Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 186 of 425
Found at i:56314447 original size:8 final size:8
Alignment explanation
Indices: 56314402--56314568 Score: 50
Period size: 8 Copynumber: 21.5 Consensus size: 8
56314392 TGAATATACG
56314402 TATTATAT
1 TATTATAT
*
56314410 ATATTTTAT
1 -TATTATAT
*
56314419 AATTAT-T
1 TATTATAT
56314426 TACTTATAT
1 TA-TTATAT
56314435 T-TTAT-T
1 TATTATAT
56314441 ATATTATAT
1 -TATTATAT
56314450 TACTTCATAT
1 TA-TT-ATAT
* *
56314460 TTTTCTAT
1 TATTATAT
*
56314468 TATCATAT
1 TATTATAT
*
56314476 TAATATA-
1 TATTATAT
* *
56314483 TATTTTAA
1 TATTATAT
* *
56314491 CA-CATAT
1 TATTATAT
* *
56314498 CATTA-CT
1 TATTATAT
56314505 TATTAT-T
1 TATTATAT
56314512 TATTATAT
1 TATTATAT
*
56314520 TATGT-TTT
1 TAT-TATAT
* *
56314528 TATCACA-
1 TATTATAT
*
56314535 TAATAT-T
1 TATTATAT
56314542 TA-TATAT
1 TATTATAT
*
56314549 TTTTATAT
1 TATTATAT
56314557 TATTATAT
1 TATTATAT
56314565 TATT
1 TATT
56314569 TTACATTTTA
Statistics
Matches: 113, Mismatches: 29, Indels: 33
0.65 0.17 0.19
Matches are distributed among these distances:
6 4 0.04
7 35 0.31
8 54 0.48
9 15 0.13
10 5 0.04
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:56314469 original size:23 final size:23
Alignment explanation
Indices: 56314409--56314462 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 23
56314399 ACGTATTATA
56314409 TATATTTTA-TA-ATTATTTACT
1 TATATTTTATTATATTATTTACT
56314430 TATATTTTATTATATTATATTACT
1 TATATTTTATTATATTAT-TTACT
56314454 TCATATTTT
1 T-ATATTTT
56314463 TCTATTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 5 0.17
24 6 0.21
25 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (23 bp):
TATATTTTATTATATTATTTACT
Found at i:56314529 original size:40 final size:37
Alignment explanation
Indices: 56314485--56314559 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 37
56314475 TTAATATATA
56314485 TTTTAACACATATCATTACTTAT-TATTTATTATATTATGT
1 TTTTAACACATA--A-TACTTATATATTT-TTATATTATGT
* *
56314525 TTTTATCACATAATATTTATATATTTTTATATTAT
1 TTTTAACACATAATACTTATATATTTTTATATTAT
56314560 TATATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.47
38 6 0.19
40 11 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAACACATAATACTTATATATTTTTATATTATGT
Found at i:56314807 original size:21 final size:22
Alignment explanation
Indices: 56314773--56314816 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56314763 TATTTCAAAA
*
56314773 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
56314794 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
56314816 T
1 T
56314817 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:56320047 original size:24 final size:26
Alignment explanation
Indices: 56320009--56320062 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
56319999 AAAAATTTAT
56320009 AAATAAAATTGTTAAAT-TATAAATTA
1 AAATAAAATTGTTAAATGT-TAAATTA
*
56320035 AAAT-AAATT-TTAAATGTTAGATTA
1 AAATAAAATTGTTAAATGTTAAATTA
56320059 AAAT
1 AAAT
56320063 CCTCAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 6 0.23
26 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AAATAAAATTGTTAAATGTTAAATTA
Found at i:56321054 original size:99 final size:96
Alignment explanation
Indices: 56320945--56321120 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
56320935 GTATAGAGGT
*
56320945 GTCAGTGTAAGACCATGTCTGGGACATAGCATCGGAACGAAT-ATGTGA-GAGCTAGTGTAAGAC
1 GTCAGTGTAAGACCATGTCTAGGACATAGCAT-GG-AC--ATGATG-GATGAGCTAGTGTAAGAC
56321008 CATGTCTGGGACATGGCGTCGGCCTCGATTTCGATA
61 CATGTCTGGGACATGGCGTCGGCCTCGATTTCGATA
* * *
56321044 GTCAGTGTAAGACCATGTCTAGGACATGGCATTGACTTGATGGATGAGCTAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGTCTAGGACATAGCATGGACATGATGGATGAGCTAGTGTAAGACCATGT
56321109 CTGGGACATGGC
66 CTGGGACATGGC
56321121 ATCGACATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
95 3 0.04
96 35 0.49
97 2 0.03
98 1 0.01
99 30 0.42
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTAGGACATAGCATGGACATGATGGATGAGCTAGTGTAAGACCATGT
CTGGGACATGGCGTCGGCCTCGATTTCGATA
Found at i:56321116 original size:47 final size:48
Alignment explanation
Indices: 56320948--56321124 Score: 184
Period size: 49 Copynumber: 3.6 Consensus size: 48
56320938 TAGAGGTGTC
* *
56320948 AGTGTAAGACCATGTCTGGGACATAGCATCGGAACGAAT-ATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-AC--TTGATG-GATGAGCT
* * * *
56320998 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGA--TGGATGAGCT
* *
56321046 CAGTGTAAGACCATGTCTAGGACATGGCAT-TGACTTGATGGATGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGATGGATGAGCT
56321094 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
56321125 ACATTATACC
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
46 4 0.04
47 30 0.29
48 8 0.08
49 32 0.30
50 31 0.30
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGATGGATGAGCT
Found at i:56325326 original size:16 final size:17
Alignment explanation
Indices: 56325295--56325328 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56325285 CAATTCAGTC
*
56325295 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
56325312 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
56325328 C
1 C
56325329 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:56346067 original size:46 final size:46
Alignment explanation
Indices: 56346014--56346189 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
56346004 TATTTGGGCA
*
56346014 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * * *
56346060 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C-AAGCG
*
56346107 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* *
56346153 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56346190 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
Found at i:56346169 original size:93 final size:93
Alignment explanation
Indices: 56346010--56346181 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56346000 GGGATATTTG
* * *
56346010 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAG
56346075 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
56346103 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAG
56346168 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56346182 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56351388 original size:37 final size:37
Alignment explanation
Indices: 56351334--56351407 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
56351324 TAACTTGTTC
56351334 GTGTACATACCTATACCTCACGTAATATAGTCACATA
1 GTGTACATACCTATACCTCACGTAATATAGTCACATA
*
56351371 GTGTACATACCTGTACCTCACGTAATATAGTCACATA
1 GTGTACATACCTATACCTCACGTAATATAGTCACATA
56351408 CTTTTTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (37 bp):
GTGTACATACCTATACCTCACGTAATATAGTCACATA
Found at i:56357585 original size:44 final size:42
Alignment explanation
Indices: 56357531--56357651 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 42
56357521 TTCCGATATG
*
56357531 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATTG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
56357572 TGAGATTTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 T--GATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
56357617 TGATTTTCAT-TAAGACCCTGTCTGGGACAGTGGCA
1 TGATTTT-GTGTAAGACCATGTCTGGGACATTGGCA
56357652 CTAATATTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
41 1 0.01
42 24 0.34
43 11 0.15
44 31 0.44
45 4 0.06
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:56357644 original size:42 final size:43
Alignment explanation
Indices: 56357531--56357694 Score: 151
Period size: 42 Copynumber: 3.9 Consensus size: 43
56357521 TTCCGATATG
* *
56357531 TGATTTT-GTGTAAGACCATGTCTGGGACATTGGCATTG-ATT
1 TGATTTTCATGTAAGACCATGTCTGGGACATTGGCATAGTATT
* *
56357572 TGAGATTTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 T--GATTT-TCATGTAAGACCATGTCTGGGACATTGGCATAGTATT
* * *
56357617 TGATTTTCAT-TAAGACCCTGTCTGGGACAGTGGCACTAATATT
1 TGATTTTCATGTAAGACCATGTCTGGGACATTGGCA-TAGTATT
* * * *
56357660 TGA-TTACATGTAAGACCGTGTATGGGA-GTTGGCAT
1 TGATTTTCATGTAAGACCATGTCTGGGACATTGGCAT
56357695 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 34 0.32
43 34 0.32
44 31 0.30
45 4 0.04
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTTCATGTAAGACCATGTCTGGGACATTGGCATAGTATT
Found at i:56357661 original size:43 final size:42
Alignment explanation
Indices: 56357539--56357686 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
56357529 TGTGATTTTG
* **
56357539 TGTAAGACCATGTCTGGGACATTGGCAT--TGATTTGAGATTTATG
1 TGTAAGACCATGTCTGGGACAGTGGCATAAT-ATTT--GA-TTACA
* ** *
56357583 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATAATATTTGA-TTACA
*
56357626 T-TAAGACCCTGTCTGGGACAGTGGCACTAATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCA-TAATATTTGATTACA
* *
56357668 TGTAAGACCGTGTATGGGA
1 TGTAAGACCATGTCTGGGA
56357687 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.31
43 29 0.32
44 28 0.31
45 4 0.04
46 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATAATATTTGATTACA
Found at i:56374087 original size:46 final size:46
Alignment explanation
Indices: 56374037--56374212 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56374027 TGGTTGAGCA
56374037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56374083 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56374128 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56374176 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56374213 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56374193 original size:93 final size:93
Alignment explanation
Indices: 56374034--56374204 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56374024 GGATGGTTGA
* *
56374034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56374099 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56374127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56374192 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56374205 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56377173 original size:15 final size:15
Alignment explanation
Indices: 56377134--56377212 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
56377124 GTATCTTGGG
*
56377134 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
56377149 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56377164 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
56377178 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
56377193 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56377207 TTTCTT
1 TTTCTT
56377213 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56377197 original size:29 final size:29
Alignment explanation
Indices: 56377125--56377211 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
56377115 CATAGTATCG
* * * *
56377125 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
56377155 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
56377184 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
56377212 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:56379629 original size:46 final size:45
Alignment explanation
Indices: 56379579--56379744 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 45
56379569 TGGTTGAGCA
56379579 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
56379625 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
* **
56379665 --C-TAGGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56379708 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56379745 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
37 22 0.22
38 3 0.03
40 4 0.04
41 2 0.02
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.59
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56382634 original size:15 final size:15
Alignment explanation
Indices: 56382610--56382685 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
56382600 TCTTGGGTTT
* *
56382610 TTTATCCTGGATCTC
1 TTTATTCTGGATTTC
56382625 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
*
56382640 TTTATTCTGGGTTTC
1 TTTATTCTGGATTTC
*
56382655 TCTA-TCTTGGATTTC
1 TTTATTC-TGGATTTC
*
56382670 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
56382684 TT
1 TT
56382686 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.19
15 40 0.77
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:56382666 original size:30 final size:30
Alignment explanation
Indices: 56382598--56382684 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
56382588 CATAGTATCG
* * * *
56382598 TATCTTGGGTTT-TTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56382627 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56382657 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56382685 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 16 0.33
30 31 0.63
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56383046 original size:34 final size:33
Alignment explanation
Indices: 56382995--56383058 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
56382985 GTTTTACTTA
*
56382995 GGCCTTAGCCATATCAGTAACAGTAGCAGTCTG
1 GGCCTGAGCCATATCAGTAACAGTAGCAGTCTG
* * *
56383028 GGCCTGAGCCCATTTCAGTAATAGTATCAGT
1 GGCCTGAG-CCATATCAGTAACAGTAGCAGT
56383059 GAGGCCGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.27
34 19 0.73
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (33 bp):
GGCCTGAGCCATATCAGTAACAGTAGCAGTCTG
Found at i:56384969 original size:27 final size:28
Alignment explanation
Indices: 56384909--56384975 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 28
56384899 AAATTTGTAC
*
56384909 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTACGAGTTTGATCATAT
* *
56384937 AACACTAAGTGTACGAG-TTGATTATAT
1 AGCACTAAGTGTACGAGTTTGATCATAT
56384964 AGCACTAAGTGT
1 AGCACTAAGTGT
56384976 GCGGACTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTACGAGTTTGATCATAT
Found at i:56386630 original size:28 final size:27
Alignment explanation
Indices: 56386599--56386651 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56386589 ATAGGCCCAT
56386599 TGGGCCCACATGACCCACATAGCCCATG
1 TGGGCCCACATG-CCCACATAGCCCATG
* * *
56386627 TGGGCCTACATGCTCATATAGCCCA
1 TGGGCCCACATGCCCACATAGCCCA
56386652 CAAAGCGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.25, C:0.36, G:0.21, T:0.19
Consensus pattern (27 bp):
TGGGCCCACATGCCCACATAGCCCATG
Found at i:56388829 original size:28 final size:28
Alignment explanation
Indices: 56388760--56388858 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
56388750 GACAAGATTG
* * * *
56388760 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56388790 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56388818 GCACTAAGTGTGCGAG-CTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
56388845 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56388859 GACTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
30 18 0.28
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56388867 original size:27 final size:27
Alignment explanation
Indices: 56388789--56388869 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
56388779 AAAATTGTAC
*
56388789 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTT-ATTATAT
*
56388817 AGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTTATTATAT
56388844 AGCACTAAGTGTGCG-GACTTATTATA
1 AGCACTAAGTGTGCGAG-CTTATTATA
56388870 AGCTTTATGC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTTATTATAT
Found at i:56396397 original size:27 final size:28
Alignment explanation
Indices: 56396340--56396409 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56396330 AAATTTGTAC
**
56396340 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56396368 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56396395 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56396410 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56396418 original size:27 final size:27
Alignment explanation
Indices: 56396340--56396421 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56396330 AAATTTGTAC
* *
56396340 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56396368 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56396395 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56396422 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56399686 original size:28 final size:27
Alignment explanation
Indices: 56399623--56399692 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
56399613 ATAGTGAGTC
56399623 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
56399650 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56399678 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56399693 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56404394 original size:40 final size:42
Alignment explanation
Indices: 56404350--56404444 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
56404340 TATGAATAGA
*
56404350 ACTAAGTGTGCGATA-TG-GAATAGCTTTGGCTATATGAG-GC
1 ACTAAGTGTGCGATACTGAG-ATAGCTTCGGCTATATGAGTGC
* *
56404390 ACTAAGTGTGCGATACTGAGGTAGCTTCGGCTATTTGAGATTGC
1 ACTAAGTGTGCGATACTGAGATAGCTTCGGCTATATGAG--TGC
56404434 ACTAAGTGTGC
1 ACTAAGTGTGC
56404445 AGGATCATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 15 0.32
41 18 0.38
42 1 0.02
44 13 0.28
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (42 bp):
ACTAAGTGTGCGATACTGAGATAGCTTCGGCTATATGAGTGC
Found at i:56406829 original size:47 final size:47
Alignment explanation
Indices: 56406772--56407491 Score: 1161
Period size: 47 Copynumber: 15.3 Consensus size: 47
56406762 GTATGAGATA
* *
56406772 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56406819 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56406866 TATATCTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56406913 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56406960 GATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56407007 GATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56407054 GATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
56407101 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56407148 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56407195 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56407242 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56407289 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56407336 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56407383 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
56407430 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56407477 TATAAATGTGATAAG
1 TATATATGTGATAAG
56407492 TCCCGAAGGG
Statistics
Matches: 641, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 641 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:56407668 original size:37 final size:37
Alignment explanation
Indices: 56407609--56407691 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
56407599 CCGAGCTCTA
* *
56407609 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
56407646 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
56407683 AAGCCCCGA
1 AAGACCCGA
56407692 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:56415953 original size:28 final size:28
Alignment explanation
Indices: 56415885--56415984 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 28
56415875 GACAAGATTG
* * *
56415885 GCACTAAGTGTGCG-GTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56415914 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56415942 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56415971 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56415985 GATTCACTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 33 0.52
30 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56420632 original size:17 final size:17
Alignment explanation
Indices: 56420602--56420635 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56420592 CATACAAAAC
*
56420602 TTTTTGAAACTTATACA
1 TTTTTCAAACTTATACA
*
56420619 TTTTTCAAAGTTATACA
1 TTTTTCAAACTTATACA
56420636 GGTCACACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTTCAAACTTATACA
Found at i:56421823 original size:40 final size:40
Alignment explanation
Indices: 56421774--56421866 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
56421764 CTCGGTATCA
*
56421774 CACACTTAGTGCCCCATATAGCCGAAGCTA-TTCCAACTCG
1 CACACTTAGTGCCACATATAGCCGAAGCTATTTCCAACT-G
** * * *
56421814 CACACTTAGTGCCATTTTTAGCTGAAGCTATTTCGAACTG
1 CACACTTAGTGCCACATATAGCCGAAGCTATTTCCAACTG
*
56421854 TACACTTAGTGCC
1 CACACTTAGTGCC
56421867 GAACGTAGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 38 0.84
41 7 0.16
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (40 bp):
CACACTTAGTGCCACATATAGCCGAAGCTATTTCCAACTG
Found at i:56427422 original size:40 final size:40
Alignment explanation
Indices: 56427367--56427552 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
56427357 ATAACCACAA
* * *
56427367 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56427407 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56427447 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
56427487 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--ATCATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAAC-TC
*
56427526 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56427553 GTATCATTCA
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
38 12 0.09
39 17 0.13
40 106 0.79
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:56427484 original size:80 final size:79
Alignment explanation
Indices: 56427347--56427552 Score: 310
Period size: 80 Copynumber: 2.6 Consensus size: 79
56427337 TCTTTGGAAT
* * *
56427347 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
56427411 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
56427426 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
56427491 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
56427506 TTAGCCCGGATATAATCA-TAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
56427553 GTATCATTCA
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
78 9 0.08
79 22 0.19
80 85 0.73
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:56435645 original size:40 final size:40
Alignment explanation
Indices: 56435600--56435786 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
56435590 ATAACCACAA
* * *
56435600 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56435640 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56435680 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56435720 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACT-C
*
56435761 -CATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56435787 GTATCATTCA
Statistics
Matches: 136, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 10 0.07
40 123 0.90
41 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:56435684 original size:80 final size:79
Alignment explanation
Indices: 56435580--56435790 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 79
56435570 TCTTCGGAAT
** *
56435580 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
56435644 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
56435659 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
56435724 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
56435739 TTAGCCCGGATATAATCACTAC-CATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACT-CGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
56435791 CATTCAAATG
Statistics
Matches: 121, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
79 17 0.14
80 102 0.84
81 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:56437980 original size:20 final size:21
Alignment explanation
Indices: 56437955--56437994 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56437945 CACTTGGAAT
56437955 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
56437975 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
56437995 CCCTGTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:56439338 original size:49 final size:49
Alignment explanation
Indices: 56439283--56439403 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
56439273 GTCGATGTTG
* * * *
56439283 TGTCCCAGACAGGTCTTACACT-GACTTTCATATTTCGAG-G-CTGATGTCA
1 TGTCCCAGACAGGTCTTACACTAG-CTCTCATATATCG-GTGTC-AATGGCA
* *
56439332 TGTCCCAGGCAGGTCTTACACTAGCTCTCATCTATCGGTGTCAATGGCA
1 TGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGTCAATGGCA
56439381 TGTCCCAGACAGGTCTTACACTA
1 TGTCCCAGACAGGTCTTACACTA
56439404 ACACACAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.02
49 59 0.95
50 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGTCAATGGCA
Found at i:56439531 original size:46 final size:45
Alignment explanation
Indices: 56439423--56439596 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
56439413 AAGCTGACGC
* * *
56439423 CATGTCCCAGACAAGTCTTACACTAGCT-TGTATATCCCGA-GGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CATAT--C-ATGG-CGATG
* * *
56439471 CATGTCCCAAACATGTGTTACACTAGCTCTCATCTCAATGTCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATATC-ATGGCGATG
* * * * *
56439517 CATGTCCCATACATGTCTTACACTGGATCTCATATCGTGGCTGTTG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATATCATGGC-GATG
* *
56439563 CATGTCCCAGACATGTCTTACACTAGCTCACATA
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATA
56439597 CCACCCAATG
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 3 0.03
46 71 0.68
47 1 0.01
48 28 0.27
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATATCATGGCGATG
Found at i:56444630 original size:39 final size:39
Alignment explanation
Indices: 56444576--56444768 Score: 334
Period size: 39 Copynumber: 5.0 Consensus size: 39
56444566 AAGACACTGA
56444576 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
56444615 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
56444654 AAATATATCCGGGCT-AAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56444692 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
56444731 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
56444769 ATAATATAAT
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 37 0.25
39 110 0.75
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:56444676 original size:77 final size:78
Alignment explanation
Indices: 56444576--56444776 Score: 334
Period size: 77 Copynumber: 2.6 Consensus size: 78
56444566 AAGACACTGA
* *
56444576 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCA
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCA
56444641 GGCTTCGTGCTGG
66 GGCTTCGTGCTGG
*
56444654 AAATATATCCGGGCT-AAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCA
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCA
56444718 GGCTTCGTGCTGG
66 GGCTTCGTGCTGG
* *
56444731 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCT-GATAATATA
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGA-AATATA
56444777 ATTTCGGGTT
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
77 75 0.65
78 40 0.35
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (78 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCA
GGCTTCGTGCTGG
Found at i:56450351 original size:40 final size:40
Alignment explanation
Indices: 56450296--56450499 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
56450286 TGAATGATAC
* * * *
56450296 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
56450336 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56450376 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
56450416 CCGGGCTAAGACCAGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
56450456 CCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56450496 CCGG
1 CCGG
56450500 CTAAATTCCG
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 142 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:56450434 original size:80 final size:80
Alignment explanation
Indices: 56450292--56450503 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
56450282 CAATTGAATG
* * * * *
56450292 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCAGAAGGC
56450356 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
56450372 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCAGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCAGAAGGCA
56450437 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
56450452 ATACCCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
56450504 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 110 0.93
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCAGAAGGCA
TTTGTGCGAGTTGCT
Found at i:56459815 original size:30 final size:30
Alignment explanation
Indices: 56459779--56459839 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56459769 TATTTAATAC
*
56459779 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
56459809 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
56459839 A
1 A
56459840 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:56463007 original size:51 final size:51
Alignment explanation
Indices: 56462922--56463046 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 51
56462912 CGGATGCTCG
* * * * *
56462922 GTGGGTTGCACATAATACCACCCTTGTAGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCTTGCACATAGTACCACACTTGTAGCCAAAGCTACATT-TTACACAAA
* *
56462973 GTGGCCTT-CACATAGTACCACACTTGT-GACCAAAGCTATATTTTACACATA
1 GTGG-CTTGCACATAGTACCACACTTGTAG-CCAAAGCTACATTTTACACAAA
*
56463024 GTGGCTTGCACTTAGTACCACAC
1 GTGGCTTGCACATAGTACCACAC
56463047 ATGTCATCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
50 6 0.10
51 54 0.87
52 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
GTGGCTTGCACATAGTACCACACTTGTAGCCAAAGCTACATTTTACACAAA
Found at i:56463135 original size:50 final size:51
Alignment explanation
Indices: 56463071--56463200 Score: 154
Period size: 52 Copynumber: 2.5 Consensus size: 51
56463061 GTCGGGTATG
* * * **
56463071 CATAGTAGTCTGCACTTAGTACTACAGATGCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCTGAAACA
* * * *
56463121 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AAACCATCTGAAACA
*
56463173 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
56463201 TGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 31 0.46
52 36 0.54
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCTGAAACA
Found at i:56466273 original size:22 final size:22
Alignment explanation
Indices: 56466248--56466323 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
56466238 AGATATGTAT
56466248 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
56466270 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
56466294 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
56466317 ATGTGAT
1 ATGTGAT
56466324 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:56466298 original size:25 final size:25
Alignment explanation
Indices: 56466270--56466348 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
56466260 CGAATGGCCA
56466270 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
56466295 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
*
56466317 ATGTGATGAATGTGAAAGTATATAT
1 ATGTGATGAATGTGAAAGTGTATAT
56466342 ATGTGAT
1 ATGTGAT
56466349 AGGGCCGAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 7 0.18
25 15 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:56466298 original size:47 final size:47
Alignment explanation
Indices: 56466245--56466539 Score: 491
Period size: 47 Copynumber: 6.3 Consensus size: 47
56466235 ACAAGATATG
56466245 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
56466292 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
56466339 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
56466386 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
56466433 TATATGTGATAGGGCCGAGCGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
56466480 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
56466527 TAAATGTGATAAG
1 TATATGTGATAAG
56466540 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:56466394 original size:25 final size:25
Alignment explanation
Indices: 56466366--56466442 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
56466356 AGTGGCCAAC
56466366 GTGATGAATGTGAAAGTGTATATAT
1 GTGATGAATGTGAAAGTGTATATAT
* * ***
56466391 GTGAT-AAGGCCG-AA-TGGCCA-AT
1 GTGATGAATG-TGAAAGTGTATATAT
*
56466413 GTGATGAATGTGAAAGTATATATAT
1 GTGATGAATGTGAAAGTGTATATAT
56466438 GTGAT
1 GTGAT
56466443 AGGGCCGAGC
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 7 0.19
25 13 0.36
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (25 bp):
GTGATGAATGTGAAAGTGTATATAT
Found at i:56473388 original size:24 final size:24
Alignment explanation
Indices: 56473356--56473403 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56473346 CTTATCATGA
56473356 GTACCTAAACTGATCCATAACATT
1 GTACCTAAACTGATCCATAACATT
56473380 GTACCTAAACTGATCCATAACATT
1 GTACCTAAACTGATCCATAACATT
56473404 TCTTACATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
GTACCTAAACTGATCCATAACATT
Found at i:56478304 original size:79 final size:80
Alignment explanation
Indices: 56478113--56478347 Score: 347
Period size: 79 Copynumber: 3.0 Consensus size: 80
56478103 TTCGATGATG
* * *
56478113 TCCGGGCTAAG-T-CGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
56478175 TGTGCGAGTTACTAAA
65 TGTGCGAGCTACTAAA
*
56478191 TCCGGACTAAGATCCGAAGGCATTTCTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
56478256 GTGCGAG-TACTAAA
66 GTGCGAGCTACTAAA
*
56478270 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCAT
56478333 TTGTGCGAGCTACTA
64 TTGTGCGAGCTACTA
56478348 TAACCGGGCT
Statistics
Matches: 145, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
78 11 0.08
79 72 0.50
80 56 0.39
81 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAA
Found at i:56478367 original size:119 final size:119
Alignment explanation
Indices: 56478113--56478394 Score: 353
Period size: 119 Copynumber: 2.4 Consensus size: 119
56478103 TTCGATGATG
* *
56478113 TCCGGGCTAAG-T-CGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGT-ACTATATCCGGACTAAGATCCGAAGGCATT
*
56478175 TGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTCTGCAAGTTACTAAA
64 TGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTCTGCAAGCTACTAAA
*
56478231 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTATATCCGGACTAAGATCCGAAGGCATTTG
* *
56478296 TGCGAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA
66 TGCGAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCATTTCTGCAAGCTACTA-AA
* * * **
56478351 -CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGCTATATCCGG
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTA-CTATATCCGG
56478395 TTAAACTCCG
Statistics
Matches: 144, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
118 12 0.08
119 101 0.70
120 24 0.17
121 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTACTATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTCTGCAAGCTACTAAA
Found at i:56478375 original size:40 final size:40
Alignment explanation
Indices: 56478113--56478347 Score: 338
Period size: 40 Copynumber: 6.0 Consensus size: 40
56478103 TTCGATGATG
* * * *
56478113 TCCGGGCTAAG-T-CGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
56478151 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56478191 TCCGGACTAAGATCCGAAGGCATTTCTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
56478231 TCCGGACTAAGATCCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
56478270 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
56478310 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
56478348 TAACCGGGCT
Statistics
Matches: 182, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 10 0.05
39 41 0.23
40 121 0.66
41 10 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56478389 original size:40 final size:40
Alignment explanation
Indices: 56478244--56478394 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
56478234 GGACTAAGAT
**
56478244 CCGAAGGCATTTGTGCGAG-TACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
56478283 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
56478323 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
56478363 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
56478395 TTAAACTCCG
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
39 22 0.22
40 73 0.73
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:56486552 original size:40 final size:40
Alignment explanation
Indices: 56486328--56486524 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 40
56486318 TCGAATGATG
* * * *
56486328 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
56486367 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
56486407 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
56486447 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
56486487 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
56486525 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 11 0.07
40 128 0.86
41 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56486566 original size:40 final size:40
Alignment explanation
Indices: 56486380--56486571 Score: 121
Period size: 40 Copynumber: 4.8 Consensus size: 40
56486370 GGACTAAGAT
** *
56486380 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
56486420 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
56486460 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
56486500 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
56486540 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
56486572 TTAAACTCCG
Statistics
Matches: 141, Mismatches: 7, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.94
41 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:56486571 original size:120 final size:119
Alignment explanation
Indices: 56486328--56486559 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 119
56486318 TCGAATGATG
* *
56486328 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
* **
56486393 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
56486447 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGCA
* * *
56486509 TTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
62 TTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
56486560 AGCTATATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
119 12 0.12
120 73 0.75
121 12 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:56492155 original size:40 final size:40
Alignment explanation
Indices: 56492028--56492157 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56492018 ATGCTGGAAA
* *
56492028 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
56492068 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56492108 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56492148 TTATATCCGG
1 TTATATCCGG
56492158 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56495422 original size:46 final size:46
Alignment explanation
Indices: 56495355--56495525 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
56495345 TGTAACCCGC
* *
56495355 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * ** *
56495401 CCATAAGTGAACTCGGACTCAACTCAACGCGGATGCCTA-GTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACG-AG-TTCGGACGTTCGCAT
* * *
56495447 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
56495489 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56495526 TGCCAAATCC
Statistics
Matches: 101, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.04
42 4 0.04
43 22 0.22
44 4 0.04
45 30 0.30
46 32 0.32
47 4 0.04
48 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:56497923 original size:30 final size:30
Alignment explanation
Indices: 56497879--56497967 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56497869 CAAAGATAAC
56497879 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56497908 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56497938 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56497968 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56497927 original size:15 final size:15
Alignment explanation
Indices: 56497879--56497958 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56497869 CAAAGATAAC
*
56497879 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56497893 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56497908 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56497923 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56497938 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56497953 AAGAAA
1 AAGAAA
56497959 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56497967 original size:15 final size:15
Alignment explanation
Indices: 56497890--56497967 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56497880 AGAAAACCGA
56497890 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56497905 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56497919 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56497934 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56497950 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56497965 ATA
1 ATA
56497968 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56501030 original size:45 final size:46
Alignment explanation
Indices: 56500882--56501054 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 46
56500872 TGTAACCCGC
* * *
56500882 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGATCGCAT
* **
56500928 CCATAAGTGAACTCGGACTCAACTCAACGAG--CGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CGA-TCGCAT
* *
56500976 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGATCGCAT
56501018 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56501055 TGCCCAAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 6 0.06
45 52 0.49
46 33 0.31
47 6 0.06
48 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGATCGCAT
Found at i:56501044 original size:90 final size:92
Alignment explanation
Indices: 56500890--56501058 Score: 288
Period size: 90 Copynumber: 1.8 Consensus size: 92
56500880 GCCCATAAGT
* *
56500890 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56500955 CGAG-CGGATGCCTAGTTACATCTCAC
66 CGAGTCGGATGCCTAGTTACATCTCAC
*
56500981 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
56501045 CGAGTTCGGATGCC
66 CGAG-TCGGATGCC
56501059 CAAATCCTAG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 37 0.51
91 28 0.38
92 8 0.11
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTCGGATGCCTAGTTACATCTCAC
Found at i:56503354 original size:20 final size:20
Alignment explanation
Indices: 56503329--56503366 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56503319 GTTTATTCGC
*
56503329 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
56503349 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
56503367 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:56505023 original size:28 final size:28
Alignment explanation
Indices: 56504991--56505059 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56504981 GCGTAGATCA
56504991 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56505019 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56505047 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56505060 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56511355 original size:20 final size:20
Alignment explanation
Indices: 56511330--56511367 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56511320 GTTTATTCGC
*
56511330 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
56511350 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
56511368 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:56513027 original size:28 final size:28
Alignment explanation
Indices: 56512995--56513063 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56512985 GCGTAGATCA
56512995 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56513023 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56513051 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56513064 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56514372 original size:30 final size:30
Alignment explanation
Indices: 56514328--56514416 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56514318 CAAAGATAAC
56514328 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56514357 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56514387 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56514417 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56514376 original size:15 final size:15
Alignment explanation
Indices: 56514328--56514407 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56514318 CAAAGATAAC
*
56514328 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56514342 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56514357 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56514372 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56514387 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56514402 AAGAAA
1 AAGAAA
56514408 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56514416 original size:15 final size:15
Alignment explanation
Indices: 56514339--56514416 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56514329 AGAAAACCGA
56514339 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56514354 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56514368 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56514383 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56514399 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56514414 ATA
1 ATA
56514417 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56517165 original size:80 final size:80
Alignment explanation
Indices: 56517081--56517229 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
56517071 TATGGTAACC
* * * *
56517081 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56517145 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
56517161 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56517226 CCGG
66 CCGG
56517230 TATAATTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56517171 original size:40 final size:39
Alignment explanation
Indices: 56517122--56517229 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
56517112 ATCACGATTT
** *
56517122 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
56517162 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
*
56517202 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56517230 TATAATTTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 58 0.97
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:56525203 original size:39 final size:38
Alignment explanation
Indices: 56525145--56525326 Score: 161
Period size: 39 Copynumber: 4.6 Consensus size: 38
56525135 CCGCACCAAG
* * *
56525145 GCCTACGGGACTTAACCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-A-GACTTGCACAAAT
* * *
56525184 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TA-GACTTGCACAAAT
* *
56525224 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAG-ACTTGCACAAAT
* * *
56525263 GCCTTCGGGTCTTAACCCGGATATA-ATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAGACTTGCA-CA-AA-T
* *
56525303 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56525327 CATTCAATTT
Statistics
Matches: 118, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.03
38 3 0.03
39 58 0.49
40 53 0.45
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGTCTTAGCCCGGATATAGACTTGCACAAAT
Found at i:56525219 original size:79 final size:79
Alignment explanation
Indices: 56525136--56525285 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
56525126 TATGGTAACC
* *
56525136 CGCACCAAGGCCTACGGGACTTAACCCGGATAT--CACGATTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCAC--TAGCACAAATGCCTTCGGGTCTTAA
56525199 CCCGGATAGAATGACT
64 CCCGGATAGAATGACT
* * * * * *
56525215 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCACTAGCACAAATGCCTTCGGGTCTTAACC
56525280 CGGATA
66 CGGATA
56525286 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 58 0.95
81 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCACTAGCACAAATGCCTTCGGGTCTTAACC
CGGATAGAATGACT
Found at i:56525309 original size:79 final size:79
Alignment explanation
Indices: 56525176--56525326 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
56525166 TATCACGATT
* *
56525176 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
56525241 CGGATATAGCACTA
66 CGGATATAGCACTA
* * ** * *
56525255 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
56525318 CCCGGATAT
64 CCCGGATAT
56525327 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCACTA
Found at i:56525322 original size:40 final size:39
Alignment explanation
Indices: 56525176--56525326 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 39
56525166 TATCACGATT
* *
56525176 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCAC-CA
*
56525216 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCACCA
* ***
56525255 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-AGCACCA
* * *
56525295 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
56525327 CATTCAATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.03
39 31 0.33
40 59 0.62
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCACCA
Found at i:56534590 original size:40 final size:40
Alignment explanation
Indices: 56534473--56534679 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
56534463 TGAATGATAC
*
56534473 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
56534513 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* *
56534552 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
56534592 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
56534632 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
56534672 CC-GGCTAA
1 CCGGGCTAA
56534680 ATTCCGAAGA
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 44 0.31
40 97 0.68
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:56537353 original size:14 final size:13
Alignment explanation
Indices: 56537326--56537351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56537316 AATTCGAGTC
56537326 AAAAAAATATTTT
1 AAAAAAATATTTT
56537339 AAAAAAATATTTT
1 AAAAAAATATTTT
56537352 TAGTGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAAATATTTT
Found at i:56537389 original size:15 final size:15
Alignment explanation
Indices: 56537357--56537385 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56537347 ATTTTTAGTG
56537357 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56537372 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56537386 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56543134 original size:27 final size:28
Alignment explanation
Indices: 56543078--56543141 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
56543068 AAATTTGTAC
56543078 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56543106 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56543133 AGCACTAAG
1 AGCACTAAG
56543142 CGTGTGGACC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56572757 original size:40 final size:40
Alignment explanation
Indices: 56572634--56572759 Score: 121
Period size: 40 Copynumber: 3.1 Consensus size: 40
56572624 CTGGAAATTA
* * * * * *
56572634 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTAT
* * ** *
56572674 ATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGA-CATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTAT
56572714 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTAT
56572754 ATCCGG
1 ATCCGG
56572760 TTATGTTCCG
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 2 0.03
40 65 0.97
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTAT
Found at i:56584141 original size:40 final size:40
Alignment explanation
Indices: 56584097--56584225 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
56584087 TGCTGGAAAT
* * *
56584097 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
56584137 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
56584177 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
56584217 TATATCCGG
1 TATATCCGG
56584226 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:56593046 original size:40 final size:40
Alignment explanation
Indices: 56593002--56593130 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
56592992 TGCTGGAAAT
* * *
56593002 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
56593042 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
56593082 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
56593122 TATATCCGG
1 TATATCCGG
56593131 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:56595844 original size:46 final size:46
Alignment explanation
Indices: 56595777--56595902 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
56595767 TGTAACCCGC
* * *
56595777 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
56595823 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
56595869 CCATAAGTGAACTCGGACTCGACTCAACGAGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
56595903 GGATGCCCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:56603537 original size:46 final size:46
Alignment explanation
Indices: 56603484--56603659 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56603474 TATTTGGGCA
56603484 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
56603530 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
56603577 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
56603623 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56603660 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:56603639 original size:93 final size:93
Alignment explanation
Indices: 56603480--56603651 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56603470 GGGATATTTG
* *
56603480 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56603545 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
56603573 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56603638 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56603652 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56615887 original size:6 final size:6
Alignment explanation
Indices: 56615876--56615912 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
56615866 TTCAAACTAC
56615876 TTTTTA TTTTTA TTTTTTA TTTTTA TATTTTA TTTTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA T-TTTTA TTTTT
56615913 TAGTAGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:56615892 original size:7 final size:7
Alignment explanation
Indices: 56615876--56615914 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
56615866 TTCAAACTAC
56615876 TTTTTA-
1 TTTTTAT
56615882 TTTTTAT
1 TTTTTAT
56615889 TTTTTA-
1 TTTTTAT
56615895 TTTTTAT
1 TTTTTAT
*
56615902 ATTTTAT
1 TTTTTAT
56615909 TTTTTA
1 TTTTTA
56615915 GTAGATTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:56615894 original size:13 final size:13
Alignment explanation
Indices: 56615876--56615912 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
56615866 TTCAAACTAC
56615876 TTTTTATTTTTAT
1 TTTTTATTTTTAT
56615889 TTTTTATTTTTAT
1 TTTTTATTTTTAT
*
56615902 ATTTTATTTTT
1 TTTTTATTTTT
56615913 TAGTAGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:56622739 original size:36 final size:36
Alignment explanation
Indices: 56622693--56622773 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
56622683 TCCAACAAGT
*
56622693 AAGTTTGAAAATTTAATAAATTAATAATTATGGGTC
1 AAGTTTGAAAATTTAATAAATTAATAACTATGGGTC
*
56622729 AAGTTTGAAAATTTAATAAATTAATAACTATGGTTC
1 AAGTTTGAAAATTTAATAAATTAATAACTATGGGTC
*
56622765 AAGTGTGAA
1 AAGTTTGAA
56622774 TTTAGAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (36 bp):
AAGTTTGAAAATTTAATAAATTAATAACTATGGGTC
Found at i:56624096 original size:47 final size:46
Alignment explanation
Indices: 56624045--56624215 Score: 184
Period size: 47 Copynumber: 3.7 Consensus size: 46
56624035 ATTTCCGTAC
* *
56624045 AAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTTCTGTAT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTGT-T
*
56624092 AAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTTCTGTGT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTGT-T
* * * * * * *
56624139 AAAACTATATCTGGGATATGGCATCAGTATGATATGTGATCCATG-T
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTC-TGTT
* *
56624185 AAGACCATGGCT-GGACTATGGCTTCGGTGTG
1 AAGACCATAGCTGGGA-TATGGCATCGGTGTG
56624216 TGATATTTGA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
45 3 0.03
46 21 0.20
47 79 0.75
48 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (46 bp):
AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTTCTGTT
Found at i:56625528 original size:15 final size:15
Alignment explanation
Indices: 56625496--56625524 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56625486 ATTTTCAGTG
56625496 TTTATCATGTGTGAA
1 TTTATCATGTGTGAA
56625511 TTTAT-ATGTGTGAA
1 TTTATCATGTGTGAA
56625525 ATTTTCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATCATGTGTGAA
Found at i:56629367 original size:20 final size:20
Alignment explanation
Indices: 56629339--56629376 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56629329 CTAGGAACTA
56629339 TGTGATCTGAGCTCATGACT
1 TGTGATCTGAGCTCATGACT
* *
56629359 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
56629377 TATATCTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGACT
Found at i:56630088 original size:33 final size:35
Alignment explanation
Indices: 56630051--56630148 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
56630041 ATATTTATAT
56630051 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
56630084 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
56630119 --AAATATTTAAAATTTATATTTTATATATTA
1 TTAAATATTTAAAA--TATAATTTATATATTA
56630149 AAATATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.13
35 11 0.21
37 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:56630142 original size:31 final size:29
Alignment explanation
Indices: 56630038--56630155 Score: 75
Period size: 30 Copynumber: 3.8 Consensus size: 29
56630028 TTACAAGTAT
56630038 TTAATATTTATAT-TT-AAATATTTAAAA
1 TTAATATTTATATATTAAAATATTTAAAA
*
56630065 -T-ATAATTTATATATTCTAATTAAATTTTATAAATAA
1 TTAAT-ATTTATATA-T-T-A--AAATATT-T-AA-AA
56630101 TTAATATTTAT-TACTTAAAAATATTTAAAA
1 TTAATATTTATATA-TT-AAAATATTTAAAA
*
56630131 TTTATATTTTATATATTAAAATATT
1 TTAATA-TTTATATATTAAAATATT
56630156 AATAAGAAGT
Statistics
Matches: 72, Mismatches: 4, Indels: 27
0.70 0.04 0.26
Matches are distributed among these distances:
25 2 0.03
26 9 0.12
28 1 0.01
29 1 0.01
30 15 0.21
31 9 0.12
32 3 0.04
33 12 0.17
34 1 0.01
35 5 0.07
36 5 0.07
37 7 0.10
38 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAATATTTATATATTAAAATATTTAAAA
Found at i:56631436 original size:43 final size:43
Alignment explanation
Indices: 56631292--56631446 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
56631282 GGTTATCAAG
* * *
56631292 ATGTGATTACATGTAAGACCATGTCTGGGGCATTGGCATTGTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT-T
* *
56631336 -TGAGATTACGTGTAAGACCA-AGTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATA-TCTGGGACATTGGCATCGTT
* * * * *
56631378 A-GTTGATTTCGTGTAAGACCCTATCTGGGACAGTGACATCGTT
1 ATG-TGATTACATGTAAGACCATATCTGGGACATTGGCATCGTT
*
56631421 ATGTGATAACATGTAAGACCATATCT
1 ATGTGATTACATGTAAGACCATATCT
56631447 AGGATATGGC
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.02
43 88 0.96
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTT
Found at i:56634703 original size:40 final size:40
Alignment explanation
Indices: 56634649--56634847 Score: 282
Period size: 40 Copynumber: 5.0 Consensus size: 40
56634639 GGATTTAACT
* *
56634649 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGCCC
56634689 GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
56634729 GGATATAGTAACTCGCACGAATGCCTT-GGGACTTAGCCC
1 GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
*
56634768 -GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
* * * *
56634807 GGA-ACTAGTCACTAGCGCAAATGCCTTC-GGACTTAGCCC
1 GGATA-TAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
56634846 GG
1 GG
56634848 TTATCATCCA
Statistics
Matches: 149, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 25 0.17
39 39 0.26
40 85 0.57
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
GGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCC
Found at i:56634792 original size:78 final size:77
Alignment explanation
Indices: 56634649--56634846 Score: 272
Period size: 78 Copynumber: 2.5 Consensus size: 77
56634639 GGATTTAACT
* * *
56634649 GGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATGCC
1 GGATATAG-TACTCGCACGAATGCCTT-GGGACTTAGCCC-GATATAGTAACTCGCACAAATGCC
56634714 TTCGGGACTTAGCCC
63 TTCGGGACTTAGCCC
56634729 GGATATAGTAACTCGCACGAATGCCTTGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTT
1 GGATATAGT-ACTCGCACGAATGCCTTGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTT
56634794 CGGGACTTAGCCC
65 CGGGACTTAGCCC
* * * *
56634807 GGA-ACTAGTCACTAGCGCAAATGCCTTCGGACTTAGCCCG
1 GGATA-TAGT-ACTCGCACGAATGCCTTGGGACTTAGCCCG
56634847 GTTATCATCC
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
77 1 0.01
78 71 0.66
79 12 0.11
80 24 0.22
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (77 bp):
GGATATAGTACTCGCACGAATGCCTTGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTC
GGGACTTAGCCC
Found at i:56642809 original size:40 final size:40
Alignment explanation
Indices: 56642747--56642964 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
56642737 AAGCCAAGTA
* * * *
56642747 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
56642786 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56642826 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56642866 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56642906 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56642946 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56642965 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56644289 original size:53 final size:53
Alignment explanation
Indices: 56644226--56644331 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
56644216 ATGCATTCTA
* *
56644226 AAGCTGCTAGCTATTTAATTAACTTAGTTAATATAGTTTAGTCTAAATAAATG
1 AAGCTACTAGCTATTTAATTAACTTAGTTAATATAGTTTACTCTAAATAAATG
56644279 AAGCTACTAGCTATTTAATTAACTTAGTTAATATAGTTTACTCTAAATAAATG
1 AAGCTACTAGCTATTTAATTAACTTAGTTAATATAGTTTACTCTAAATAAATG
56644332 TGTCTAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (53 bp):
AAGCTACTAGCTATTTAATTAACTTAGTTAATATAGTTTACTCTAAATAAATG
Found at i:56651045 original size:34 final size:34
Alignment explanation
Indices: 56650986--56651050 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
56650976 TTTCCGTTAA
* *
56650986 GGCCTAAGCCCATTATAGCACCAGTATCAGTGTG
1 GGCCTAAGCCCATTATAGCAACAGTAACAGTGTG
* * *
56651020 GGCCTTAGCCCATTTTAGTAACAGTAACAGT
1 GGCCTAAGCCCATTATAGCAACAGTAACAGT
56651051 ACAGATATGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (34 bp):
GGCCTAAGCCCATTATAGCAACAGTAACAGTGTG
Found at i:56656758 original size:29 final size:29
Alignment explanation
Indices: 56656725--56656856 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
56656715 GTGACGAGAT
*
56656725 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
56656754 TGGCAGTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
56656783 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
56656812 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
56656841 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
56656857 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:56664843 original size:53 final size:53
Alignment explanation
Indices: 56664665--56664871 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
56664655 ATTAGAGTTT
** * * *
56664665 AAGGATACCA-AGTAAGACCATGCCAAGGTATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATA-TAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
56664719 AAGGAAATCATGTAAGACCATGTCAAGACACGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
56664774 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
56664827 AAGGATACCACATAAGACCATGCCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTT
56664872 TAAAAAGAAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 39 0.32
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:56677762 original size:28 final size:27
Alignment explanation
Indices: 56677700--56677768 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 27
56677690 TAGTGAGTCT
56677700 GCACACTTAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTATATAATCAACTC
56677727 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATC-AACTC
56677755 GCACACTTAGTGCT
1 GCACACTTAGTGCT
56677769 GTACAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
GCACACTTAGTGCTATATAATCAACTC
Found at i:56685410 original size:27 final size:28
Alignment explanation
Indices: 56685353--56685422 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56685343 AAATTTGTAC
**
56685353 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56685381 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56685408 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56685423 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56685431 original size:27 final size:27
Alignment explanation
Indices: 56685353--56685434 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56685343 AAATTTGTAC
* *
56685353 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56685381 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56685408 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56685435 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56689912 original size:28 final size:28
Alignment explanation
Indices: 56689847--56689947 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56689837 ATAGTGAATC
*
56689847 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56689876 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56689904 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56689934 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56689948 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56697836 original size:28 final size:28
Alignment explanation
Indices: 56697771--56697871 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56697761 ATAGTGAATC
*
56697771 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56697800 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56697828 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56697858 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56697872 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56702249 original size:15 final size:15
Alignment explanation
Indices: 56702229--56702284 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
56702219 GTACCTTGGG
56702229 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
56702244 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56702259 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
56702274 TTTCTTTATTC
1 TTTCTTTATTC
56702285 AGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56704768 original size:92 final size:93
Alignment explanation
Indices: 56704660--56704830 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
56704650 ACTAGGATTT
* *
56704660 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56704724 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
56704752 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56704817 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56704831 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 45 0.60
93 30 0.40
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56704778 original size:47 final size:47
Alignment explanation
Indices: 56704659--56704833 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 47
56704649 CACTAGGATT
*
56704659 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAA
* *
56704707 T-G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAA
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA
*
56704749 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 -T-GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AA
* *
56704800 -CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
56704834 TATGGGCGGG
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 6 0.05
43 1 0.01
44 2 0.02
45 30 0.27
46 30 0.27
47 30 0.27
48 5 0.05
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (47 bp):
TGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA
Found at i:56704829 original size:46 final size:45
Alignment explanation
Indices: 56704665--56704838 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
56704655 GATTTGGCAT
* *
56704665 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
56704710 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
56704755 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
56704803 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56704839 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:56707779 original size:15 final size:15
Alignment explanation
Indices: 56707741--56707784 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
56707731 CATAGTATCG
* *
56707741 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
56707756 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
56707771 TATCTTGGATTTCT
1 TATCTTGGATTTCT
56707785 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:56707806 original size:30 final size:30
Alignment explanation
Indices: 56707741--56707797 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
56707731 CATAGTATCG
*
56707741 TATCTTGGGTTTCTTTATTCTGGATTTCTC
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
56707771 TATCTTGGATTTCTTTATTC-GG-TTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56707798 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 19 0.73
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56715179 original size:20 final size:20
Alignment explanation
Indices: 56715154--56715212 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
56715144 TAAATATGGT
56715154 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
56715174 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
56715194 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
56715213 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Done.