Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 190 of 316
Found at i:61392728 original size:40 final size:39
Alignment explanation
Indices: 61392630--61392852 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
61392620 TCCTCGTTCA
* * * *
61392630 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61392669 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61392708 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61392748 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61392788 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61392829 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61392853 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61392812 original size:80 final size:79
Alignment explanation
Indices: 61392628--61392852 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
61392618 GCTCCTCGTT
* * * * *
61392628 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
61392692 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
61392707 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
61392772 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
61392787 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
61392851 GA
63 GA
61392853 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:61392861 original size:41 final size:41
Alignment explanation
Indices: 61392784--61392861 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61392774 TTTGTATCTC
* * *
61392784 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61392825 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61392862 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61410569 original size:40 final size:40
Alignment explanation
Indices: 61410525--61410786 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
61410515 GCTCCTCGTT
* *
61410525 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
61410565 CAAATGCTTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61410605 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61410644 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61410683 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
61410722 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
61410763 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61410787 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.63
40 62 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61418589 original size:40 final size:40
Alignment explanation
Indices: 61418545--61418806 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
61418535 GCTCCTCGTT
* *
61418545 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61418585 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61418625 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61418664 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61418703 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
61418742 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
61418783 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61418807 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61427211 original size:27 final size:27
Alignment explanation
Indices: 61427181--61427358 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
61427171 ATATTGAGTC
* *
61427181 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61427208 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61427235 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
61427263 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61427290 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
61427317 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
61427344 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61427359 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61427320 original size:82 final size:81
Alignment explanation
Indices: 61427207--61427357 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
61427197 TATAATCAAC
* *
61427207 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
61427272 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
61427289 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
61427353 AGTGC
65 AGTGC
61427358 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:61435273 original size:27 final size:27
Alignment explanation
Indices: 61435243--61435420 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
61435233 ATATTGAGTC
* *
61435243 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61435270 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61435297 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
61435325 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61435352 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
61435379 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
61435406 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61435421 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61435382 original size:82 final size:81
Alignment explanation
Indices: 61435269--61435419 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
61435259 TATAATCAAC
* *
61435269 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
61435334 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
61435351 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
61435415 AGTGC
65 AGTGC
61435420 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:61446083 original size:27 final size:27
Alignment explanation
Indices: 61446045--61446313 Score: 330
Period size: 27 Copynumber: 10.0 Consensus size: 27
61446035 TGGGCCACGT
* *
61446045 ATGACCGAAATA-CCCTCATAGGGTAAA
1 ATGACTGAAATACCCCT-ATAAGGTAAA
* *
61446072 ATGACAT-AAATACCCCTTTAGGGTAAA
1 ATGAC-TGAAATACCCCTATAAGGTAAA
**
61446099 ATGACCAAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
* *
61446126 ATGACCGAAATA-CCCTCATAGGGTAAA
1 ATGACTGAAATACCCCT-ATAAGGTAAA
61446153 ATGACTGAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
61446180 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
61446207 ATGACTGAAATACCCCTTTAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
* * * * *
61446234 GTGCCT-AAATACCCTTATACGATAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
61446260 ATGACTGTAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
61446287 ATGACTGTAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
61446314 CTGTTGATTT
Statistics
Matches: 212, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.11
27 180 0.85
28 8 0.04
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
ATGACTGAAATACCCCTATAAGGTAAA
Found at i:61452909 original size:46 final size:46
Alignment explanation
Indices: 61452853--61453028 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
61452843 TGGTTGAGCA
*
61452853 TCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
61452899 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
61452944 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61452992 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61453029 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61453009 original size:93 final size:93
Alignment explanation
Indices: 61452850--61453020 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
61452840 GGATGGTTGA
* * *
61452850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTACGGATGCGAACGCCCGAACTCGTTGAGT
61452915 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
61452943 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTACGGATGCGAACGCCCGAACTCGTTGAGT
61453008 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61453021 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:61460460 original size:46 final size:46
Alignment explanation
Indices: 61460410--61460584 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
61460400 TGGTTGAGCA
*
61460410 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * *
61460456 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-T--G
* *
61460501 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * *
61460549 -CCTGAGCTCGTTGAGTTGAGTGCAAGTTCACTTATG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
61460585 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
Found at i:61460577 original size:93 final size:93
Alignment explanation
Indices: 61460407--61460577 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
61460397 GGATGGTTGA
* * *
61460407 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGTCCGAACTCGTTGAGT
*
61460472 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
*
61460500 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGTCC-GAACTCGTTGAG
*
61460564 TTGAGTGCAAGTTC
65 TTGAGTCCAAGTTC
61460578 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:61466953 original size:24 final size:24
Alignment explanation
Indices: 61466918--61466963 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
61466908 CCAACACCGT
61466918 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
*
61466942 TCTCCCTTATCAGCTCCTAAAT
1 TCTCCCTAATCAGCTCCTAAAT
61466964 TCTCCTGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.04, T:0.33
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:61474954 original size:24 final size:26
Alignment explanation
Indices: 61474911--61474960 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
61474901 CATTTATTAT
*
61474911 AACATACTTATGAAAGAAATGATTGA
1 AACATACTTATGAAAAAAATGATTGA
*
61474937 AACATAC-T-TGAAAAAAATGTTTGA
1 AACATACTTATGAAAAAAATGATTGA
61474961 GCAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 1 0.05
26 7 0.32
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (26 bp):
AACATACTTATGAAAAAAATGATTGA
Found at i:61476337 original size:27 final size:27
Alignment explanation
Indices: 61476293--61476460 Score: 135
Period size: 27 Copynumber: 6.2 Consensus size: 27
61476283 AAAAATAGTC
* * * * *
61476293 ATTTTACCCTATAGGGGTATGTCGATC
1 ATTTTACACTACAAGGGTATTTCGATA
*
61476320 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
61476347 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *** * *
61476374 ATTTTATA-AATTGGGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
*
61476401 ATTTTACA-AATCAAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * *
61476428 ATTTTACA-AATCAAGGGCATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
61476455 ATTTTA
1 ATTTTA
61476461 TAAATCGAGG
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:61476465 original size:27 final size:27
Alignment explanation
Indices: 61476333--61476858 Score: 496
Period size: 27 Copynumber: 19.7 Consensus size: 27
61476323 TTACACTACA
* *
61476333 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* * *
61476360 AGGGTATTTCGATAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
61476387 GGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
61476414 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
61476441 AGGGCATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
61476468 AGGATATTTCATTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
61476495 ATGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
61476522 AGGG--TTTCAATAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
61476547 -GAGGTATTTCGATAATTTTATAAATTG
1 AG-GGTATTTCGGTAATTTTACAAATCG
** **
61476574 AGGGTATTTTAGTAA-TTT-CAGAATTA
1 AGGGTATTTCGGTAATTTTACA-AATCG
61476600 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
61476627 -GGTGTATTTTAGTAATTTTACAAAT-G
1 AGG-GTATTTCGGTAATTTTACAAATCG
* *
61476653 TAGGGTGTTTCGGTAATTTCACAAATCG
1 -AGGGTATTTCGGTAATTTTACAAATCG
* * * *
61476681 GGGGTATTTTGGTAATTTTATAAGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
61476708 AGGGTATTTCGATAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
61476734 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
61476761 AGGGTATTTCATTAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** *
61476787 AGGGTATCTCACTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
61476814 GGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
61476841 ATGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
61476859 CTCTTTATTA
Statistics
Matches: 405, Mismatches: 80, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.00
25 22 0.05
26 68 0.17
27 306 0.76
28 8 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:61476819 original size:80 final size:78
Alignment explanation
Indices: 61476333--61476859 Score: 413
Period size: 80 Copynumber: 6.6 Consensus size: 78
61476323 TTACACTACA
* * * * ** *
61476333 AGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTATAAATTGGGGGTGTTT
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAG-TAATTTCA-CAA-TCAGGGTATTT
* *
61476396 CGGTAATTTTACAAATCA
62 C-ATAATTTTACAAATCG
* * * * * * *
61476414 AGGGTATTTCGATAATTTTACAAATCAAGGGCATTTCGGTAATTTTATAAATCGAGGATATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCA-CAATC-AGGGTATTTCA
61476479 TTAATTTTACAAATCG
64 -TAATTTTACAAATCG
* * * * *
61476495 ATGGTGTTTCAGTAATTTTACAAATCGAGGG--TTTCAATAATTTCACAAATCGGAGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCAG-GGTATTTC-
* *
61476558 ATAATTTTATAAATTG
63 ATAATTTTACAAATCG
** ** * * * *
61476574 AGGGTATTTTAGTAA-TTT-CAGAATTAAGGGTATTTCGGTAATTTTACAAATCGGGTGTATTTT
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCAGTAATTTCAC-AATCAGG-GTATTTC
61476637 AGTAATTTTACAAAT-G
63 A-TAATTTTACAAATCG
* * * ** * *
61476653 TAGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTTGGTAATTTTATAAGTCGAGGGTATTTC
1 -AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAA-TC-AGGGTATTTC
*
61476718 GATAATTTCAC-AATCG
63 -ATAATTTTACAAATCG
* *
61476734 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCATTAATTTCACAATCAAGGGTATCTCAC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATC-AGGGTATTTCA-
*
61476799 TAATTTTACAAATTG
64 TAATTTTACAAATCG
* *
61476814 GGGGTATTTCGGTAATTTTACAAATCGATGGTATTTCAGTAATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
61476860 TCTTTATTAT
Statistics
Matches: 366, Mismatches: 59, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
77 2 0.01
78 12 0.03
79 69 0.19
80 145 0.40
81 130 0.36
82 8 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (78 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCAGGGTATTTCATA
ATTTTACAAATCG
Found at i:61477211 original size:28 final size:28
Alignment explanation
Indices: 61477175--61477235 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
61477165 TGGCCCCTTT
* *
61477175 AGGCCCAATCTCATTCACATGGCGCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
61477203 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
61477231 AGGCC
1 AGGCC
61477236 GAACTACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:61480447 original size:47 final size:47
Alignment explanation
Indices: 61480384--61480818 Score: 717
Period size: 47 Copynumber: 9.3 Consensus size: 47
61480374 CCCTTCGGGA
* *
61480384 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
61480431 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61480478 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61480525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61480572 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61480619 CTTATCACATATATACATTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61480666 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61480713 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61480760 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61480807 CTTATCACATAT
1 CTTATCACATAT
61480819 TCTCATTATC
Statistics
Matches: 360, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 360 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61485364 original size:49 final size:49
Alignment explanation
Indices: 61485282--61485439 Score: 275
Period size: 49 Copynumber: 3.2 Consensus size: 49
61485272 CTTACTTTGA
*
61485282 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
61485329 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCTGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
61485378 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
61485427 GAATGTGATAAGT
1 GAATGTGA-AAGT
61485440 CCCGAAGGGC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 13 0.12
49 88 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:61485613 original size:37 final size:37
Alignment explanation
Indices: 61485557--61485635 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61485547 CCGAGCTCTG
* * *
61485557 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
61485594 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61485631 AAGAC
1 AAGAC
61485636 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61489845 original size:19 final size:19
Alignment explanation
Indices: 61489817--61489864 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
61489807 TTAGGGTTCG
* *
61489817 TTTTATAAAAACTACTTGT
1 TTTTAAAAAAACTACCTGT
61489836 TTTTAAAAAAAAACTACCTGT
1 TTTT--AAAAAAACTACCTGT
61489857 TTTTAAAA
1 TTTTAAAA
61489865 GATCACGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
21 17 0.68
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (19 bp):
TTTTAAAAAAACTACCTGT
Found at i:61489859 original size:20 final size:21
Alignment explanation
Indices: 61489823--61489864 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
61489813 TTCGTTTTAT
*
61489823 AAAAACTACTTGTTTTTAAAA
1 AAAAACTACCTGTTTTTAAAA
61489844 AAAAACTACCTGTTTTTAAAA
1 AAAAACTACCTGTTTTTAAAA
61489865 GATCACGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAACTACCTGTTTTTAAAA
Found at i:61496471 original size:12 final size:11
Alignment explanation
Indices: 61496442--61496472 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
61496432 GAAGTTGAGC
61496442 TGATTTTTGCT
1 TGATTTTTGCT
61496453 TGATTTTTGCT
1 TGATTTTTGCT
61496464 TGATTTTTG
1 TGATTTTTG
61496473 GTCAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.06, G:0.19, T:0.65
Consensus pattern (11 bp):
TGATTTTTGCT
Found at i:61498796 original size:20 final size:21
Alignment explanation
Indices: 61498754--61498796 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61498744 GCTTTCATGA
*
61498754 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
61498775 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
61498795 TT
1 TT
61498797 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:61501644 original size:22 final size:22
Alignment explanation
Indices: 61501619--61501671 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
61501609 CGACTCAACA
* * *
61501619 CCGTAAATAGGATGGCTCAATG
1 CCGTAAATAGGACGGCTAAAGG
61501641 CCGTAGAA-AGGACGGCTAAAGG
1 CCGTA-AATAGGACGGCTAAAGG
61501663 CCGTAAATA
1 CCGTAAATA
61501672 TCGCAGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (22 bp):
CCGTAAATAGGACGGCTAAAGG
Found at i:61504853 original size:27 final size:27
Alignment explanation
Indices: 61504802--61504854 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
61504792 ACAATTACAC
*
61504802 TTGGGCCTCAACCCTCATCAGAATCAA
1 TTGGGCCTCAACCCTCATCAAAATCAA
61504829 TTGGGCCT-AACCCATTC-TCAAAATCA
1 TTGGGCCTCAACCC--TCATCAAAATCA
61504855 GTAACAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 16 0.70
28 2 0.09
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (27 bp):
TTGGGCCTCAACCCTCATCAAAATCAA
Found at i:61504869 original size:60 final size:60
Alignment explanation
Indices: 61504802--61504917 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
61504792 ACAATTACAC
* * * *
61504802 TTGGGCCTCAACCC-TCATCAGAATCAATTGGGCCTAA-CCCATTCTCAAAATCAGTAACAG
1 TTGGGCCT-AACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGT-ACAAAATCAGTAACAG
* * *
61504862 TTGGGCCTAGCCCATTAACAGAATCAGGTGGGCCTAAGCCCAGTACAAAATCAGTA
1 TTGGGCCTAACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGTACAAAATCAGTA
61504918 TCAAATGCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 38 0.81
61 5 0.11
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (60 bp):
TTGGGCCTAACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGTACAAAATCAGTAACAG
Found at i:61504913 original size:27 final size:27
Alignment explanation
Indices: 61504863--61504915 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61504853 CAGTAACAGT
* *
61504863 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAAAATCAGG
61504890 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
61504916 TATCAAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAAAATCAGG
Found at i:61505370 original size:27 final size:27
Alignment explanation
Indices: 61505322--61505374 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
61505312 CACTCTACCA
* *
61505322 TACAAGGGTATTACGGTTATTTTACAC
1 TACAAGGGTATTACGATAATTTTACAC
**
61505349 TACAAGGGTATTTTGATAATTTTACA
1 TACAAGGGTATTACGATAATTTTACA
61505375 AACTGAGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAGGGTATTACGATAATTTTACAC
Found at i:61509177 original size:28 final size:28
Alignment explanation
Indices: 61509137--61509290 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
61509127 TAAATTGTAC
61509137 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61509165 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61509193 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61509221 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
61509249 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61509276 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61509291 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.19
28 99 0.81
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:61509203 original size:56 final size:56
Alignment explanation
Indices: 61509112--61509290 Score: 270
Period size: 56 Copynumber: 3.2 Consensus size: 56
61509102 GAGATTGGCG
* * * *
61509112 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
61509169 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
61509225 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
61509280 CTGAGTGTGCG
1 CTAAGTGTGCG
61509291 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 23 0.20
56 75 0.66
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:61517271 original size:28 final size:28
Alignment explanation
Indices: 61517231--61517384 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
61517221 TAAATTGTAC
61517231 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61517259 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61517287 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61517315 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
61517343 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61517370 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61517385 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.19
28 99 0.81
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:61517297 original size:56 final size:56
Alignment explanation
Indices: 61517206--61517384 Score: 270
Period size: 56 Copynumber: 3.2 Consensus size: 56
61517196 GAGATTGGCG
* * * *
61517206 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
61517263 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
61517319 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
61517374 CTGAGTGTGCG
1 CTAAGTGTGCG
61517385 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 23 0.20
56 75 0.66
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:61519085 original size:22 final size:23
Alignment explanation
Indices: 61519046--61519088 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61519036 GAGATCCTAC
*
61519046 CCATCCATCCTCTACACTCCACT
1 CCATCCAACCTCTACACTCCACT
61519069 CCATCCAACC-CTACACTCCA
1 CCATCCAACCTCTACACTCCA
61519089 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (23 bp):
CCATCCAACCTCTACACTCCACT
Found at i:61525138 original size:17 final size:18
Alignment explanation
Indices: 61525111--61525144 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61525101 AATTAAATAT
61525111 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
61525129 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
61525145 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:61535717 original size:43 final size:43
Alignment explanation
Indices: 61535670--61535823 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
61535660 TCCCAAACGT
* * *
61535670 GGTCTTACATGTAATCAAATATCGGTGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAG
* * * * * * *
61535713 GGTCTTATATGAAATCAAATA-CGATGCCAATATCCTATACAT
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAG
*
61535755 GGTCTTACACGTAAATCTAAA-ATCGATGCCAATGTTCCAGAC-G
1 GGTCTTACACGT-AATC-AAATATCGATGCCAATGTCCCAGACAG
* * *
61535798 TAGTCTTACACATAATCACATATCGA
1 -GGTCTTACACGTAATCAAATATCGA
61535824 AATCCTATGT
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 26 0.30
43 33 0.38
44 28 0.32
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:61535760 original size:42 final size:43
Alignment explanation
Indices: 61535651--61535787 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
61535641 AGCTCGTACA
* * *
61535651 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAAACATGGTCTTACATGAAATCAAATATCG
* * * * * *
61535694 GTGCCACTGTCCCAGACAGGGTCTTATATGAAATCAAATA-CG
1 ATGCCAATATCCCAAACATGGTCTTACATGAAATCAAATATCG
* * *
61535736 ATGCCAATATCCTATACATGGTCTTACACGTAAATCTAAA-ATCG
1 ATGCCAATATCCCAAACATGGTCTTACATG-AAATC-AAATATCG
61535780 ATGCCAAT
1 ATGCCAAT
61535788 GTTCCAGACG
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 24 0.32
43 37 0.50
44 13 0.18
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAAACATGGTCTTACATGAAATCAAATATCG
Found at i:61548555 original size:31 final size:31
Alignment explanation
Indices: 61548517--61548624 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
61548507 TGACATATAT
*
61548517 TGGGCCGAAGCCTTTCCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
*
61548548 TGGGCCGAAGCATTTTCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
*
61548579 TGGGCCGAAGCCTTTTCTTAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
*
61548610 TGGGCTGAAGCCTTT
1 TGGGCCGAAGCCTTT
61548625 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAC
Found at i:61548872 original size:25 final size:25
Alignment explanation
Indices: 61548844--61548913 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
61548834 CTCTTTTAAT
61548844 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* * *
61548869 AACTGGGCCAAAGCCGTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
61548894 AATTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61548914 AGCACTTTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61549753 original size:27 final size:26
Alignment explanation
Indices: 61549723--61549786 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
61549713 GGGCATATTC
61549723 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATAC-AGGGCT-TTACG
* * *
61549750 GTCACTTTACCCTACGGGGCTTTACG
1 GTCATTTTACCATACAGGGCTTTACG
*
61549776 GTCTTTTTACC
1 GTCATTTTACC
61549787 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCATACAGGGCTTTACG
Found at i:61549943 original size:27 final size:27
Alignment explanation
Indices: 61549905--61550053 Score: 165
Period size: 27 Copynumber: 5.5 Consensus size: 27
61549895 AAAGTCAAGT
* *
61549905 GTATTTTTGTAATTTTATAAATTAAGG
1 GTATTTTGGTAATTTTACAAATTAAGG
*
61549932 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTGGTAATTTTACAAATTAAGG
** * **
61549959 GTATTTCAGTAATTTCACAAA-CCAGTG
1 GTATTTTGGTAATTTTACAAATTAAG-G
* *
61549986 GTATTTCGGTAATTTTACAAATTAGGG
1 GTATTTTGGTAATTTTACAAATTAAGG
* * *
61550013 GTATTTTGGTAATTTTAAAAACTAGGG
1 GTATTTTGGTAATTTTACAAATTAAGG
61550040 GTATTTTGGTAATT
1 GTATTTTGGTAATT
61550054 CTATCCTATA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 101 0.97
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAATTAAGG
Found at i:61549952 original size:110 final size:108
Alignment explanation
Indices: 61549818--61550056 Score: 282
Period size: 110 Copynumber: 2.2 Consensus size: 108
61549808 TTCATCCTAC
* * *
61549818 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTT-AGTAAACCAATGGTATTT
1 AAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCA-CAAACCAATGGTATTT
* * * * * *
61549882 CTATAATTTTTAGAAAGTCAAGTGTATTTTTGTAATTTTATAAATT
65 CGATAA-TTTTACAAA-TCAAGGGTATTTTGGTAATTTTAAAAACT
* *** *
61549928 AAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTC
1 AAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTC
* * *
61549993 GGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAAAAACT
66 GATAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAACT
*
61550036 AGGGGTATTTTGGTAATTCTA
1 AAGGGTATTTTGGTAATTCTA
61550057 TCCTATAGGG
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
108 42 0.39
109 8 0.07
110 58 0.53
111 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (108 bp):
AAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTC
GATAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAACT
Found at i:61549989 original size:54 final size:54
Alignment explanation
Indices: 61549930--61550086 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 54
61549920 TATAAATTAA
61549930 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
* * ** * * *
61549984 TGGTATTTCGGTAATTTTACAAATT-AGGGGTATTTTGGTAATTTTAAAAACTAG
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCAG
* ** * *
61550038 GGGTATTTTGGTAATTCTATCCTATAG-GGGTATTTCAATAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCAGTAATTTCACAA
61550087 TCGAGGGTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
53 1 0.01
54 78 0.95
55 3 0.04
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
Found at i:61550119 original size:27 final size:27
Alignment explanation
Indices: 61550085--61550173 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
61550075 ATAATTTCAC
61550085 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
61550112 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
61550139 AATCGA-GGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
61550165 AATCGAGGG
1 AATCGAGGG
61550174 CATTTCAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.41
27 32 0.59
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:61556625 original size:23 final size:22
Alignment explanation
Indices: 61556574--61556625 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
61556564 CCTCGTCTTT
*
61556574 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
61556596 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
61556619 TTCTTTT
1 TTCTTTT
61556626 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:61556640 original size:18 final size:18
Alignment explanation
Indices: 61556619--61556657 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61556609 TTTCTTCAAC
* *
61556619 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
61556637 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
61556655 TTC
1 TTC
61556658 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:61559479 original size:130 final size:130
Alignment explanation
Indices: 61559231--61559469 Score: 322
Period size: 130 Copynumber: 1.8 Consensus size: 130
61559221 TAAGATACAT
* * *
61559231 GTGAAATTCCAAGGAGATATTCGATTATTTTGGACAAATGAAAAAGCGCAACCCAACACGATAGG
1 GTGAAATTCCAAGGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAACCCAACACGATAGG
* *
61559296 GCTCGATTCTCAAATTGCAAAACATCGAACATCGCCTTCATTTTGAAAGATTTTAGAAAATGTGA
66 GCTCGATTCTCAAATCGCAAAACATCGAACATCACCTTCATTTTGAAAGATTTTAGAAAATGTGA
* * * *
61559361 GTGAAATTCCGAAGG-GATGTTCAATTGTTTCGAACCAATGAAAAAGCGCAACCCAGCACGATAG
1 GTGAAATTCC-AAGGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAACCCAACACGATAG
* * *
61559425 GG-TACGATTCTCAAATCGCCAAAA-ATTGAACATCATCTTCGTTTT
65 GGCT-CGATTCTCAAATCG-CAAAACATCGAACATCACCTTCATTTT
61559470 TAAGTATTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 1 0.01
130 84 0.89
131 9 0.10
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (130 bp):
GTGAAATTCCAAGGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAACCCAACACGATAGG
GCTCGATTCTCAAATCGCAAAACATCGAACATCACCTTCATTTTGAAAGATTTTAGAAAATGTGA
Found at i:61559760 original size:131 final size:131
Alignment explanation
Indices: 61559620--61559874 Score: 357
Period size: 131 Copynumber: 1.9 Consensus size: 131
61559610 TTTAGGAGAT
* * * *
61559620 ATGAATGAAATTTTCAAGGGATACTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACAT
1 ATGAATGAAATTTTCAAGGGATACTCAACTATTTCGAGCAAAAGCAAAATTGCAACCCAACACAT
* * *
61559685 TACAGCACGATTCCGCAAATTGCTAAATATTGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGA
66 TACAGCACGATTCCGCAAATTGCCAAACATCGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGA
61559750 C
131 C
* * * * * *
61559751 ATGAGTGAAATTTTGAAGTGATATTCAACTATTTCGAGCAAAAGCGAAATTGCAACCCAACACGT
1 ATGAATGAAATTTTCAAGGGATACTCAACTATTTCGAGCAAAAGCAAAATTGCAACCCAACACAT
** * *
61559816 TAGGGCACGATTCTGCGAATTGCCAAACATCGAATCTCGTCTTCGTTTTGAAGAATTTT
66 TACAGCACGATTCCGCAAATTGCCAAACATCGAATCTCGTCTTCGTTTTGAAGAATTTT
61559875 TGAATGAATG
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 107 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (131 bp):
ATGAATGAAATTTTCAAGGGATACTCAACTATTTCGAGCAAAAGCAAAATTGCAACCCAACACAT
TACAGCACGATTCCGCAAATTGCCAAACATCGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGA
C
Found at i:61562760 original size:44 final size:44
Alignment explanation
Indices: 61562706--61563183 Score: 634
Period size: 44 Copynumber: 10.9 Consensus size: 44
61562696 CTGTTATTTC
* * * *
61562706 CGATCTGCTCTCTGCCAACACTGAGATGCCAAATCTGCTATGTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* ** *
61562750 CGATCCGCTCTCTGATAATACAGAGATGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
61562794 CGATCTGCTCTCCGCCAATACAGAGACACCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
61562838 CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61562882 CGATCTGCTTTCCGCCAATACAGAGATGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * *
61562926 TGATCTGCTCTCTGCCGATACAGAGATGCCAAATCTGTTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * * *
61562970 CGATCTGCCCTTTGACAATACAGAGACGCCAAATCTTCTACCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
*
61563014 CGATCTG-TCCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCT-CTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61563058 CGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTACCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61563102 CGATCTACTCTCCGCCAATACAGAGACACCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61563146 CGATCTGCTCTCCGCCAATATAGAGATGCCAAATCTGC
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
61563184 AGGATTTGCC
Statistics
Matches: 383, Mismatches: 49, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
44 383 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (44 bp):
CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
Found at i:61573417 original size:10 final size:9
Alignment explanation
Indices: 61573395--61573420 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61573385 GAAACCACCC
61573395 TTTTTAAAA
1 TTTTTAAAA
61573404 TTTTTAAAA
1 TTTTTAAAA
61573413 TTTTTAAA
1 TTTTTAAA
61573421 TTTAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:61574312 original size:131 final size:131
Alignment explanation
Indices: 61574135--61574489 Score: 415
Period size: 131 Copynumber: 2.7 Consensus size: 131
61574125 TGTTCGATCG
* ** * * * * *
61574135 TTTTGAGCAAACGGGAAATCACAACCCAGCACGATAGGGCATGATT-CTCGAATTGCCAAATGCC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * ** *
61574199 AAATCTTGCCTTCGTTTTAAATAATTTTTAGGAGATATGAATGAAATTTTGAAGGGATACTCGAT
66 AAATCTCGCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGAT
61574264 TA
130 TA
* * * *
61574266 TTTTAAGCAAACGTGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTAAATATC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * * * * *
61574331 GAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATT
66 AAATCTCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATT
61574396 A
131 A
* * * * *
61574397 TTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTACCAAACATC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * *
61574462 GAATCTCGTCTTCGTTTTGAAGAATTTT
66 AAATCTCGCCTTCGTTTTAAAGAATTTT
61574490 TGAATGAATG
Statistics
Matches: 194, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
131 161 0.83
132 33 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (131 bp):
TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
AAATCTCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATT
A
Found at i:61577310 original size:44 final size:44
Alignment explanation
Indices: 61577256--61577727 Score: 598
Period size: 44 Copynumber: 10.9 Consensus size: 44
61577246 CTGTTATTTC
* * * *
61577256 CGATCTGCTCTCTGCCAACACTGAGATGCCAAATCTGCTATGTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* ** *
61577300 CGATCCGCTCTCTGATAATACAGAGATGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
61577344 CGATCTGCTCTCCGCCAATACAGAGACACCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
*
61577388 CGATCTGC-CTCTGACAATACAGAGAC-CCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61577430 CGATCTGCTTTCCGCCAATACAGAGATGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * *
61577474 TGATCTGCTCTCTGCCGATACAGA-ATGCCAAATCTGTTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * * *
61577517 CGATCTGCCCTTTGACAATACAGAGACGCCAAATCTTCTACCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
*
61577561 CGATCTG-TCCTCTGAC-ATACAGAGACGCC-AATCTGCTATCTT
1 CGATCTGCT-CTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
61577603 CGATCTGC-CTCTGACAATACAGAGACGCCAAATCTGCTACCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61577646 CGATCTACTCTCCGCCAATACAGAGACACCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
61577690 CGATCTGCTCTCCGCCAATATAGAGATGCCAAATCTGC
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
61577728 AGGATTTGCC
Statistics
Matches: 374, Mismatches: 46, Indels: 16
0.86 0.11 0.04
Matches are distributed among these distances:
41 7 0.02
42 55 0.15
43 99 0.26
44 213 0.57
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
Found at i:61577433 original size:130 final size:132
Alignment explanation
Indices: 61577256--61577727 Score: 607
Period size: 130 Copynumber: 3.6 Consensus size: 132
61577246 CTGTTATTTC
* * * ** * * * *
61577256 CGATCTGCTCTCTGCCAACACTGAGATGCCAAATCTGCTATGTTCGATCCGCTCTCTGATAATAC
1 CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGACAATAC
* *
61577321 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACACCAAATCTGCTATC
66 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
61577386 TT
131 TT
* *
61577388 CGATCTGC-CTCTGACAATACAGAGAC-CCAAATCTGCTATCTTCGATCTGCTTTCCGCCAATAC
1 CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGACAATAC
* * * *
61577451 AGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCGATACAGA-ATGCCAAATCTGTTATC
66 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
61577515 TT
131 TT
* * * * * *
61577517 CGATCTGCCCTTTGACAATACAGAGACGCCAAATCTTCTACCTTCGATCTG-TCCTCTGAC-ATA
1 CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCT-CTCCGACAATA
* * *
61577580 CAGAGACGCC-AATCTGCTATCTTCGATCTGC-CTCTGACAATACAGAGACGCCAAATCTGCTAC
65 CAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTAT
61577643 CTT
130 CTT
* * * * *
61577646 CGATCTACTCTCCGCCAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATAT
1 CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGACAATAC
61577711 AGAGATGCCAAATCTGC
66 AGAGATGCCAAATCTGC
61577728 AGGATTTGCC
Statistics
Matches: 292, Mismatches: 41, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
128 13 0.04
129 108 0.37
130 117 0.40
131 46 0.16
132 8 0.03
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (132 bp):
CGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGACAATAC
AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
TT
Found at i:61577551 original size:173 final size:174
Alignment explanation
Indices: 61577256--61577727 Score: 655
Period size: 173 Copynumber: 2.7 Consensus size: 174
61577246 CTGTTATTTC
* * * * **
61577256 CGATCTGCTCTCTGCCAACACTGAGATGCCAAATCTGCTATGTTCGATCCGCTCTCTGATAATAC
1 CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATAC
* *
61577321 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACACCAAATCTGCTATC
66 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTACC
61577386 TTCGATCTG-CCTCTGACAATACAGAGAC-CCAAATCTGCTATCTT
131 TTCGATCTGTCCTCTGAC-ATACAGAGACGCC-AATCTGCTATCTT
* * * *
61577430 CGATCTGCTTTCCGCCAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGCCGATAC
1 CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATAC
* * ** * *
61577495 AGA-ATGCCAAATCTGTTATCTTCGATCTGCCCTTTGACAATACAGAGACGCCAAATCTTCTACC
66 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTACC
61577559 TTCGATCTGTCCTCTGACATACAGAGACGCCAATCTGCTATCTT
131 TTCGATCTGTCCTCTGACATACAGAGACGCCAATCTGCTATCTT
* * * * *
61577603 CGATCTGC-CTCTGACAATACAGAGACGCCAAATCTGCTACCTTCGATCTACTCTCCGCCAATAC
1 CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATAC
** * *
61577667 AGAGACACCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATATAGAGATGCCAAATCTGC
66 AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
61577728 AGGATTTGCC
Statistics
Matches: 258, Mismatches: 37, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
172 50 0.19
173 140 0.54
174 68 0.26
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (174 bp):
CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATAC
AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTACC
TTCGATCTGTCCTCTGACATACAGAGACGCCAATCTGCTATCTT
Found at i:61587927 original size:10 final size:9
Alignment explanation
Indices: 61587905--61587930 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61587895 GAAACCACCC
61587905 TTTTTAAAA
1 TTTTTAAAA
61587914 TTTTTAAAA
1 TTTTTAAAA
61587923 TTTTTAAA
1 TTTTTAAA
61587931 TTTAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:61588839 original size:131 final size:131
Alignment explanation
Indices: 61588662--61589016 Score: 415
Period size: 131 Copynumber: 2.7 Consensus size: 131
61588652 TGTTCGATCG
* ** * * * * *
61588662 TTTTGAGCAAACGGGAAATCACAACCCAGCACGATAGGGCATGATT-CTCGAATTGCCAAATGCC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * ** *
61588726 AAATCTTGCCTTCGTTTTAAATAATTTTTAGGAGATATGAATGAAATTTTGAAGGGATACTCGAT
66 AAATCTCGCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGAT
61588791 TA
130 TA
* * * *
61588793 TTTTAAGCAAACGTGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTAAATATC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * * * * *
61588858 GAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATT
66 AAATCTCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATT
61588923 A
131 A
* * * * *
61588924 TTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTACCAAACATC
1 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
* * *
61588989 GAATCTCGTCTTCGTTTTGAAGAATTTT
66 AAATCTCGCCTTCGTTTTAAAGAATTTT
61589017 TGAATGAATG
Statistics
Matches: 194, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
131 161 0.83
132 33 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (131 bp):
TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATACC
AAATCTCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATT
A
Found at i:61590083 original size:16 final size:16
Alignment explanation
Indices: 61590043--61590084 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
61590033 AAAGAAAATG
*
61590043 TATATATA-AAATGTA
1 TATATATAGAAATATA
* *
61590058 TAGATTTAGAAATATA
1 TATATATAGAAATATA
61590074 TATATATAGAA
1 TATATATAGAA
61590085 TATGTGTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TATATATAGAAATATA
Found at i:61597224 original size:19 final size:19
Alignment explanation
Indices: 61597202--61597251 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
61597192 TCCTAGATTA
*
61597202 TAAATAAAATTTATCTTCC
1 TAAATAAAATTTATCTACC
*
61597221 TAAATAAGATTTATCTACC
1 TAAATAAAATTTATCTACC
61597240 TAAAT-AAATTTA
1 TAAATAAAATTTA
61597252 AAATATATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAATAAAATTTATCTACC
Found at i:61598493 original size:41 final size:41
Alignment explanation
Indices: 61598436--61598518 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
61598426 GGATACATGT
*
61598436 AAACTTTTTCTTCAAGTTTCCCATTTAGGAAAGCATTCTTC
1 AAACTTCTTCTTCAAGTTTCCCATTTAGGAAAGCATTCTTC
61598477 AAACTTCTTCTTCAAGTTTCCCATTTAGGAAAGCATTCTTC
1 AAACTTCTTCTTCAAGTTTCCCATTTAGGAAAGCATTCTTC
61598518 A
1 A
61598519 CATCTAGCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (41 bp):
AAACTTCTTCTTCAAGTTTCCCATTTAGGAAAGCATTCTTC
Found at i:61603375 original size:26 final size:23
Alignment explanation
Indices: 61603337--61603389 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
61603327 ATTTAACTTT
61603337 TTTATTATTATTAATTTAACAAATAA
1 TTTATTATTATT-ATTTAA-AAA-AA
61603363 TTTA-TATTAATTATTTAAAAAAA
1 TTTATTATT-ATTATTTAAAAAAA
61603386 TTTA
1 TTTA
61603390 AATTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.23
24 3 0.12
25 10 0.38
26 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATTATTATTATTTAAAAAAA
Found at i:61603403 original size:22 final size:22
Alignment explanation
Indices: 61603349--61603403 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
61603339 TATTATTATT
*
61603349 AATTTAACAAATAATTTATATTA
1 AATTTAA-AAATAATTTAAATTA
61603372 ATTATTTAAAAA-AATTTAAATTTA
1 A--ATTTAAAAATAATTTAAA-TTA
61603396 AATTTAAA
1 AATTTAAA
61603404 TTTTACATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 7 0.25
25 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTAAAAATAATTTAAATTA
Found at i:61613217 original size:6 final size:6
Alignment explanation
Indices: 61613206--61613261 Score: 94
Period size: 6 Copynumber: 9.3 Consensus size: 6
61613196 ACAGGAAAAC
*
61613206 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
61613254 AAGATA AA
1 AAAATA AA
61613262 TGGACTCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:61614559 original size:3 final size:3
Alignment explanation
Indices: 61614546--61614593 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
61614536 ATAAATAGAA
*
61614546 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
61614594 TGAATGAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:61615138 original size:9 final size:10
Alignment explanation
Indices: 61615101--61615138 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
61615091 GGGTAGAGGG
61615101 AGAAGAGGGAA
1 AGAA-AGGGAA
*
61615112 GGAAAGGGAA
1 AGAAAGGGAA
61615122 AGAAAGGGAA
1 AGAAAGGGAA
61615132 A-AAAGGG
1 AGAAAGGG
61615139 GTGGGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 6 0.24
10 16 0.64
11 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (10 bp):
AGAAAGGGAA
Found at i:61617080 original size:42 final size:42
Alignment explanation
Indices: 61617021--61617105 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
61617011 AGTTAATATG
*
61617021 TAATTTTTTAATGAGTTTAAGGAATTTACCGAATTGTTTGTC
1 TAATTTTTTAAGGAGTTTAAGGAATTTACCGAATTGTTTGTC
61617063 TAATTTTTTAAGGAGTTTAAGGAATTTACCGAATTGTTTGTC
1 TAATTTTTTAAGGAGTTTAAGGAATTTACCGAATTGTTTGTC
61617105 T
1 T
61617106 TTATGGTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (42 bp):
TAATTTTTTAAGGAGTTTAAGGAATTTACCGAATTGTTTGTC
Found at i:61622695 original size:50 final size:48
Alignment explanation
Indices: 61622493--61622736 Score: 219
Period size: 50 Copynumber: 5.1 Consensus size: 48
61622483 ACACTACTGT
* * *
61622493 TATGAGAGCTACTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTGAGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGA-A
* * * * *
61622540 TATGAAAGCTAATGTAAGACCATGTCTGGGACAAGGCATCGGCTTG-A
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAA
* * * **
61622587 TAT--GTGTCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCAACA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGA-A
* *
61622635 GATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TGA-A
* * * * * *
61622685 TATGAGAGCCAGTGTAAGACCATATCTCGGATATGACATCGGCATCAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAA
61622733 TATG
1 TATG
61622737 TGTAATATTT
Statistics
Matches: 158, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
45 31 0.20
47 21 0.13
48 20 0.13
49 13 0.08
50 73 0.46
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAA
Found at i:61624593 original size:22 final size:22
Alignment explanation
Indices: 61624568--61624646 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
61624558 TTGCCAAAGG
* *
61624568 CACATGGGTGTGTCCTTATGTC
1 CACACGGGCGTGTCCTTATGTC
61624590 CACACGGGCGTGTCCTTATGTC
1 CACACGGGCGTGTCCTTATGTC
* *
61624612 CACACGGGCGTGTCCCTATGCC
1 CACACGGGCGTGTCCTTATGTC
*
61624634 CACAGGGGCGTGT
1 CACACGGGCGTGT
61624647 GACCCTGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.25
Consensus pattern (22 bp):
CACACGGGCGTGTCCTTATGTC
Found at i:61626093 original size:20 final size:20
Alignment explanation
Indices: 61626057--61626103 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
61626047 ACAATTGAAG
* *
61626057 ATAA-TAAAGTATGAATAAT
1 ATAATTAAACTATAAATAAT
*
61626076 ATAATTAAACTATAAATATT
1 ATAATTAAACTATAAATAAT
61626096 AT-ATTAAA
1 ATAATTAAA
61626104 GTAAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
ATAATTAAACTATAAATAAT
Found at i:61626555 original size:43 final size:42
Alignment explanation
Indices: 61626466--61626564 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
61626456 ATATCCCATA
** *
61626466 ATAATATCCTATAATATCCATTAGGAATCAAATTGTTAAGAG
1 ATAATATCCTATAATATCCATTAGGAATCAAATTACTAAAAG
* ** * *
61626508 ATAATATCTTATAATATCCCATTAGGGCTTAAATTACTAAAAT
1 ATAATATCCTATAATAT-CCATTAGGAATCAAATTACTAAAAG
61626551 ATAATATCCTATAA
1 ATAATATCCTATAA
61626565 AAATATCCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 16 0.34
43 31 0.66
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.35
Consensus pattern (42 bp):
ATAATATCCTATAATATCCATTAGGAATCAAATTACTAAAAG
Found at i:61632500 original size:98 final size:95
Alignment explanation
Indices: 61632328--61632503 Score: 246
Period size: 98 Copynumber: 1.8 Consensus size: 95
61632318 GTAATGCTGA
* *
61632328 AGCCATGACCCAGACATGGTCTTACACTGGCTTATCCATCAAGTCGATGCCAAGTCCCAGACATG
1 AGCCATGACCCAGACATGGTCTTACACTGGCTTACCCATCAAGCCGATGCCAAGTCCCAGACATG
61632393 GTCTTACACTGACTGTTGAAATCGAGGCCG
66 GTCTTACACTGACTGTTGAAATCGAGGCCG
* * * *
61632423 AGCCATGTCCTAGACATGGTCTTACACTGGCTT-CCACATCTCTATGCCGATGCCATGTCCCAGA
1 AGCCATGACCCAGACATGGTCTTACACTGGCTTACC-CA--TC-AAGCCGATGCCAAGTCCCAGA
*
61632487 TATGGTCTTACACTGAC
62 CATGGTCTTACACTGAC
61632504 ATGTCCAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 1 0.01
95 33 0.47
97 2 0.03
98 34 0.49
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (95 bp):
AGCCATGACCCAGACATGGTCTTACACTGGCTTACCCATCAAGCCGATGCCAAGTCCCAGACATG
GTCTTACACTGACTGTTGAAATCGAGGCCG
Found at i:61632527 original size:26 final size:27
Alignment explanation
Indices: 61632476--61632527 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
61632466 ATGCCGATGC
* * *
61632476 CATGTCCCAGATATGGTCTTACACTGA
1 CATGTCCAAGACATGGTCATACACTGA
61632503 CATGTCCAAGACAT-GTCATACACTG
1 CATGTCCAAGACATGGTCATACACTG
61632528 GCTTACATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (27 bp):
CATGTCCAAGACATGGTCATACACTGA
Found at i:61632638 original size:47 final size:45
Alignment explanation
Indices: 61632503--61632665 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 45
61632493 CTTACACTGA
* * * * *
61632503 CATGTCCAAGACATGTCATACACTGGCT-TACATCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCCATCA--ATGCCGATG
* *
61632549 CATGTCTCAGACATGTCTTACACTAGCTCTCGCCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-CATCAATGCCGATG
61632595 CCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-AATGTGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCCATCAA--TGCCGATG
61632642 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
61632666 GGCACACAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
45 12 0.12
46 48 0.47
47 22 0.22
48 20 0.20
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCCATCAATGCCGATG
Found at i:61642382 original size:36 final size:37
Alignment explanation
Indices: 61642340--61642420 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
61642330 TGACCTTGCC
*
61642340 ATGGTCTTGCAC-ATATCACAATGCCATAG-CCTCGCT
1 ATGGTCTTGCACTATATAACAATGCCATAGCCCT-GCT
* * **
61642376 ATGGTCTTTCACTTTATAATGATGCCATAGCCCTGCT
1 ATGGTCTTGCACTATATAACAATGCCATAGCCCTGCT
61642413 ATGGTCTT
1 ATGGTCTT
61642421 ACATGTACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 11 0.29
37 24 0.63
38 3 0.08
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (37 bp):
ATGGTCTTGCACTATATAACAATGCCATAGCCCTGCT
Found at i:61643683 original size:29 final size:28
Alignment explanation
Indices: 61643618--61643716 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
61643608 ATTCAGTAGC
*
61643618 AGCTAGGACACATTAAAAGCATGT-TTTA
1 AGCTAAGACACATTAAAA-CATGTATTTA
*
61643646 AGCTAAGACATATTAATAACATGTATTTA
1 AGCTAAGACACATTAA-AACATGTATTTA
* *
61643675 AGCTAAGACACATTTAAAACATATATTAA
1 AGCTAAGACACA-TTAAAACATGTATTTA
*
61643704 AAC-AAGACACATT
1 AGCTAAGACACATT
61643717 TAACACTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
27 2 0.03
28 27 0.44
29 29 0.47
30 4 0.06
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.28
Consensus pattern (28 bp):
AGCTAAGACACATTAAAACATGTATTTA
Found at i:61649267 original size:47 final size:47
Alignment explanation
Indices: 61649204--61649941 Score: 1040
Period size: 47 Copynumber: 15.6 Consensus size: 47
61649194 CCCTTCGGGA
* * *
61649204 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61649251 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61649298 CTTATCTCATATATGCA-TGTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
61649345 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61649392 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61649439 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
61649486 CTTAT-ATCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA-CATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61649533 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
61649580 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61649629 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61649676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61649723 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61649772 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61649819 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61649866 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61649915 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
61649942 TATTCAAATA
Statistics
Matches: 651, Mismatches: 30, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 513 0.79
48 1 0.00
49 135 0.21
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61649677 original size:143 final size:143
Alignment explanation
Indices: 61649204--61649941 Score: 1075
Period size: 143 Copynumber: 5.2 Consensus size: 143
61649194 CCCTTCGGGA
* * *
61649204 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
61649269 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCA-TGTTCACATCCATCAC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATCAC
*
61649331 ATTGGCCATTCGGC
130 ATTGGCCATTAGGC
* * * * *
61649345 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* *
61649409 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCA-TGTTCACATTCATC
65 CT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATC
*
61649470 ACATTGGCCATTCGGC
128 ACATTGGCCATTAGGC
* * *
61649486 CTTAT-ATCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 CTTATCA-CATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61649549 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATC
64 ACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATC
61649613 ACATTGGCCATTAGGC
128 ACATTGGCCATTAGGC
* * *
61649629 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
61649694 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
61649759 TCGGCCATTAGGC
131 TTGGCCATTAGGC
* * *
61649772 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
61649837 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACA
61649902 TTGGCCATTAGGC
131 TTGGCCATTAGGC
61649915 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
61649942 TATTCAAATA
Statistics
Matches: 562, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
140 3 0.01
141 223 0.40
143 332 0.59
144 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGC
Found at i:61651337 original size:85 final size:85
Alignment explanation
Indices: 61651204--61651382 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
61651194 TATTTTATTG
* *
61651204 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAAACATGTTTATGACATGTTTT
61651269 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
61651289 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAAACATGTTTATGACATGTTTT
61651354 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
61651374 CCCATGCTC
1 CCCATGCTC
61651383 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:61652896 original size:13 final size:13
Alignment explanation
Indices: 61652878--61652915 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
61652868 TTACTAAAAG
*
61652878 ATAATATATCATA
1 ATAATATCTCATA
*
61652891 ATAATATCCCATA
1 ATAATATCTCATA
61652904 ATAATATCTCAT
1 ATAATATCTCAT
61652916 TAGGAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATCTCATA
Found at i:61652971 original size:43 final size:43
Alignment explanation
Indices: 61652904--61652987 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
61652894 ATATCCCATA
* * *
61652904 ATAATATCTCATTAGGAATCAAATTGCTAAGAGATAATATCTT
1 ATAATATCTCAGTAAGAATCAAATTGCTAAAAGATAATATCTT
* *
61652947 ATAATATCTCAGTAAGAATTAAATTGTTAAAAGATAATATC
1 ATAATATCTCAGTAAGAATCAAATTGCTAAAAGATAATATC
61652988 CCATAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
ATAATATCTCAGTAAGAATCAAATTGCTAAAAGATAATATCTT
Found at i:61658006 original size:9 final size:10
Alignment explanation
Indices: 61657981--61658007 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
61657971 ATTTTTCTTT
61657981 GATTTTTATA
1 GATTTTTATA
61657991 GATTTTTATA
1 GATTTTTATA
61658001 GATTTTT
1 GATTTTT
61658008 TTTTTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (10 bp):
GATTTTTATA
Found at i:61665075 original size:40 final size:40
Alignment explanation
Indices: 61665031--61665202 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
61665021 GGACTAAGAT
*
61665031 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
61665071 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
61665111 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
61665151 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
61665190 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61665203 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:61665116 original size:80 final size:79
Alignment explanation
Indices: 61665031--61665202 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
61665021 GGACTAAGAT
*
61665031 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
61665095 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
61665111 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
61665176 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
61665190 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61665203 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:61665220 original size:79 final size:80
Alignment explanation
Indices: 61665058--61665235 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
61665048 AGATACAAAT
* * * *
61665058 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
61665123 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
61665138 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
61665202 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
61665217 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61665236 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:61667499 original size:48 final size:48
Alignment explanation
Indices: 61667367--61667542 Score: 218
Period size: 48 Copynumber: 3.8 Consensus size: 48
61667357 TCTGTGCTGT
* * *
61667367 TGCCATGTCCCAGACATGGTCTTACACTGGCA-T-ATCTC-GTATCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATA-CCGA
* * *
61667413 TG-CATGTCGCAGACAT-GTCTTACACTAGTACTCGTCTCAATACCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATACCGA
* *
61667459 TGCCATGTCCCAGACATGGTTTTACACTAGCACTCATCTCAATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATACCGA
* *
61667507 TGCCATGTCCCATACATGGTCTTACACTAGCTCTCA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCA
61667543 AACCTGGACA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
44 12 0.11
45 14 0.13
46 11 0.10
47 15 0.14
48 59 0.53
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATACCGA
Found at i:61670309 original size:27 final size:27
Alignment explanation
Indices: 61670278--61670455 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
61670268 TAAATTGTAC
61670278 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61670305 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61670331 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61670359 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
61670387 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61670414 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61670441 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61670456 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61670392 original size:82 final size:81
Alignment explanation
Indices: 61670279--61670434 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
61670269 AAATTGTACA
*
61670279 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
61670343 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61670360 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
61670425 TGCGAGTTGA
65 TGCGAATTGA
61670435 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61670446 original size:82 final size:81
Alignment explanation
Indices: 61670275--61670455 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
61670265 GATTAAATTG
*
61670275 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
61670340 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61670356 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
61670420 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61670438 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61670456 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61678363 original size:27 final size:27
Alignment explanation
Indices: 61678332--61678509 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
61678322 TAAATTGTAC
61678332 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61678359 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61678385 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61678413 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
61678441 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61678468 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61678495 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61678510 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61678446 original size:82 final size:81
Alignment explanation
Indices: 61678333--61678488 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
61678323 AAATTGTACA
*
61678333 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
61678397 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61678414 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
61678479 TGCGAGTTGA
65 TGCGAATTGA
61678489 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61678500 original size:82 final size:81
Alignment explanation
Indices: 61678329--61678509 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
61678319 GATTAAATTG
*
61678329 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
61678394 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61678410 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
61678474 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61678492 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61678510 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61683220 original size:24 final size:24
Alignment explanation
Indices: 61683190--61683281 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
61683180 ATTGACATTT
*
61683190 AAATCCGCACACATAGTGCTATAC
1 AAATCCGCACACATAGTGCCATAC
*
61683214 AAGTCCGCACACATAGTGCCATAC
1 AAATCCGCACACATAGTGCCATAC
* * *
61683238 AATTTCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATAC
*
61683262 AAATTCGCACACATAGTGCC
1 AAATCCGCACACATAGTGCC
61683282 GAAGTCAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATAC
Found at i:61705512 original size:39 final size:40
Alignment explanation
Indices: 61705408--61705748 Score: 509
Period size: 39 Copynumber: 8.7 Consensus size: 40
61705398 CATTTGAATG
61705408 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61705448 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61705488 ATAT-CGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
61705527 ATAT-CGGGCTAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61705565 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61705605 -TATCCGGGCTAAGA-CCGACA-GCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGA-AGGCATTTGTGCGAATTGAT
*
61705643 ATATCCGGGCTAAGA-CCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
61705682 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61705722 ATACCCGGGTTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
61705749 GAGCTTGTGG
Statistics
Matches: 276, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
38 50 0.18
39 116 0.42
40 109 0.39
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:61713027 original size:40 final size:40
Alignment explanation
Indices: 61712973--61713317 Score: 550
Period size: 40 Copynumber: 8.6 Consensus size: 40
61712963 CATTTGAATG
61712973 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61713013 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61713053 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
61713093 ATATCCGGGCTAAGACCCGAAGGCATTTGTG-GAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-AATTGAT
* *
61713133 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61713173 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61713213 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
61713253 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61713293 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
61713318 ATTGAGCTTG
Statistics
Matches: 282, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.01
40 277 0.98
41 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:61718953 original size:16 final size:16
Alignment explanation
Indices: 61718932--61718963 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61718922 AAGAAAGGAG
61718932 AAAAAAATGTGTTCAT
1 AAAAAAATGTGTTCAT
61718948 AAAAAAATGTGTTCAT
1 AAAAAAATGTGTTCAT
61718964 CCTTTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
AAAAAAATGTGTTCAT
Found at i:61720622 original size:40 final size:40
Alignment explanation
Indices: 61720568--61720912 Score: 548
Period size: 40 Copynumber: 8.6 Consensus size: 40
61720558 CATTTGAATG
*
61720568 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61720608 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61720648 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61720688 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61720728 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61720768 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61720808 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
61720848 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61720888 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
61720913 ATTGAGCTTG
Statistics
Matches: 281, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 278 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:61725853 original size:45 final size:45
Alignment explanation
Indices: 61725789--61725965 Score: 238
Period size: 45 Copynumber: 4.0 Consensus size: 45
61725779 ATTATTGTAC
61725789 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
61725834 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
61725879 GATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATACCGGTGA
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
** * *
61725924 -A-AGGATATCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 GACACTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
61725966 ATGAATTCGG
Statistics
Matches: 120, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
42 11 0.09
43 16 0.13
44 11 0.09
45 82 0.68
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:61727359 original size:17 final size:16
Alignment explanation
Indices: 61727313--61727360 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
61727303 TCAAGGTTCT
61727313 TTTTAATTTTTA-TTC
1 TTTTAATTTTTATTTC
**
61727328 TATTTTGTTTTTATTTC
1 T-TTTAATTTTTATTTC
61727345 TTTTAATTTTCTATTT
1 TTTTAATTTT-TATTT
61727361 AACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 16 0.62
17 9 0.35
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTTATTTC
Found at i:61729647 original size:25 final size:24
Alignment explanation
Indices: 61729602--61729651 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
61729592 CAGCAGTTTT
*
61729602 AAATTGCTTTTGAGAGCAAAGGAAA
1 AAATTGCTTTTGAGAG-AAAAGAAA
*
61729627 AAATTGC-TTTGAAGGGAAAAGAAA
1 AAATTGCTTTTG-AGAGAAAAGAAA
61729651 A
1 A
61729652 GTCAAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.22
Consensus pattern (24 bp):
AAATTGCTTTTGAGAGAAAAGAAA
Found at i:61732160 original size:134 final size:134
Alignment explanation
Indices: 61731991--61732262 Score: 535
Period size: 134 Copynumber: 2.0 Consensus size: 134
61731981 ATTATAATAT
61731991 AAGATAAATATAATTTTGAGAGAATCTTGATTCACATATTAAGTGGGTAATATTGACTGTATCCA
1 AAGATAAATATAATTTTGAGAGAATCTTGATTCACATATTAAGTGGGTAATATTGACTGTATCCA
61732056 ATGTTACATATCACATAATCTTGGTCATAAAAGTTTCCTACAATTTAGAGGGGAATTAGATAACC
66 ATGTTACATATCACATAATCTTGGTCATAAAAGTTTCCTACAATTTAGAGGGGAATTAGATAACC
61732121 CTCC
131 CTCC
61732125 AAGATAAATATAATTTTGAGAGAATCTTGATTCACATATTAAGTGGGTAATATTGACTGTATCCA
1 AAGATAAATATAATTTTGAGAGAATCTTGATTCACATATTAAGTGGGTAATATTGACTGTATCCA
*
61732190 ATGTTACATATCACATAATCTTGGTCATAAAAGTTTCCTACAATTTAGATGGGAATTAGATAACC
66 ATGTTACATATCACATAATCTTGGTCATAAAAGTTTCCTACAATTTAGAGGGGAATTAGATAACC
61732255 CTCC
131 CTCC
61732259 AAGA
1 AAGA
61732263 CAATGATCTG
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 137 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (134 bp):
AAGATAAATATAATTTTGAGAGAATCTTGATTCACATATTAAGTGGGTAATATTGACTGTATCCA
ATGTTACATATCACATAATCTTGGTCATAAAAGTTTCCTACAATTTAGAGGGGAATTAGATAACC
CTCC
Found at i:61732458 original size:74 final size:74
Alignment explanation
Indices: 61732344--61732491 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
61732334 TATCTCATAA
61732344 ATCTAAGTTTCTTGACCATACATCTAATTCAGATTCAAAATGCCTTTCCCTTCCCTGCTAACAGA
1 ATCTAAGTTTCTTGACCATACATCTAATTCAGATTCAAAATGCCTTTCCCTTCCCTGCTAACAGA
61732409 AGAAATATT
66 AGAAATATT
61732418 ATCTAAGTTTCTTGACCATACATCTAATTCAGATTCAAAATGCCTTTCCCTTCCCTGCTAACAGA
1 ATCTAAGTTTCTTGACCATACATCTAATTCAGATTCAAAATGCCTTTCCCTTCCCTGCTAACAGA
61732483 AGAAATATT
66 AGAAATATT
61732492 CTCCCTATAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.34
Consensus pattern (74 bp):
ATCTAAGTTTCTTGACCATACATCTAATTCAGATTCAAAATGCCTTTCCCTTCCCTGCTAACAGA
AGAAATATT
Found at i:61742863 original size:291 final size:291
Alignment explanation
Indices: 61742339--61742922 Score: 1168
Period size: 291 Copynumber: 2.0 Consensus size: 291
61742329 AACAAAACAT
61742339 GCCTTAAAACTTTGTAGTTAATAACTTAGACTACCGTATGATTTCAATTAGGTAGGTATCCAGCA
1 GCCTTAAAACTTTGTAGTTAATAACTTAGACTACCGTATGATTTCAATTAGGTAGGTATCCAGCA
61742404 AAAAGTATAACTAGGTTCAAAAATAAATCCCAATGAATAGAAAGAAAGCTAAATTTCAATCATGT
66 AAAAGTATAACTAGGTTCAAAAATAAATCCCAATGAATAGAAAGAAAGCTAAATTTCAATCATGT
61742469 TTTATGCACTCCTAAATTACACTATGTGCAATAAACAAATGAATAATGCAATTATATAAAAAGGG
131 TTTATGCACTCCTAAATTACACTATGTGCAATAAACAAATGAATAATGCAATTATATAAAAAGGG
61742534 AACCTGATAATCAACACTAGAAGATGGGCCCATCATAGGCTCTATTTGTTTACAAACACTAGCTT
196 AACCTGATAATCAACACTAGAAGATGGGCCCATCATAGGCTCTATTTGTTTACAAACACTAGCTT
61742599 TGATTATCATATCATATAAAGAAAGAGCCCC
261 TGATTATCATATCATATAAAGAAAGAGCCCC
61742630 GCCTTAAAACTTTGTAGTTAATAACTTAGACTACCGTATGATTTCAATTAGGTAGGTATCCAGCA
1 GCCTTAAAACTTTGTAGTTAATAACTTAGACTACCGTATGATTTCAATTAGGTAGGTATCCAGCA
61742695 AAAAGTATAACTAGGTTCAAAAATAAATCCCAATGAATAGAAAGAAAGCTAAATTTCAATCATGT
66 AAAAGTATAACTAGGTTCAAAAATAAATCCCAATGAATAGAAAGAAAGCTAAATTTCAATCATGT
61742760 TTTATGCACTCCTAAATTACACTATGTGCAATAAACAAATGAATAATGCAATTATATAAAAAGGG
131 TTTATGCACTCCTAAATTACACTATGTGCAATAAACAAATGAATAATGCAATTATATAAAAAGGG
61742825 AACCTGATAATCAACACTAGAAGATGGGCCCATCATAGGCTCTATTTGTTTACAAACACTAGCTT
196 AACCTGATAATCAACACTAGAAGATGGGCCCATCATAGGCTCTATTTGTTTACAAACACTAGCTT
61742890 TGATTATCATATCATATAAAGAAAGAGCCCC
261 TGATTATCATATCATATAAAGAAAGAGCCCC
61742921 GC
1 GC
61742923 TATTATAAAT
Statistics
Matches: 293, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 293 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (291 bp):
GCCTTAAAACTTTGTAGTTAATAACTTAGACTACCGTATGATTTCAATTAGGTAGGTATCCAGCA
AAAAGTATAACTAGGTTCAAAAATAAATCCCAATGAATAGAAAGAAAGCTAAATTTCAATCATGT
TTTATGCACTCCTAAATTACACTATGTGCAATAAACAAATGAATAATGCAATTATATAAAAAGGG
AACCTGATAATCAACACTAGAAGATGGGCCCATCATAGGCTCTATTTGTTTACAAACACTAGCTT
TGATTATCATATCATATAAAGAAAGAGCCCC
Found at i:61745667 original size:36 final size:36
Alignment explanation
Indices: 61745620--61745692 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
61745610 ACTTATAGAG
61745620 TAAACTATCAAGAGACGTTTGCCCCTGTTGCCAAAA
1 TAAACTATCAAGAGACGTTTGCCCCTGTTGCCAAAA
61745656 TAAACTATCAAGAGACGTTTGCCCCTGTTGCCAAAA
1 TAAACTATCAAGAGACGTTTGCCCCTGTTGCCAAAA
61745692 T
1 T
61745693 GAACACCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (36 bp):
TAAACTATCAAGAGACGTTTGCCCCTGTTGCCAAAA
Found at i:61746663 original size:30 final size:31
Alignment explanation
Indices: 61746627--61746689 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
61746617 ACTTATTTTA
*
61746627 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
* *
61746657 TTGTTAATTTTTTTTATTATTTTAGAGACAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
61746688 TT
1 TT
61746690 TCTTGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.60
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGACAT
Found at i:61748132 original size:21 final size:20
Alignment explanation
Indices: 61748093--61748138 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
61748083 TTTTAGAATT
* *
61748093 TTTTTAAAAGAATTTTATAA
1 TTTTTAAAAAAATTATATAA
61748113 TTTTTAAAAAAATATATATAAA
1 TTTTTAAAAAAAT-TATAT-AA
61748135 TTTT
1 TTTT
61748139 GGAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTTTAAAAAAATTATATAA
Found at i:61748519 original size:18 final size:20
Alignment explanation
Indices: 61748496--61748533 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61748486 ATAAAAATAT
61748496 CAAATA-TATAT-AAATTCA
1 CAAATATTATATAAAATTCA
61748514 CAAATATTATATAAAATTCA
1 CAAATATTATATAAAATTCA
61748534 AAAAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
CAAATATTATATAAAATTCA
Found at i:61748544 original size:20 final size:21
Alignment explanation
Indices: 61748497--61748544 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
61748487 TAAAAATATC
61748497 AAATATATATAAATTCACAAA
1 AAATATATATAAATTCACAAA
* *
61748518 TATTATATA-AAATTCA-AAA
1 AAATATATATAAATTCACAAA
61748537 AACATATA
1 AA-ATATA
61748545 AGTACTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATATATAAATTCACAAA
Found at i:61752832 original size:13 final size:13
Alignment explanation
Indices: 61752816--61752852 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
61752806 TTTGTTTTCC
61752816 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
61752829 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
61752842 TTTTCCTTTTT
1 TTTT-CTTTTT
61752853 ACAACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:61752836 original size:18 final size:17
Alignment explanation
Indices: 61752810--61752845 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
61752800 GTATACTTTG
61752810 TTTTCCTTTTCTTTTTTT
1 TTTTCCTTTT-TTTTTTT
*
61752828 TTTTTCTTTTTTTTTTT
1 TTTTCCTTTTTTTTTTT
61752845 T
1 T
61752846 CCTTTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTCCTTTTTTTTTTT
Found at i:61752838 original size:14 final size:14
Alignment explanation
Indices: 61752816--61752852 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
61752806 TTTGTTTTCC
61752816 TTTTC-TTTTTTTT
1 TTTTCTTTTTTTTT
61752829 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
*
61752843 TTTCCTTTTT
1 TTTTCTTTTT
61752853 ACAACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:61755218 original size:89 final size:89
Alignment explanation
Indices: 61755068--61755256 Score: 276
Period size: 89 Copynumber: 2.1 Consensus size: 89
61755058 CTTAAGGGTG
61755068 TAAAAA-GCCCTCAAAATTTTTCAAAAAACACAATTAAGCCCCTGCTTTTTTTTGCACTCAATTG
1 TAAAAAGGCCCTCAAAATTTTTCAAAAAACACAATTAAGCCCCTGCTTTTTTTTGCACTCAATTG
* *
61755132 AGTACTTGAACTTTCAAAATGCAT
66 AGTACTTGAACTATCAAAAAGCAT
* *
61755156 TAAAAAGGCCCTCAAACTTTTTCAAAAAA-AGCAATTAAGCCCTTG-TTTTTTTCTGCACTCAAT
1 TAAAAAGGCCCTCAAAATTTTTCAAAAAACA-CAATTAAGCCCCTGCTTTTTTT-TGCACTCAAT
*
61755219 TGGGTACTTGAACTATCAAAAAGCAT
64 TGAGTACTTGAACTATCAAAAAGCAT
* *
61755245 CAAAAAGACCCT
1 TAAAAAGGCCCT
61755257 TTAACCATTA
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
88 14 0.15
89 77 0.85
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (89 bp):
TAAAAAGGCCCTCAAAATTTTTCAAAAAACACAATTAAGCCCCTGCTTTTTTTTGCACTCAATTG
AGTACTTGAACTATCAAAAAGCAT
Found at i:61758510 original size:16 final size:17
Alignment explanation
Indices: 61758483--61758530 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
61758473 AATGTACAAC
* *
61758483 ATTATAATATAAATCAA
1 ATTATTATATAAATAAA
*
61758500 A-TATTATATAATTTAAA
1 ATTATTATATAA-ATAAA
61758517 ATTATTATATAAAT
1 ATTATTATATAAAT
61758531 GTATTTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.36
17 6 0.24
18 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATTATATAAATAAA
Found at i:61758527 original size:34 final size:36
Alignment explanation
Indices: 61758464--61758530 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
61758454 AATTTATTGT
61758464 ATATAATATAATGTACAACATTATAATATAAATCAA
1 ATATAATATAATGTACAACATTATAATATAAATCAA
* * *
61758500 ATATTATATAATTTA-AA-ATTATTATATAAAT
1 ATATAATATAATGTACAACATTATAATATAAAT
61758531 GTATTTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 13 0.46
35 2 0.07
36 13 0.46
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (36 bp):
ATATAATATAATGTACAACATTATAATATAAATCAA
Found at i:61763325 original size:13 final size:13
Alignment explanation
Indices: 61763307--61763339 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
61763297 AGTTTTGAAC
*
61763307 TGTTTTCAAGATA
1 TGTTTTAAAGATA
61763320 TGTTTTAAAGATA
1 TGTTTTAAAGATA
61763333 TGTTTTA
1 TGTTTTA
61763340 CACGTGCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (13 bp):
TGTTTTAAAGATA
Found at i:61767407 original size:48 final size:48
Alignment explanation
Indices: 61767336--61768248 Score: 1423
Period size: 48 Copynumber: 19.0 Consensus size: 48
61767326 CAAGACAAAT
* * *
61767336 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61767384 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTTTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61767432 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
61767480 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
61767528 ATATATATGTGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
61767576 ATATGTATATGTGGCAAAGCCGAATGGCTAATATGAAATATGTTTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
61767624 ATATATATTTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
61767672 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61767720 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61767768 ATATGTATATGTGGTAAAGCC-AATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61767815 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
61767863 ATATGTATATGTGGTAAAGTCGAATGGCTAATATGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61767911 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
61767959 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61768007 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61768055 ATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61768103 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
61768151 ATATATATATGTGGTAAATCTGAATGGCTAATGTGAAATATGCATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61768199 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
61768247 AT
1 AT
61768249 GTGTGTATAT
Statistics
Matches: 787, Mismatches: 77, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
47 47 0.06
48 740 0.94
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:61768439 original size:37 final size:37
Alignment explanation
Indices: 61768389--61768490 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
61768379 GGAAATATAT
61768389 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
61768426 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
61768463 TTCGGGTAAGACCCGATAACTACATGTG
1 TCCGGGTAAGACCCGATGACTACGTGTG
61768491 AATATGATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:61772931 original size:35 final size:35
Alignment explanation
Indices: 61772866--61772933 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
61772856 ATTGCTAGGG
*
61772866 CAAACACCTAGTAGTACTACTTCAAGTGTGCTTAA
1 CAAACACCTAGTAGTACTACCTCAAGTGTGCTTAA
* * *
61772901 CAAACACCTATTAGTACTACCTCTATTGTGCTT
1 CAAACACCTAGTAGTACTACCTCAAGTGTGCTT
61772934 GCACATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (35 bp):
CAAACACCTAGTAGTACTACCTCAAGTGTGCTTAA
Found at i:61773067 original size:9 final size:9
Alignment explanation
Indices: 61773049--61773079 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61773039 AGAATTACAG
*
61773049 TAAAGTAAA
1 TAAAGAAAA
61773058 TAAAGAAAA
1 TAAAGAAAA
61773067 TAAAGAAAA
1 TAAAGAAAA
61773076 TAAA
1 TAAA
61773080 ACATGAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (9 bp):
TAAAGAAAA
Done.