAAAC
1 ATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCACATAACATTGCC-ATGCCATGTTCCAAAC
* *
57689422 ATAGTCTTACACTGGCTCTCATAACATTGCTGGTGCCATGTTCCAAACATGGTCTTACACTAGC
64 ATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAGC
57689486 ACACATATCA
Statistics
Matches: 225, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
143 5 0.02
144 219 0.97
145 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACATTGCCATGCCATGTTCCAAACAT
GGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT
CATAACAATGCCC
Found at i:57698159 original size:40 final size:40
Alignment explanation
Indices: 57697957--57698164 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
57697947 TATTCGAATG
* * *
57697957 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
57697998 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* * *
57698038 A-ATTCCGGGCT-AGGCCCGAAGGCATTGGAGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57698077 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57698117 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
57698157 ATATCCGG
1 ATATCCGG
57698165 TTAAATTCTG
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
39 35 0.24
40 79 0.55
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57698178 original size:79 final size:78
Alignment explanation
Indices: 57697961--57698178 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
57697951 CGAATGATAT
* * * *
57697961 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCT-AGTCCCGAAGGCATTTGAGC-GAGTAG-CTATATCCGG-TTAA-ATTCCGAAGGCAT
*
57698024 TTGTGCGAGTTACTAATT
61 TTGTGCGAGTTACTAATA
* * * * *
57698042 CCGGGCTAGGCCCGAAGGCATTGGAGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGGCATTTG
57698106 TGCGAGTTACT-ATAA
64 TGCGAGTTACTAAT-A
*
57698121 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAATTCTGAAGG
1 CCGGGCTA-GTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
57698179 TATGTGATTC
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
78 2 0.02
79 59 0.52
80 46 0.40
81 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAATTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:57699797 original size:48 final size:48
Alignment explanation
Indices: 57699566--57699882 Score: 244
Period size: 48 Copynumber: 6.6 Consensus size: 48
57699556 GTAAATTGTC
* * ** *** *
57699566 GATGCCATGTCCCAGACATGGTCTTACACTGTCTCACATGTTGA-GGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTAT-AACATTGCT
* * ** ** *
57699614 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGA-GGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAAC-ATTGCT
* * * ** ** *
57699662 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAACGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAACATTGCT
* * * * *
57699710 CATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTTATAACATTGTT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAACATTGCT
* *
57699758 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATAACATT-TT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAACATTGCT
** * ** * *
57699805 CGATGTTATGTTCTGAACATAGTCTTACACTGGCTCTCATAACATTGCT
1 -GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAACATTGCT
*
57699854 GATGCCATGTTCCAAACATGGTCTTACAC
1 GATGCCATGTCCCAAACATGGTCTTACAC
57699883 ATATATCATC
Statistics
Matches: 227, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
47 4 0.02
48 222 0.98
49 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAACATTGCT
Found at i:57703850 original size:14 final size:14
Alignment explanation
Indices: 57703833--57703859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57703823 ATGTATGATA
57703833 ATTTTAGTATAGTC
1 ATTTTAGTATAGTC
57703847 ATTTTAGTATAGT
1 ATTTTAGTATAGT
57703860 TAAATCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.52
Consensus pattern (14 bp):
ATTTTAGTATAGTC
Found at i:57704480 original size:3 final size:3
Alignment explanation
Indices: 57704472--57704496 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57704462 TAAATTCCCC
57704472 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
57704497 TAAATGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57708499 original size:47 final size:47
Alignment explanation
Indices: 57708433--57708651 Score: 186
Period size: 47 Copynumber: 4.6 Consensus size: 47
57708423 TTACGAGACC
*
57708433 AGTGTAAGACCATGTCTGGGACATGGCATCGATATTGAAACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-ATTGATACAAGAGCT
* *
57708481 AGTGTAAGA-CATGTCTGGGACAT-GCATCG----GCTACAAGATGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAATTGATACAAGA-G-CT
* *
57708524 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTTA-AAG-TC-
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-G-A---AT-TGATACAAGAGCT
* *** *
57708575 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACGTATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAATTGATACAAGAGCT
*
57708622 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
57708652 AGCATTATAC
Statistics
Matches: 140, Mismatches: 13, Indels: 37
0.74 0.07 0.19
Matches are distributed among these distances:
41 7 0.05
42 1 0.01
43 1 0.01
44 11 0.08
45 17 0.12
46 12 0.09
47 44 0.31
48 10 0.07
49 1 0.01
50 30 0.21
55 3 0.02
56 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGAATTGATACAAGAGCT
Found at i:57708552 original size:92 final size:93
Alignment explanation
Indices: 57708385--57708554 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
57708375 TTAATTCTGT
* **
57708385 GCTAGTGTAAGACATGTCTAGGACATGCATTGGCCACATTACGAGACCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGACCAGTGTAAGACCATGTCT
57708450 GGGACATGGCATCGATATTGAAACAAGA
66 GGGACATGGCATCGATATTGAAACAAGA
* * * * *
57708478 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTG-TCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGACCAGTGTAAGACCATGTCT
57708542 GGGACATGGCATC
66 GGGACATGGCATC
57708555 AGCACGGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
92 31 0.45
93 38 0.55
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGACCAGTGTAAGACCATGTCT
GGGACATGGCATCGATATTGAAACAAGA
Found at i:57708646 original size:97 final size:94
Alignment explanation
Indices: 57708388--57708655 Score: 260
Period size: 97 Copynumber: 2.8 Consensus size: 94
57708378 ATTCTGTGCT
* * * * ** * *
57708388 AGTGTAAGACATGTCTAGGACATGCATTGGCCACATTACGAGACCAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACTACAAGATGAG-TCAGTGTAAGACCATGTCTGGG
* ** *
57708453 ACATGGCATC-G-A--TAT-TGAAACAAGAGC
65 ACATGGCATCAGCACGGATATGTTA-AAG-TC
* *
57708480 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCTGGG
1 -AGTGTAAGACATGTCTGGGACATGCATCGACTACAAGATGAGTCAGTGTAAGACCATGTCTGGG
57708545 ACATGGCATCAGCACGGATATGTTAAAGTC
65 ACATGGCATCAGCACGGATATGTTAAAGTC
** * *
57708575 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACGTATGAG-CTAGTGTAAGACCATGTTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACAAG-ATGAGTC-AGTGTAAGACCATGTCT
57708639 GGGACATGGCATCAGCA
62 GGGACATGGCATCAGCA
57708656 TTATACCCTA
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
92 31 0.21
93 36 0.24
94 10 0.07
95 15 0.10
96 16 0.11
97 40 0.27
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACAAGATGAGTCAGTGTAAGACCATGTCTGGGA
CATGGCATCAGCACGGATATGTTAAAGTC
Found at i:57712122 original size:53 final size:54
Alignment explanation
Indices: 57712064--57712166 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
57712054 CTTCAGTTTG
*
57712064 GTTTCCATGAA-G-AGATAATCATAAACTTATTAATTAAATTTAGTTCTTTTAAT
1 GTTTCCAT-AAGGAAGATAATCATAAACTTATGAATTAAATTTAGTTCTTTTAAT
* * **
57712117 GTTTCCATAAGGAAGATAATCATAGATTTATGAATTTGATTTAGTTCTTT
1 GTTTCCATAAGGAAGATAATCATAAACTTATGAATTAAATTTAGTTCTTT
57712167 AAAGGCATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.05
53 9 0.21
54 32 0.74
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (54 bp):
GTTTCCATAAGGAAGATAATCATAAACTTATGAATTAAATTTAGTTCTTTTAAT
Found at i:57715173 original size:18 final size:17
Alignment explanation
Indices: 57715152--57715190 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
57715142 TTATTAATAT
*
57715152 TATTAGTATTATTACCA
1 TATTACTATTATTACCA
57715169 CTATTACTATTATTACCA
1 -TATTACTATTATTACCA
57715187 TATT
1 TATT
57715191 GTTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTACTATTATTACCA
Found at i:57716743 original size:47 final size:48
Alignment explanation
Indices: 57716692--57716818 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 48
57716682 GAATTATGAG
* * *
57716692 GCATCTGAACTCATTGAGTTGCGTTCCGAGTTCACCTATGGATG-CAA
1 GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCAACTATGAATGTCAA
* * * *
57716739 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTT-AATTATGAATGTGAA
1 GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCAACTATGAATGTCAA
* *
57716786 -CACCTGAGCTCGTTGAGTTGCGTTCCGAGTTCA
1 GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCA
57716819 TTATGGGTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 35 0.52
47 32 0.48
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (48 bp):
GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCAACTATGAATGTCAA
Found at i:57727109 original size:29 final size:31
Alignment explanation
Indices: 57727077--57727155 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
57727067 ATGTTGATGA
*
57727077 TATTTTA-TAATTATTAATTAGATA-AATAT
1 TATTTTATTAATTATTAATAAGATATAATAT
* **
57727106 TATTTTATTAATATTTTAATAAGATATTTTAT
1 TATTTTATTAAT-TATTAATAAGATATAATAT
*
57727138 TATTTTATTATTTATTAA
1 TATTTTATTAATTATTAA
57727156 GTATAAAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.17
30 4 0.10
31 16 0.39
32 14 0.34
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
TATTTTATTAATTATTAATAAGATATAATAT
Found at i:57737309 original size:23 final size:23
Alignment explanation
Indices: 57737274--57737346 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
57737264 TATATAATAA
* *
57737274 ATATATATTTTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
57737297 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
57737320 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
57737341 ATATAT
1 ATATAT
57737347 TTTCAATTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.30
22 6 0.15
23 22 0.55
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:57737352 original size:20 final size:19
Alignment explanation
Indices: 57737298--57737355 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
57737288 TTTTTAATTA
57737298 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
57737316 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
57737337 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
57737356 GTGTATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 18 0.60
21 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:57737385 original size:40 final size:40
Alignment explanation
Indices: 57737341--57737421 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
57737331 AATTTTTATT
57737341 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
57737381 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
57737421 A
1 A
57737422 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:57738652 original size:56 final size:54
Alignment explanation
Indices: 57738539--57738689 Score: 171
Period size: 56 Copynumber: 2.7 Consensus size: 54
57738529 GACATAGCAC
*
57738539 GCCTCTCAACAGGGCTACATATGAGCATCCAG-ACCTAGCATGCATCACATTACCAT
1 GCCTCTCAACAGGGCTACATA--AGC-TCCAGAACCTAGCATGCACCACATTACCAT
* * *
57738595 GCCTCTCAACAGGGCTACATAAGCTCCCGAACCTAGCGTGTACCACATAATTA-CAT
1 GCCTCTCAACAGGGCTACATAAGCTCCAGAACCTAGCATGCACCAC---ATTACCAT
* * *
57738651 GCCTCTCAACGGGGCTACACAAGCTCCTGAACCTAGCAT
1 GCCTCTCAACAGGGCTACATAAGCTCCAGAACCTAGCAT
57738690 ATATCATGTT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
53 4 0.05
54 16 0.19
56 59 0.71
57 4 0.05
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (54 bp):
GCCTCTCAACAGGGCTACATAAGCTCCAGAACCTAGCATGCACCACATTACCAT
Found at i:57743644 original size:26 final size:26
Alignment explanation
Indices: 57743613--57743720 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57743603 TGAAATGCCC
*
57743613 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57743639 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
57743665 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
57743691 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57743717 ATCA
1 ATCA
57743721 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57747998 original size:16 final size:16
Alignment explanation
Indices: 57747973--57748004 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57747963 CATTCTTTAT
*
57747973 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
57747989 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
57748005 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:57748684 original size:27 final size:26
Alignment explanation
Indices: 57748636--57748767 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 26
57748626 GCGAGGCTGC
* *
57748636 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
57748663 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
57748689 CAGATATATGTGGCAGAGCCACCAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
57748716 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
57748743 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
57748768 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
26 8 0.08
27 87 0.89
28 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Done.