Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 126 of 204
Found at i:38997748 original size:7 final size:7
Alignment explanation
Indices: 38997736--38997811 Score: 91
Period size: 7 Copynumber: 10.9 Consensus size: 7
38997726 CTAAGGATTG
38997736 AAAATTT
1 AAAATTT
38997743 AAAATTT
1 AAAATTT
38997750 AAAATTT
1 AAAATTT
38997757 AAAATTT
1 AAAATTT
38997764 AAAA-TT
1 AAAATTT
38997770 AAAATTT
1 AAAATTT
38997777 AAAATTT
1 AAAATTT
* *
38997784 GAAGATTA
1 -AAAATTT
*
38997792 AAAATAT
1 AAAATTT
*
38997799 AAAGTTT
1 AAAATTT
*
38997806 GAAATT
1 AAAATT
38997812 GGGGATTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
6 6 0.10
7 47 0.81
8 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:38997825 original size:7 final size:7
Alignment explanation
Indices: 38997815--38997848 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
38997805 TGAAATTGGG
38997815 GATTGAA
1 GATTGAA
*
38997822 GATTGAG
1 GATTGAA
38997829 GATTGAA
1 GATTGAA
*
38997836 GATTGAT
1 GATTGAA
38997843 GATTGA
1 GATTGA
38997849 GAATTTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (7 bp):
GATTGAA
Found at i:38997826 original size:14 final size:14
Alignment explanation
Indices: 38997804--38997848 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
38997794 AATATAAAGT
*
38997804 TTGAA-ATTGGGGA
1 TTGAAGATTGAGGA
38997817 TTGAAGATTGAGGA
1 TTGAAGATTGAGGA
*
38997831 TTGAAGATTGATGA
1 TTGAAGATTGAGGA
38997845 TTGA
1 TTGA
38997849 GAATTTAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (14 bp):
TTGAAGATTGAGGA
Found at i:38998960 original size:40 final size:40
Alignment explanation
Indices: 38998916--38999017 Score: 177
Period size: 40 Copynumber: 2.5 Consensus size: 40
38998906 TGGACTTAAA
* *
38998916 ATCTCAATCCATGATGACAAGCCCATGTGGAAGATGTAAC
1 ATCTCAATCCATGATGACAAGCCCATATGGAAGATATAAC
*
38998956 ATCTCAATCCATGATGGCAAGCCCATATGGAAGATATAAC
1 ATCTCAATCCATGATGACAAGCCCATATGGAAGATATAAC
38998996 ATCTCAATCCATGATGACAAGC
1 ATCTCAATCCATGATGACAAGC
38999018 TCACATGCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (40 bp):
ATCTCAATCCATGATGACAAGCCCATATGGAAGATATAAC
Found at i:38999608 original size:27 final size:28
Alignment explanation
Indices: 38999556--38999608 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
38999546 AGTTAATAAA
*
38999556 TTCTCTTTGAGTTTTTCTTTTAAAGAAT
1 TTCTCTTTGAGTTTGTCTTTTAAAGAAT
38999584 TTCTC-TTGAGTTTGT-TTTTAGAAGA
1 TTCTCTTTGAGTTTGTCTTTTA-AAGA
38999609 GTTTTAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 13 0.57
28 5 0.22
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (28 bp):
TTCTCTTTGAGTTTGTCTTTTAAAGAAT
Found at i:39000302 original size:19 final size:19
Alignment explanation
Indices: 39000261--39000303 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
39000251 ATATTATGTA
**
39000261 TAATTTTAAGATTTATTTC
1 TAATTTTAAGATTTAAGTC
* *
39000280 TAATTTTAAGTTTTAAGTG
1 TAATTTTAAGATTTAAGTC
39000299 TAATT
1 TAATT
39000304 AATATATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (19 bp):
TAATTTTAAGATTTAAGTC
Found at i:39004456 original size:20 final size:20
Alignment explanation
Indices: 39004413--39004459 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
39004403 TTGAGTAGTT
* **
39004413 TAATTTTTTTAAATTTTTTT
1 TAATTTTTTTAAATTTCTCA
*
39004433 TAATTTTTTTTAATTTCTCA
1 TAATTTTTTTAAATTTCTCA
39004453 TAATTTT
1 TAATTTT
39004460 AATTTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TAATTTTTTTAAATTTCTCA
Found at i:39004468 original size:10 final size:10
Alignment explanation
Indices: 39004411--39004448 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
39004401 ATTTGAGTAG
39004411 TTTAATTTTT
1 TTTAATTTTT
*
39004421 TTAAATTTTT
1 TTTAATTTTT
39004431 TTTAATTTTT
1 TTTAATTTTT
39004441 TTTAATTT
1 TTTAATTT
39004449 CTCATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:39008669 original size:40 final size:40
Alignment explanation
Indices: 39008620--39008717 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
39008610 TTCCGTACAT
*
39008620 CGGCATTAAGCCTGCTAGACGTATAGTCTGAATATTTCAC
1 CGGCATTAAGCCTGCTAGACGTATAGTCTAAATATTTCAC
39008660 CGGCATTAAGCCTGCTAGACGTATAGTCTAAATATTTCAC
1 CGGCATTAAGCCTGCTAGACGTATAGTCTAAATATTTCAC
*
39008700 CGGTATTAAGCCTGCTAG
1 CGGCATTAAGCCTGCTAG
39008718 GCAAAAGCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (40 bp):
CGGCATTAAGCCTGCTAGACGTATAGTCTAAATATTTCAC
Found at i:39009325 original size:47 final size:47
Alignment explanation
Indices: 39009272--39009368 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
39009262 TAAATTACAA
39009272 GGTTTTATTTAATTTACACATTTTAAGTTCTAACTTATCATATGTAT
1 GGTTTTATTTAATTTACACATTTTAAGTTCTAACTTATCATATGTAT
39009319 GGTTTTATTTAATTTACACATTTTAAGTTCTAACTTATCATATGTAT
1 GGTTTTATTTAATTTACACATTTTAAGTTCTAACTTATCATATGTAT
39009366 GGT
1 GGT
39009369 AAATAAATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (47 bp):
GGTTTTATTTAATTTACACATTTTAAGTTCTAACTTATCATATGTAT
Found at i:39010924 original size:24 final size:23
Alignment explanation
Indices: 39010889--39010948 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
39010879 CTTTTAAAGT
*
39010889 ACCCTAATCCTAAAAAAACCAAAA
1 ACCCTAACCCTAAAAAAA-CAAAA
* *
39010913 ACCCTAACCCTACAAAAATAAAA
1 ACCCTAACCCTAAAAAAACAAAA
*
39010936 AGCTCTAACCCTA
1 A-CCCTAACCCTA
39010949 GAGAGAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.15
Consensus pattern (23 bp):
ACCCTAACCCTAAAAAAACAAAA
Found at i:39010986 original size:16 final size:16
Alignment explanation
Indices: 39010965--39011000 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
39010955 GAAAGTGAAA
39010965 GCGCGTCCAGTTGGGT
1 GCGCGTCCAGTTGGGT
39010981 GCGCGTCCAGTTGGGT
1 GCGCGTCCAGTTGGGT
39010997 GCGC
1 GCGC
39011001 TTCCTGCGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.28, G:0.44, T:0.22
Consensus pattern (16 bp):
GCGCGTCCAGTTGGGT
Found at i:39021335 original size:16 final size:16
Alignment explanation
Indices: 39021301--39021336 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39021291 TTTTACATAA
**
39021301 ATATAAATATTTGTTT
1 ATATAAATATTTGCAT
39021317 ATATAAATATTTGCAT
1 ATATAAATATTTGCAT
39021333 ATAT
1 ATAT
39021337 TAATTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
ATATAAATATTTGCAT
Found at i:39024703 original size:30 final size:30
Alignment explanation
Indices: 39024669--39024728 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
39024659 ACTTAATAAG
39024669 CAAATGCCTCTAAAACAATAACAAAATTAA
1 CAAATGCCTCTAAAACAATAACAAAATTAA
* *
39024699 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAACAATAACAAAATTAA
39024729 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCTAAAACAATAACAAAATTAA
Found at i:39026425 original size:23 final size:23
Alignment explanation
Indices: 39026389--39026456 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
39026379 CCACAATAAT
39026389 AATCGCA-CAGAAGTGCTAGTATA-
1 AATCGCACCA-AAGTGCTAGTA-AC
* *
39026412 AATCGCACCAAAGT-ATCAATAAC
1 AATCGCACCAAAGTGCT-AGTAAC
*
39026435 AATCGCACCAAAGTGCCAGTAA
1 AATCGCACCAAAGTGCTAGTAA
39026457 GTTCCCACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 2 0.06
23 32 0.89
24 2 0.06
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (23 bp):
AATCGCACCAAAGTGCTAGTAAC
Found at i:39030568 original size:29 final size:30
Alignment explanation
Indices: 39030526--39030584 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
39030516 ATTCTACTTG
39030526 GGAGGGTAAGCCTT-AACTTTTAACCCATA
1 GGAGGGTAAGCCTTGAACTTTTAACCCATA
39030555 GGAGGGTAAGCCTTGAACTTTTAACCCATA
1 GGAGGGTAAGCCTTGAACTTTTAACCCATA
39030585 CATTGTTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (30 bp):
GGAGGGTAAGCCTTGAACTTTTAACCCATA
Found at i:39031465 original size:12 final size:12
Alignment explanation
Indices: 39031448--39031492 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
39031438 TTCATATAAG
39031448 AATAATTTTATT
1 AATAATTTTATT
39031460 AATAATTTTATT
1 AATAATTTTATT
* *
39031472 AAATTATATTTAAT
1 -AATAAT-TTTATT
39031486 AATAATT
1 AATAATT
39031493 ATGTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 13 0.46
13 10 0.36
14 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATAATTTTATT
Found at i:39031510 original size:26 final size:26
Alignment explanation
Indices: 39031454--39031504 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
39031444 TAAGAATAAT
* * *
39031454 TTTATTAATAATTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATA
*
39031480 TTTAATAATAATTATGTTAAAATAT
1 TTTAATAATAATTATATTAAAATAT
39031505 GATTAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTAATAATAATTATATTAAAATATA
Found at i:39031731 original size:45 final size:44
Alignment explanation
Indices: 39031639--39031731 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
39031629 ATTACAACAT
* *
39031639 CATTCCATTCAACCAAACACAAGAATATTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAATTCTATTC
*
39031683 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAATTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAATTCTATTC
39031728 CATT
1 CATT
39031732 ACACCGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAATTCTATTC
Found at i:39051791 original size:17 final size:18
Alignment explanation
Indices: 39051769--39051804 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39051759 TTTTAATGTC
*
39051769 ATTA-TTTTTCTTTTGTA
1 ATTATTTTTTATTTTGTA
39051786 ATTATTTTTTATTTTGTA
1 ATTATTTTTTATTTTGTA
39051804 A
1 A
39051805 AATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTATTTTTTATTTTGTA
Found at i:39056406 original size:159 final size:159
Alignment explanation
Indices: 39056117--39056436 Score: 595
Period size: 159 Copynumber: 2.0 Consensus size: 159
39056107 ATAGGGAGAG
* *
39056117 TTTAAAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTGATTGTCTCGAGGACCT
1 TTTAAAGAGTTCAACTATGATTAAACCTAATCACTTTAATATGAAATTGATTGTCTCGAGGACCT
* *
39056182 GAGGATGGAAGTTGTAATGTGATAGTCGTAATTTGGAAATTGAAATTGAAATTTGAAATAGTGTT
66 AAGGATGGAAGTTGTAATGTGATAGTCGTAATTTGGAAATTGAAATTGAAATTTGAAAGAGTGTT
39056247 TAATTAAAATTTTTGAAAAGGAAAATAAC
131 TAATTAAAATTTTTGAAAAGGAAAATAAC
*
39056276 TTTAAAGAGTTCAACTATGATTAAACCTAATCACTTTAATATGAAATTGATTGTCTCGAGGATCT
1 TTTAAAGAGTTCAACTATGATTAAACCTAATCACTTTAATATGAAATTGATTGTCTCGAGGACCT
39056341 AAGGATGGAAGTTGTAATGTGATAGTCGTAATTTGGAAATTGAAATTGAAATTTGAAAGAGTGTT
66 AAGGATGGAAGTTGTAATGTGATAGTCGTAATTTGGAAATTGAAATTGAAATTTGAAAGAGTGTT
39056406 TAATTAAAATTTTTGAAAAGGAAAATAAC
131 TAATTAAAATTTTTGAAAAGGAAAATAAC
39056435 TT
1 TT
39056437 GAAAACTTAA
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 156 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (159 bp):
TTTAAAGAGTTCAACTATGATTAAACCTAATCACTTTAATATGAAATTGATTGTCTCGAGGACCT
AAGGATGGAAGTTGTAATGTGATAGTCGTAATTTGGAAATTGAAATTGAAATTTGAAAGAGTGTT
TAATTAAAATTTTTGAAAAGGAAAATAAC
Found at i:39056458 original size:15 final size:16
Alignment explanation
Indices: 39056438--39056468 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39056428 AAATAACTTG
39056438 AAAACTT-AAAATTTT
1 AAAACTTAAAAATTTT
39056453 AAAACTTAAAAATTTT
1 AAAACTTAAAAATTTT
39056469 GATAAATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAACTTAAAAATTTT
Found at i:39057385 original size:16 final size:15
Alignment explanation
Indices: 39057352--39057402 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
39057342 AAGTAATATG
39057352 TAAAATAACTTT-AAA
1 TAAAATAA-TTTAAAA
39057367 TAAAATAATTTGAAAA
1 TAAAATAATTT-AAAA
*
39057383 TAAACAAAATTTTAAAA
1 TAAA-ATAA-TTTAAAA
39057400 TAA
1 TAA
39057403 CATATGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 3 0.10
15 8 0.26
16 7 0.23
17 10 0.32
18 3 0.10
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAAATAATTTAAAA
Found at i:39057399 original size:17 final size:16
Alignment explanation
Indices: 39057364--39057402 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
39057354 AAATAACTTT
*
39057364 AAATAAAATAATTTGA
1 AAATAAAAAAATTTGA
*
39057380 AAATAAACAAAATTTTA
1 AAATAAA-AAAATTTGA
39057397 AAATAA
1 AAATAA
39057403 CATATGTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAATAAAAAAATTTGA
Found at i:39058985 original size:23 final size:23
Alignment explanation
Indices: 39058954--39059008 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
39058944 CAGAGATTTC
* *
39058954 TACTATTCATACTAGAAAATATT
1 TACTGTTCACACTAGAAAATATT
* *
39058977 TACTGTTCACGCTAGAGAATATT
1 TACTGTTCACACTAGAAAATATT
39059000 T-CTTGTTCA
1 TAC-TGTTCA
39059009 ATCATGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (23 bp):
TACTGTTCACACTAGAAAATATT
Found at i:39061892 original size:26 final size:26
Alignment explanation
Indices: 39061863--39061939 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
39061853 ACACCAATAT
*
39061863 CGCAGCAAAGCTGTCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
39061889 CGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
39061915 CGTAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
39061940 TATGTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:39062110 original size:27 final size:27
Alignment explanation
Indices: 39062080--39062138 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
39062070 ATCTCCTAGA
39062080 GGTATAACAATCATTTTACCCTATGGG
1 GGTATAACAATCATTTTACCCTATGGG
** **
39062107 GGTATTTCGGTCATTTTACCCTATGGG
1 GGTATAACAATCATTTTACCCTATGGG
*
39062134 AGTAT
1 GGTAT
39062139 TTCGGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (27 bp):
GGTATAACAATCATTTTACCCTATGGG
Found at i:39062139 original size:27 final size:27
Alignment explanation
Indices: 39062090--39062149 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
39062080 GGTATAACAA
*
39062090 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGAGTATTTCGG
39062117 TCATTTTACCCTATGGGAGTATTTCGG
1 TCATTTTACCCTATGGGAGTATTTCGG
*
39062144 TTATTT
1 TCATTT
39062150 ATTGATCGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGGGAGTATTTCGG
Found at i:39064600 original size:20 final size:20
Alignment explanation
Indices: 39064575--39064612 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39064565 AAAGGTTAAC
39064575 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
39064595 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
39064613 AATAAAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:39066080 original size:98 final size:98
Alignment explanation
Indices: 39065906--39066102 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
39065896 GTACAATAAA
*
39065906 ACTTTAAAAGAAAATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAAAATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
39065971 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* * *
39066004 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTATGGCACAATT
1 ACTTTAAAAGAAAATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
39066069 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
39066102 A
1 A
39066103 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAAAATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:39067437 original size:19 final size:19
Alignment explanation
Indices: 39067410--39067522 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
39067400 AATCATATAT
39067410 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
39067429 TCCAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
39067448 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39067467 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
** *
39067488 TCTTGGATTGCATATTATA
1 TCTAAGATTGCATATCATA
39067507 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
39067523 CTCAAAAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 61 0.78
21 17 0.22
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:39067497 original size:40 final size:40
Alignment explanation
Indices: 39067410--39067521 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
39067400 AATCATATAT
* *
39067410 TCTAAGATTGCATATCATATCCAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
39067448 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
39067488 TCTTGGATTGCATATTATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
39067522 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 27 0.40
40 40 0.60
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:39067841 original size:44 final size:45
Alignment explanation
Indices: 39067726--39068496 Score: 190
Period size: 44 Copynumber: 17.9 Consensus size: 45
39067716 GGAATTAGTG
* * *
39067726 CTTCAATCTACTCCATTGCAACTTGAGGGAGATAAGACTTGCCAT
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * *
39067771 CTTCAGTCTGC-CTCACTGCAAATTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTACTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT
*
39067815 CCTT-AGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAG--A-
1 -CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * * *
39067857 -TGC-GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGTG--AT
1 CTTCAG-TCTACTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCAT
* * *** * * ** **
39067900 -TTTAATCCGTTCTACTGCAACTTCAGGGAGATATGA-TTATCGG
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * * * *
39067943 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTAT
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * *
39067988 CTTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTACTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT
** * * *
39068032 ACTT-AGTCTTGTCCACCGCAACTTCAGGGAGATAAAACTAG--A-
1 -CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * * ** **
39068074 -TGC-GATCTGCT-CTCTGTAACTTCAAAGAGATAAGA-TCTGTAAT
1 CTTCAG-TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCCAT
* * ** *
39068117 -TTTAATCCGCTCCACTGCAACTTCAGGGAGAT----C--GGC-T
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * *
39068154 -TT-AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCAT
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * *
39068197 ATTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTACTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT
** * * * *
39068241 ACTT-AGTCTTGTCCACCGCAACTTCTGGTAGATAAGACTAG--A-
1 -CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * * * **
39068283 -TGC-GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAAT
1 CTTCAG-TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCCAT
* * * * * *
39068326 -TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGTCAG
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* * * * *
39068369 CTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCAT
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
* ** * *
39068414 CTTCAGTCTGC-CTCACTATAAC-TCTA-GAAGGATAAGACTTG-CTT
1 CTTCAGTCTACTC-CACTGCAACTTC-AGGGA-GATAAGACTTGCCAT
* *
39068458 ACTT-AGTCTACTCCACTGTAACTTTAGGGAGATAAGACT
1 -CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
39068497 AGATGCGATC
Statistics
Matches: 537, Mismatches: 128, Indels: 123
0.68 0.16 0.16
Matches are distributed among these distances:
36 27 0.05
37 3 0.01
38 1 0.00
39 2 0.00
40 65 0.12
41 16 0.03
42 7 0.01
43 21 0.04
44 247 0.46
45 148 0.28
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
Found at i:39068074 original size:217 final size:217
Alignment explanation
Indices: 39067725--39068597 Score: 1314
Period size: 217 Copynumber: 4.1 Consensus size: 217
39067715 AGGAATTAGT
* * * * * * *
39067725 GCTTCAATCTACTCCATTGCAACTTGAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * *
39067790 AAATTCAGGAGGATAAGACTTGCTTCCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
* * *
39067855 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCTACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
*
39067920 CTTCAGGGAGATATGATTATCG
196 CTTCAGGGAGATAGGATTATCG
* * *
39067942 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
** *
39068007 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAAACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
*
39068072 GATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
39068137 CTTCA-GG-G--A-G---ATCG
196 CTTCAGGGAGATAGGATTATCG
*
39068151 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATATTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
** * *
39068216 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCTGGTAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
*
39068281 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
* *
39068346 CTTCAGGGAGATAGGATTGTCA
196 CTTCAGGGAGATAGGATTATCG
*
39068368 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTAT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * * *
39068433 AAC-TCTAGAAGGATAAGACTTGCTTACTTAGTCTACTCCACTGTAACTTTAGGGAGATAAGACT
66 AACTTC-AGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACT
* * * *
39068497 AGATGCGATCTTCTCTCTGCAACTTCAGAGGGATAAGATCTGTGATTTTAATCCGCTCCACTGCA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
*
39068562 ACTTCAGGGAGATAGGATTGTCG
195 ACTTCAGGGAGATAGGATTATCG
*
39068585 ACTTTAATCTGCT
1 GCTTTAATCTGCT
39068598 TCCCACTATC
Statistics
Matches: 602, Mismatches: 45, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
209 195 0.32
210 2 0.00
211 1 0.00
212 1 0.00
213 2 0.00
214 1 0.00
215 1 0.00
216 4 0.01
217 395 0.66
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTATCG
Found at i:39068535 original size:426 final size:426
Alignment explanation
Indices: 39067725--39068574 Score: 1342
Period size: 426 Copynumber: 2.0 Consensus size: 426
39067715 AGGAATTAGT
* * * *
39067725 GCTTCAATCTACTCCATTGCAACTTGAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCCATATTCAGTCTGCCTCACTGC
* *
39067790 AAATTCAGGAGGATAAGACTTGCTTCCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTA
66 AAATTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
* ** *
39067855 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGTTCTACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
* * * *
39067920 CTTCAGGGAGATATGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC
196 CTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGC
* * * **
39067985 TATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCG
261 CATCTTCAGTCTGCCTCACTATAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTACTCCACCG
*
39068050 CAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTGTA
326 CAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTA
39068115 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATCG
391 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATCG
* * * *
39068151 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATATTCAGTCTGCCTCACTGT
1 GCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCCATATTCAGTCTGCCTCACTGC
* ** * *
39068216 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCTGGTAGATAAGACTA
66 AAATTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
39068281 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
*
39068346 CTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGC
196 CTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGC
*
39068411 CATCTTCAGTCTGCCTCACTATAAC-TCTAGAAGGATAAGACTTGCTTACTTAGTCTACTCCACT
261 CATCTTCAGTCTGCCTCACTATAACTTC-AGAAGGATAAGACTTGCTTACTTAGTCTACTCCACC
* * * * * *
39068475 GTAACTTTAGGGAGATAAGACTAGATGCGATCTTCTCTCTGCAACTTCAGAGGGATAAGATCTGT
325 GCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGT
*
39068540 GATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
390 AATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
39068575 AGGATTGTCG
Statistics
Matches: 385, Mismatches: 38, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
425 2 0.01
426 383 0.99
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (426 bp):
GCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCCATATTCAGTCTGCCTCACTGC
AAATTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
CTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGC
CATCTTCAGTCTGCCTCACTATAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTACTCCACCG
CAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTA
ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATCG
Found at i:39068752 original size:132 final size:132
Alignment explanation
Indices: 39068590--39069072 Score: 806
Period size: 132 Copynumber: 3.7 Consensus size: 132
39068580 TGTCGACTTT
* * *
39068590 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTA
* *
39068655 TGGAGATAAGATCTACAATTTTCAACCTTCACCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
39068720 TA
131 TA
* * * *
39068722 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTA
*
39068787 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
39068852 TA
131 TA
*
39068854 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-ACTGTCTTCGATCTGCTCCACTACTACTT
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTC-GTCTTCGATCTGCTCCACTACTACTT
* * *
39068918 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAAGGAGACAAGGCTTGGTGGC
65 AGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
39068983 TTA
130 TTA
* *
39068986 AATCTGCTTCCCACTTTCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTATTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTA
39069051 GGGAGATAAGATCTACAATTTT
66 GGGAGATAAGATCTACAATTTT
39069073 TACTGATCTG
Statistics
Matches: 329, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 327 0.99
133 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:39070289 original size:5 final size:6
Alignment explanation
Indices: 39070267--39070311 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
39070257 TTGGCCTCTC
* *
39070267 CTTTTA CTTTTT CTTTTT CTTTTTT CCTTTTT CCTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT C-TTTTT -CTTTTT CTTTTT CTTTTT C
39070312 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 23 0.68
7 10 0.29
8 1 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:39070296 original size:20 final size:19
Alignment explanation
Indices: 39070268--39070323 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
39070258 TGGCCTCTCC
*
39070268 TTTTACTTTTTCTTTTTCTT
1 TTTTCCTTTTTCTTTTTC-T
*
39070288 TTTTCCTTTTTCCTTTTCT
1 TTTTCCTTTTTCTTTTTCT
39070307 TTTTCCTCTTTT-TTTTT
1 TTTTCCT-TTTTCTTTTT
39070324 TGAAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTCT
Found at i:39070312 original size:12 final size:12
Alignment explanation
Indices: 39070275--39070322 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
39070265 TCCTTTTACT
*
39070275 TTTTCTTTTTCTT
1 TTTTCTTTTTC-C
39070288 TTTTCCTTTTTCC
1 TTTT-CTTTTTCC
39070301 TTTTCTTTTTCC
1 TTTTCTTTTTCC
39070313 TCTTT-TTTTT
1 T-TTTCTTTTT
39070323 TTGAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.44
13 11 0.34
14 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:39074575 original size:98 final size:98
Alignment explanation
Indices: 39074401--39074597 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
39074391 GTACAATAAA
*
39074401 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
39074466 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
39074499 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
39074564 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
39074597 A
1 A
39074598 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:39075923 original size:19 final size:19
Alignment explanation
Indices: 39075896--39076008 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
39075886 AATCATATAT
39075896 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
39075915 TCCAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
39075934 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
39075953 TGTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
39075974 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
39075993 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
39076009 CTCAAAAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 62 0.79
21 16 0.21
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:39075983 original size:40 final size:40
Alignment explanation
Indices: 39075896--39076007 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
39075886 AATCATATAT
* *
39075896 TCTAAGATTGCATATCATATCCAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
39075934 TCTAAGATTGCATATCATATGTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
39075974 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
39076008 CCTCAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 26 0.39
40 40 0.61
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:39076989 original size:23 final size:23
Alignment explanation
Indices: 39076955--39077108 Score: 137
Period size: 23 Copynumber: 6.5 Consensus size: 23
39076945 CGATTCAAGT
39076955 CCAATTTTGGTGTAAAAATGCTGC
1 CCAA-TTTGGTGTAAAAATGCTGC
** * *
39076979 CCAATTTGGTGTCTATATGCTGT
1 CCAATTTGGTGTAAAAATGCTGC
39077002 CCAATTTTGGTGTAAAAATGCTGC
1 CCAA-TTTGGTGTAAAAATGCTGC
** * * *
39077026 CCAATTTGGTGTCTATATGTTGT
1 CCAATTTGGTGTAAAAATGCTGC
* ** * *
39077049 TCAATTTGGTGTCTATATGCTGT
1 CCAATTTGGTGTAAAAATGCTGC
*
39077072 CCAATTTTTGGTGTAAAAATTCTGC
1 CCAA--TTTGGTGTAAAAATGCTGC
39077097 CCAATTTGGTGT
1 CCAATTTGGTGT
39077109 CTATATGGTC
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
23 65 0.61
24 23 0.22
25 18 0.17
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (23 bp):
CCAATTTGGTGTAAAAATGCTGC
Found at i:39077022 original size:47 final size:46
Alignment explanation
Indices: 39076953--39077403 Score: 353
Period size: 47 Copynumber: 9.4 Consensus size: 46
39076943 TTCGATTCAA
* * * * *
39076953 GTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATGCT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * * *
39077000 GTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATGTT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * *
39077047 GTTCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATTCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA--TTTGGTGTATAAATGCT
* *
39077095 GCCCAATTTGGTGTCTATATGGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTGGTG----TA-----TATATGCTGTCCAA-TTTGGTGTATAAATGCT
* * *
39077151 GTCCAATTTGGTGTCTATATACTGTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* *
39077198 GTCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* * * **
39077245 GTCCAATTTGATATATATATGCTGCCCAATTTGGTGTATATTTGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * * * * *
39077291 GTCAAATTTTGGTGTAAAAAAATGTTGTTCAATTTGATATATATATGCT
1 GTCCAA-TTTGGTGT--ATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * *
39077340 GCCCAAATTAGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
*
39077387 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
39077404 AGAGCTGTAC
Statistics
Matches: 339, Mismatches: 50, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
46 51 0.15
47 186 0.55
48 29 0.09
49 28 0.08
52 2 0.01
56 29 0.09
57 14 0.04
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (46 bp):
GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
Found at i:39077054 original size:70 final size:71
Alignment explanation
Indices: 39076980--39077115 Score: 256
Period size: 71 Copynumber: 1.9 Consensus size: 71
39076970 AAATGCTGCC
39076980 CAATTTGGTGTCTATATGCTGTCCAA-TTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATAT
1 CAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATAT
39077044 GTTGTT
66 GTTGTT
*
39077050 CAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATTCTGCCCAATTTGGTGTCTATAT
1 CAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATAT
39077115 G
66 G
39077116 GTCTATATGC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
70 26 0.41
71 38 0.59
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (71 bp):
CAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATAT
GTTGTT
Found at i:39077232 original size:127 final size:126
Alignment explanation
Indices: 39076989--39077235 Score: 352
Period size: 127 Copynumber: 1.9 Consensus size: 126
39076979 CCAATTTGGT
** *
39076989 GTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATGTTGTTCAAT
1 GTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATACTGTCCAAT
** * *
39077054 TTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATTCTGCCCAATTTGGTGTCTATATG
66 TTGGTGTAAAAATGCTGTCCAA-TTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATG
*
39077116 GTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTGTCTATATACTGTCCAAT
1 GTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATACTGTCCAA-
** * *
39077181 TTTGGTGTAAAAATGCTGTCCAA-TTTGGTGTCTATATGCTGTCCAATTTTGGTGT
65 TTTGGTGTAAAAATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAA-TTTGGTGT
39077236 AAAAATGCTG
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
126 18 0.17
127 68 0.64
128 20 0.19
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (126 bp):
GTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATACTGTCCAAT
TTGGTGTAAAAATGCTGTCCAATTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATATG
Found at i:39077354 original size:72 final size:70
Alignment explanation
Indices: 39077119--39077403 Score: 320
Period size: 70 Copynumber: 4.0 Consensus size: 70
39077109 CTATATGGTC
* * * ** * *
39077119 TATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAA-TTTGGTGTCTATATACTGTCCAATTT
1 TATATGCTGCCCAA-TTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAA-TT
* *
39077183 TGGTGTA
64 TGATATA
* * * *
39077190 AAAATGCTGTCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTG
1 TATATGCTGCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTG
39077255 ATATA
66 ATATA
* * * *
39077260 TATATGCTGCCCAATTTGGTGTATATTTGCTGTCAAATTTTGGTGTAAAAAAATGTTGTTCAATT
1 TATATGCTGCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGT--AAAAATGCTGTCCAATT
39077325 TGATATA
64 TGATATA
* * * * *
39077332 TATATGCTGCCCAAATTAGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCTGTCCAATTTG
1 TATATGCTGCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTG
*
39077397 ATGTA
66 ATATA
39077402 TA
1 TA
39077404 AGAGCTGTAC
Statistics
Matches: 182, Mismatches: 29, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
70 89 0.49
71 31 0.17
72 62 0.34
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (70 bp):
TATATGCTGCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTG
ATATA
Found at i:39077411 original size:23 final size:23
Alignment explanation
Indices: 39077122--39077404 Score: 269
Period size: 23 Copynumber: 12.0 Consensus size: 23
39077112 TATGGTCTAT
*
39077122 ATGCTGTCCAATTTTGGTGTAAAA
1 ATGCTGTCCAA-TTTGGTGTATAA
* *
39077146 ATGCTGTCCAATTTGGTGTCTAT
1 ATGCTGTCCAATTTGGTGTATAA
* *
39077169 ATACTGTCCAATTTTGGTGTAAAA
1 ATGCTGTCCAA-TTTGGTGTATAA
* *
39077193 ATGCTGTCCAATTTGGTGTCTAT
1 ATGCTGTCCAATTTGGTGTATAA
*
39077216 ATGCTGTCCAATTTTGGTGTAAAA
1 ATGCTGTCCAA-TTTGGTGTATAA
* * *
39077240 ATGCTGTCCAATTTGATATATAT
1 ATGCTGTCCAATTTGGTGTATAA
* *
39077263 ATGCTGCCCAATTTGGTGTATAT
1 ATGCTGTCCAATTTGGTGTATAA
* * *
39077286 TTGCTGTCAAATTTTGGTGTAAAAAA
1 ATGCTGTCCAA-TTTGGTGT--ATAA
* * * * *
39077312 ATGTTGTTCAATTTGATATATAT
1 ATGCTGTCCAATTTGGTGTATAA
* * *
39077335 ATGCTGCCCAAATTAGTGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
*
39077358 ATGTTGTCCAATTTTGGTGTATAA
1 ATGCTGTCCAA-TTTGGTGTATAA
*
39077382 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGGTGTATAA
39077405 GAGCTGTACA
Statistics
Matches: 205, Mismatches: 48, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
23 112 0.55
24 78 0.38
25 6 0.03
26 9 0.04
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTGGTGTATAA
Found at i:39079705 original size:15 final size:12
Alignment explanation
Indices: 39079674--39079699 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39079664 TGTTTTCAGC
39079674 TAGTTCTTTTTT
1 TAGTTCTTTTTT
39079686 TAGTTCTTTTTT
1 TAGTTCTTTTTT
39079698 TA
1 TA
39079700 TCAGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (12 bp):
TAGTTCTTTTTT
Found at i:39081782 original size:37 final size:37
Alignment explanation
Indices: 39081679--39081795 Score: 111
Period size: 37 Copynumber: 3.2 Consensus size: 37
39081669 GTTTGTCTAC
39081679 AATA-TAAATATTAAATTTAAT-TT-AA-TATTAAGAT
1 AATATTAAATATT-AATTTAATATTAAACTATTAAGAT
* * *
39081713 AATCATTTTAATATTAAATTAATA-AAATACTATTAAGAT
1 AAT-A-TTAAATATTAATTTAATATTAA-ACTATTAAGAT
*
39081752 AAGTATTAAAT-TTAATTTAATATTAAACTATTAAAAT
1 AA-TATTAAATATTAATTTAATATTAAACTATTAAGAT
39081789 AATATTA
1 AATATTA
39081796 TTTTTAGAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 12 0.18
37 30 0.45
38 8 0.12
39 12 0.18
40 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (37 bp):
AATATTAAATATTAATTTAATATTAAACTATTAAGAT
Found at i:39085049 original size:22 final size:23
Alignment explanation
Indices: 39085024--39085067 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39085014 CATATCATTT
*
39085024 TGAATT-TTTTTTATTATTTATA
1 TGAATTGTTTGTTATTATTTATA
*
39085046 TGAATTGTTTGTTATTTTTTAT
1 TGAATTGTTTGTTATTATTTAT
39085068 TTAATGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (23 bp):
TGAATTGTTTGTTATTATTTATA
Found at i:39092777 original size:10 final size:9
Alignment explanation
Indices: 39092747--39092811 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
39092737 TAAAATATAT
39092747 ATTA-TAAA
1 ATTATTAAA
* *
39092755 AATAATAAA
1 ATTATTAAA
39092764 ATTATTAGAA
1 ATTATTA-AA
39092774 ATTATTAATAA
1 ATTATT-A-AA
*
39092785 ATTATAAAA
1 ATTATTAAA
*
39092794 ACTATTAAA
1 ATTATTAAA
39092803 ATTTATTAA
1 A-TTATTAA
39092812 TTTTTATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
8 3 0.07
9 19 0.42
10 15 0.33
11 8 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTATTAAA
Found at i:39092821 original size:9 final size:9
Alignment explanation
Indices: 39092804--39092846 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
39092794 ACTATTAAAA
39092804 TTTATTAATT
1 TTTA-TAATT
39092814 TTTATAATGT
1 TTTATAAT-T
*
39092824 TTCATAATTT
1 TTTATAA-TT
39092834 TTTATAATT
1 TTTATAATT
39092843 TTTA
1 TTTA
39092847 ATATTCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 10 0.34
10 18 0.62
11 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:39095974 original size:19 final size:19
Alignment explanation
Indices: 39095939--39095980 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39095929 TAATTCATGA
39095939 TATTAATATCAAATAATAT
1 TATTAATATCAAATAATAT
*
39095958 TATTGAATAT-AATTAATA-
1 TATT-AATATCAAATAATAT
39095976 TATTA
1 TATTA
39095981 TATTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 4 0.19
19 11 0.52
20 5 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TATTAATATCAAATAATAT
Found at i:39102870 original size:68 final size:68
Alignment explanation
Indices: 39102770--39103014 Score: 260
Period size: 68 Copynumber: 3.6 Consensus size: 68
39102760 CTGTCTTGGT
** * **
39102770 GGACTTTATATGTTAACATAACCCAACTATGGTCTTACACTACGTGGTGCCATGTTTACTGTCCT
1 GGACTTTATATGTTGCCATAGCCCAACTATGGTCTTACACTATATGGTGCCATGTTTACTGTCCT
39102835 AGC
66 AGC
* * * * *
39102838 GGACTTTGTATGTTGCCATTGCCCAACAATGGTCTTACTCTATATGGTGTCATGTTTACTGTCCT
1 GGACTTTATATGTTGCCATAGCCCAACTATGGTCTTACACTATATGGTGCCATGTTTACTGTCCT
*
39102903 AGT
66 AGC
* * * * *
39102906 GGACTTTATATGTTGCCATAGCCTAGCTACGGTCTTACATTATATGGTGCCATGTTTATTGT-CT
1 GGACTTTATATGTTGCCATAGCCCAACTATGGTCTTACACTATATGGTGCCATGTTTACTGTCCT
*
39102970 TGAC
66 AG-C
* * * * *
39102974 -AAATTTCATATGTTACCATAACCCAACTATGATCTTACACT
1 GGACTTT-ATATGTTGCCATAGCCCAACTATGGTCTTACACT
39103015 CTTATAAGCT
Statistics
Matches: 143, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
67 7 0.05
68 136 0.95
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (68 bp):
GGACTTTATATGTTGCCATAGCCCAACTATGGTCTTACACTATATGGTGCCATGTTTACTGTCCT
AGC
Found at i:39103136 original size:122 final size:122
Alignment explanation
Indices: 39102936--39103189 Score: 375
Period size: 122 Copynumber: 2.1 Consensus size: 122
39102926 GCCTAGCTAC
* * *
39102936 GGTCTTACATTATATGGTGCCATGTTTATTGTCTTGACAAATTTCATATGTTACCATAACCCAAC
1 GGTCTTACACTATATGGTGCCATGTTTATTGTCATGACAAACTTCATATGTTACCATAACCCAAC
* *
39103001 TATGATCTTACACTCTTATAAGCTTAGAGCCTCCAACCGATGCCATGGCCCAACTAT
66 TATGATCTTACACTCTTATAAGCTTAGAGCCTCCAACCGATGCAATGACCCAACTAT
* * *
39103058 GGTCTTACACTATATGGTGCCATGTTTATTGTCATGA-AGGACTTCATATGTTACCATAGCCCAG
1 GGTCTTACACTATATGGTGCCATGTTTATTGTCATGACA-AACTTCATATGTTACCATAACCCAA
* * ** *
39103122 CTATGATCTTACACTTTTATAGGCTTAGAGCCTCCAATTGGTGCAATGACCCAACTAT
65 CTATGATCTTACACTCTTATAAGCTTAGAGCCTCCAACCGATGCAATGACCCAACTAT
39103180 GGTCTTACAC
1 GGTCTTACAC
39103190 ATCATTCCCG
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
121 1 0.01
122 117 0.99
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (122 bp):
GGTCTTACACTATATGGTGCCATGTTTATTGTCATGACAAACTTCATATGTTACCATAACCCAAC
TATGATCTTACACTCTTATAAGCTTAGAGCCTCCAACCGATGCAATGACCCAACTAT
Found at i:39103662 original size:38 final size:38
Alignment explanation
Indices: 39103611--39103691 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
39103601 ACCATTTCAT
*
39103611 ACACAATAGCAGGTTCTGACAACTTAGAACAAACACTA
1 ACACAATAGCAGGTTCTGACAACTCAGAACAAACACTA
39103649 ACACAATAGCAGGTTCTGACAACTCAGAACAAACACTA
1 ACACAATAGCAGGTTCTGACAACTCAGAACAAACACTA
39103687 ACACA
1 ACACA
39103692 GACCATTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.46, C:0.26, G:0.12, T:0.16
Consensus pattern (38 bp):
ACACAATAGCAGGTTCTGACAACTCAGAACAAACACTA
Found at i:39106706 original size:14 final size:14
Alignment explanation
Indices: 39106687--39106715 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39106677 TCATTCATGT
39106687 AACAGCTAAACACA
1 AACAGCTAAACACA
39106701 AACAGCTAAACACA
1 AACAGCTAAACACA
39106715 A
1 A
39106716 TACCAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.28, G:0.07, T:0.07
Consensus pattern (14 bp):
AACAGCTAAACACA
Found at i:39109412 original size:12 final size:12
Alignment explanation
Indices: 39109395--39109419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39109385 AAAGCATATG
39109395 TGATTTTAGTTT
1 TGATTTTAGTTT
39109407 TGATTTTAGTTT
1 TGATTTTAGTTT
39109419 T
1 T
39109420 TAGTTTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TGATTTTAGTTT
Found at i:39111726 original size:3 final size:3
Alignment explanation
Indices: 39111718--39111743 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39111708 ACTTCATGTG
39111718 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
39111744 GAAGAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:39131394 original size:13 final size:13
Alignment explanation
Indices: 39131358--39131395 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
39131348 AGTTCTTCAT
39131358 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
39131371 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
39131384 TGCTTTTGAAAA
1 TGCTTTTGAAAA
39131396 TTTTGAGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:39131617 original size:24 final size:25
Alignment explanation
Indices: 39131582--39131628 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
39131572 TAATATATAA
*
39131582 AATTAATTTTAAATATTT-TTAAGT
1 AATTAATATTAAATATTTATTAAGT
*
39131606 AATTAATATTAATTATTTATTAA
1 AATTAATATTAAATATTTATTAA
39131629 ATTTAATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTAATATTAAATATTTATTAAGT
Found at i:39133367 original size:165 final size:160
Alignment explanation
Indices: 39133090--39133415 Score: 426
Period size: 165 Copynumber: 2.0 Consensus size: 160
39133080 TCAAGTCAAG
** * *
39133090 TCAAGCATATGATTGTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCTCATAATTCTT
1 TCAAGCATACAATTGTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
* *
39133155 ATCTATAATTTTTATAGTCTTAGGAAATAAAGAGATTTGGCCTTTCAAATGAGTAGTGCAGAAAA
66 ATCTATAATTTTTATAGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
*
39133220 TTTACAGATTCAGATTTTG-AAGCGTTGAAA
131 TTTACACATTCA-ATTTTGTAAGCGTTGAAA
* * *
39133250 TCAAGCATACAATTTTCAAAT-TGCAAATTCTAAGAATATTTTTCATTGCAAAAACTCACATAAT
1 TCAAGCATACAATTGTCAAATCT-CAAAATCTAA-AATA-TCTTCATTGC-AAAACTCACATAAT
* *
39133314 TCATA-CTTATAA-TTTTAGTGAAGTCATATGAAATAAAGAGAATTGGCCTTTCAAATGATTAGT
62 TCATATC-TATAATTTTTA-T--AGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGT
*
39133377 GCAGAAAATTTACACATTCAATTTTGTAAGTGTTGAAA
123 GCAGAAAATTTACACATTCAATTTTGTAAGCGTTGAAA
39133415 T
1 T
39133416 TAAATGAATG
Statistics
Matches: 144, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
159 1 0.01
160 27 0.19
161 4 0.03
162 15 0.10
163 23 0.16
164 6 0.04
165 68 0.47
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (160 bp):
TCAAGCATACAATTGTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
ATCTATAATTTTTATAGTCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
TTTACACATTCAATTTTGTAAGCGTTGAAA
Found at i:39134914 original size:20 final size:21
Alignment explanation
Indices: 39134876--39134931 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
39134866 TGAGGGCAAA
39134876 GAACCAGCGTAGCAGCAGAGG
1 GAACCAGCGTAGCAGCAGAGG
39134897 GAACCAGCAG-AG-AGCAGA--
1 GAACCAGC-GTAGCAGCAGAGG
*
39134915 G-AGCAGCGTAGCAGCAG
1 GAACCAGCGTAGCAGCAG
39134932 GTACTGGGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 7 0.23
18 6 0.19
20 6 0.19
21 10 0.32
22 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.38, T:0.04
Consensus pattern (21 bp):
GAACCAGCGTAGCAGCAGAGG
Found at i:39135698 original size:98 final size:96
Alignment explanation
Indices: 39135569--39135763 Score: 311
Period size: 98 Copynumber: 2.0 Consensus size: 96
39135559 CCTTACTTAT
* *
39135569 CTAAATATCTTCCTCAAGTAAACTATGAAATATATTGAATAATATCCTTTAAGAAAGTGCACAAA
1 CTAAATATCCTCCTCAAGTAAACTATGAAATATATTGAATAATATCCCTTAA-AAA-TGCACAAA
39135634 AATAATCACAATAATCAAATCAAAATATGCCAA
64 AATAATCACAATAATCAAATCAAAATATGCCAA
*
39135667 CTAAATATCCTCCTCATGTAAA-TAATGAAATATATTGAATAATATCCCTTAAAAATGCACAAAA
1 CTAAATATCCTCCTCAAGTAAACT-ATGAAATATATTGAATAATATCCCTTAAAAATGCACAAAA
* *
39135731 ATAGTCACAATAATCGAATCAAAATATGCCAA
65 ATAATCACAATAATCAAATCAAAATATGCCAA
39135763 C
1 C
39135764 AAAACAAGCA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 40 0.44
97 4 0.04
98 47 0.52
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.27
Consensus pattern (96 bp):
CTAAATATCCTCCTCAAGTAAACTATGAAATATATTGAATAATATCCCTTAAAAATGCACAAAAA
TAATCACAATAATCAAATCAAAATATGCCAA
Found at i:39136308 original size:6 final size:6
Alignment explanation
Indices: 39136297--39136329 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
39136287 AAGACTTTTC
39136297 TTTTGT TTTTGT TTTTG- TTTT-T TTTTGT TTTTG
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG
39136330 CATTTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 8 0.32
6 17 0.68
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:39136321 original size:16 final size:17
Alignment explanation
Indices: 39136292--39136329 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
39136282 TTATCAAGAC
*
39136292 TTTTCTTTTGTTTTTGT
1 TTTTGTTTTGTTTTTGT
39136309 TTTTGTTTT-TTTTTGT
1 TTTTGTTTTGTTTTTGT
39136325 TTTTG
1 TTTTG
39136330 CATTTGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTGTTTTTGT
Found at i:39136335 original size:22 final size:22
Alignment explanation
Indices: 39136292--39136335 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39136282 TTATCAAGAC
**
39136292 TTTTCTTTTGTTTTTGTTTTTG
1 TTTTCTTTTGTTTTTGCATTTG
*
39136314 TTTTTTTTTGTTTTTGCATTTG
1 TTTTCTTTTGTTTTTGCATTTG
39136336 GGTTTGACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.05, G:0.14, T:0.80
Consensus pattern (22 bp):
TTTTCTTTTGTTTTTGCATTTG
Found at i:39140559 original size:25 final size:25
Alignment explanation
Indices: 39140531--39140590 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
39140521 AAGTATTATG
*
39140531 CAGAGAACATAAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
* **
39140556 CAGAGAGCACCGATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
39140581 CAGAGAACAC
1 CAGAGAACAC
39140591 GCTAAAATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGAGAACACAAATGTGCTAATAAT
Found at i:39141614 original size:50 final size:50
Alignment explanation
Indices: 39141490--39141733 Score: 249
Period size: 50 Copynumber: 4.9 Consensus size: 50
39141480 GATAATAACA
* ** * * *
39141490 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** *
39141539 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGAGATCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
39141589 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
39141639 TGCCAACGCCATGTCCCAAACATGATCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
39141689 TGTCAACGCCATGTCCTAAACATGGTCTTACATGAGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
39141734 AATTTCAATA
Statistics
Matches: 164, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 125 0.76
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:39148964 original size:22 final size:22
Alignment explanation
Indices: 39148921--39148977 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
39148911 TGTAGTTTTT
39148921 TAGGTGAAA-AGTTGGATGTGA
1 TAGGTGAAAGAGTTGGATGTGA
*
39148942 TAGGTGAAAGA-TTAGGATTTGA
1 TAGGTGAAAGAGTT-GGATGTGA
39148964 TAGGTGAAAG-GTTG
1 TAGGTGAAAGAGTTG
39148978 ATAGGTGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (22 bp):
TAGGTGAAAGAGTTGGATGTGA
Found at i:39149303 original size:10 final size:10
Alignment explanation
Indices: 39149288--39149341 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 10
39149278 TTTCCCTACA
39149288 AAAATAAAAT
1 AAAATAAAAT
39149298 AAAATAAAAT
1 AAAATAAAAT
39149308 AATAAT-AAAT
1 AA-AATAAAAT
39149318 AATAATAATAAAT
1 AA-AAT-A-AAAT
39149331 AAAATTAAAAT
1 AAAA-TAAAAT
39149342 GTGTATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 22 0.56
11 7 0.18
12 3 0.08
13 7 0.18
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:39149321 original size:13 final size:13
Alignment explanation
Indices: 39149305--39149332 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39149295 AATAAAATAA
39149305 AATAATAATAAAT
1 AATAATAATAAAT
39149318 AATAATAATAAAT
1 AATAATAATAAAT
39149331 AA
1 AA
39149333 AATTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:39158455 original size:38 final size:38
Alignment explanation
Indices: 39158413--39158517 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 38
39158403 AGGTATTATT
* *
39158413 CAGGCTTAGTGTCGGTGTTTTTCAGG-TTTAGTGGCTAG
1 CAGGCTTAGTGCCGGTGTTATTCAGGCTTT-GTGGCTAG
39158451 CAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGGCTAG
1 CAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGGCTAG
* * ** *
39158489 CAAGCTTAATGCTTGTGTTATGCAGGCTT
1 CAGGCTTAGTGCCGGTGTTATTCAGGCTT
39158518 AATGTCGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 56 0.95
39 3 0.05
ACGTcount: A:0.15, C:0.16, G:0.31, T:0.37
Consensus pattern (38 bp):
CAGGCTTAGTGCCGGTGTTATTCAGGCTTTGTGGCTAG
Found at i:39158517 original size:22 final size:23
Alignment explanation
Indices: 39158492--39158544 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
39158482 TGGCTAGCAA
*
39158492 GCTTAATGCT-TGTGTT-ATGCAG
1 GCTTAATGCTCGGTGTTAAT-CAG
39158514 GCTTAATG-TCGGTGTTAATCAG
1 GCTTAATGCTCGGTGTTAATCAG
39158536 GCTTAATGC
1 GCTTAATGC
39158545 CTAGCAGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (23 bp):
GCTTAATGCTCGGTGTTAATCAG
Found at i:39164217 original size:50 final size:50
Alignment explanation
Indices: 39164163--39164290 Score: 166
Period size: 50 Copynumber: 2.6 Consensus size: 50
39164153 ATGAACAAAT
* * * * *
39164163 GAGTTACTTAATGCAAGACTTACTTAAAGATGCACACTTAACTATCATGG
1 GAGTTACATAATGCAAGACATAATTAAAGATGCAAACTTAACTATCATGA
* * * *
39164213 GAGTTACATAATGCATGTCATAATTTAATATGCAAACTTAACTATCATGA
1 GAGTTACATAATGCAAGACATAATTAAAGATGCAAACTTAACTATCATGA
*
39164263 GAGTTACATAATGCATGACATAATTAAA
1 GAGTTACATAATGCAAGACATAATTAAA
39164291 TCATGGACTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (50 bp):
GAGTTACATAATGCAAGACATAATTAAAGATGCAAACTTAACTATCATGA
Found at i:39169647 original size:50 final size:50
Alignment explanation
Indices: 39169592--39169820 Score: 287
Period size: 50 Copynumber: 4.6 Consensus size: 50
39169582 CATTGAGATT
*
39169592 ATGAGAGGTCCCATGTAAGAACATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
39169642 ATGAGAGGTTCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
39169692 ATGAGAGGTCCCATGTAAGACCATGTCTGGGCCATGGCGTTGGCACCAAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * * * *
39169742 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATAGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * *
39169792 ATGAGAACTCTCATGTAAGACCATATCTG
1 ATGAGAGGTCCCATGTAAGACCATGTCTG
39169821 AGATATGACA
Statistics
Matches: 154, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 154 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:39175161 original size:20 final size:18
Alignment explanation
Indices: 39175123--39175158 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39175113 AACTTCTTAA
39175123 AAAAATTCTTGTTTTTTT
1 AAAAATTCTTGTTTTTTT
39175141 AAAAATTCTTGTTTTTTT
1 AAAAATTCTTGTTTTTTT
39175159 TTACTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
AAAAATTCTTGTTTTTTT
Found at i:39175294 original size:19 final size:20
Alignment explanation
Indices: 39175267--39175319 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
39175257 AAAAGATTAT
39175267 AAAAA-AATAAATTTT-AGA
1 AAAAATAATAAATTTTAAGA
*
39175285 AAAAATAATAAATTTTAATA
1 AAAAATAATAAATTTTAAGA
*
39175305 AAAAATAAAAAATTT
1 AAAAATAATAAATTT
39175320 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 16 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATAATAAATTTTAAGA
Found at i:39175332 original size:19 final size:21
Alignment explanation
Indices: 39175309--39175353 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 21
39175299 TTAATAAAAA
39175309 ATAAAAAATTTA-AATTTTTT
1 ATAAAAAATTTAGAATTTTTT
39175329 -T--AAAATTTAGAATTTTTT
1 ATAAAAAATTTAGAATTTTTT
39175347 ATAAAAA
1 ATAAAAA
39175354 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 2 0.10
21 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAAAAAATTTAGAATTTTTT
Found at i:39175335 original size:17 final size:19
Alignment explanation
Indices: 39175313--39175352 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
39175303 TAAAAAATAA
39175313 AAAATTTA-AATTTTTT-T
1 AAAATTTAGAATTTTTTAT
39175330 AAAATTTAGAATTTTTTAT
1 AAAATTTAGAATTTTTTAT
39175349 AAAA
1 AAAA
39175353 ATAGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
AAAATTTAGAATTTTTTAT
Found at i:39175362 original size:10 final size:9
Alignment explanation
Indices: 39175349--39175390 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
39175339 AATTTTTTAT
39175349 AAAAATAGTA
1 AAAAATA-TA
*
39175359 AAAAATAAA
1 AAAAATATA
39175368 AAAAATAT-
1 AAAAATATA
39175376 AAAAATCATA
1 AAAAAT-ATA
39175386 AAAAA
1 AAAAA
39175391 ATTAACGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.21
9 10 0.36
10 12 0.43
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (9 bp):
AAAAATATA
Found at i:39175392 original size:19 final size:19
Alignment explanation
Indices: 39175349--39175391 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
39175339 AATTTTTTAT
39175349 AAAAATAGTAAAAAATAAA
1 AAAAATAGTAAAAAATAAA
39175368 AAAAATA-TAAAAATCATAAA
1 AAAAATAGTAAAAA--ATAAA
39175388 AAAA
1 AAAA
39175392 TTAACGATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 7 0.32
20 9 0.41
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAATAGTAAAAAATAAA
Found at i:39175603 original size:29 final size:26
Alignment explanation
Indices: 39175570--39175672 Score: 107
Period size: 29 Copynumber: 3.7 Consensus size: 26
39175560 TTACATTTTG
39175570 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTAT-A-TTTATAAAATTT
* *
39175599 TATAATTTTTTTATATTTCTATATATTT
1 TATAA-TTTTTTATATTTATA-AAATTT
39175627 TATAATTTTTTACTATTTTTATAAAATTT
1 TATAATTTTTTA-TA--TTTATAAAATTT
*
39175656 TACAATTTTTTATATTT
1 TATAATTTTTTATATTT
39175673 TTTATGATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
26 3 0.05
27 12 0.19
28 15 0.23
29 25 0.39
30 9 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (26 bp):
TATAATTTTTTATATTTATAAAATTT
Found at i:39175627 original size:19 final size:18
Alignment explanation
Indices: 39175595--39175697 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 18
39175585 ACTTTATAAA
39175595 ATTTTATA-ATTTTTTTAT
1 ATTTTATATA-TTTTTTAT
*
39175613 ATTTCTATATATTTTATA-
1 ATTT-TATATATTTTTTAT
* *
39175631 ATTTTTTACTATTTTTATAAA
1 ATTTTATA-TATTTTT-T-AT
*
39175652 ATTTTACA-ATTTTTTAT
1 ATTTTATATATTTTTTAT
*
39175669 ATTTTTTATGATTTTTATAT
1 ATTTTATAT-ATTTTT-TAT
39175689 ATTTT-TATA
1 ATTTTATATA
39175698 AAATTTAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 10 0.15
18 16 0.24
19 26 0.38
20 10 0.15
21 6 0.09
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTATATATTTTTTAT
Found at i:39175692 original size:48 final size:48
Alignment explanation
Indices: 39175618--39175721 Score: 140
Period size: 48 Copynumber: 2.1 Consensus size: 48
39175608 TTTATATTTC
*
39175618 TATATATTTTATAATTTTTTACTATTTTTATAAAATTT-TACAATTTTT
1 TATATTTTTTATAATTTTTTACTATTTTTATAAAATTTATA-AATTTTT
*
39175666 TATATTTTTTATGATTTTTATA-TATTTTTATAAAATTTAATAAATTTTT
1 TATATTTTTTATAATTTTT-TACTATTTTTATAAAATTT-ATAAATTTTT
*
39175715 AATATTT
1 TATATTT
39175722 GAATTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
48 33 0.66
49 15 0.30
50 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (48 bp):
TATATTTTTTATAATTTTTTACTATTTTTATAAAATTTATAAATTTTT
Found at i:39175695 original size:10 final size:10
Alignment explanation
Indices: 39175596--39175721 Score: 97
Period size: 10 Copynumber: 13.2 Consensus size: 10
39175586 CTTTATAAAA
39175596 TTTTATA-AT
1 TTTTATATAT
*
39175605 TTTTTTATAT
1 TTTTATATAT
*
39175615 TTCTATATA-
1 TTTTATATAT
39175624 TTTTATA-AT
1 TTTTATATAT
39175633 TTTT-TACTAT
1 TTTTATA-TAT
* *
39175643 TTTTATAAAA
1 TTTTATATAT
*
39175653 TTTTACA-AT
1 TTTTATATAT
39175662 TTTT-TATAT
1 TTTTATATAT
39175671 TTTT-TATGAT
1 TTTTATAT-AT
39175681 TTTTATATAT
1 TTTTATATAT
* *
39175691 TTTTATAAAA
1 TTTTATATAT
* *
39175701 TTTAATAAAT
1 TTTTATATAT
39175711 TTTTA-ATAT
1 TTTTATATAT
39175720 TT
1 TT
39175722 GAATTTTTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
8 4 0.04
9 35 0.37
10 50 0.53
11 5 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:39175972 original size:89 final size:87
Alignment explanation
Indices: 39175798--39175995 Score: 210
Period size: 90 Copynumber: 2.3 Consensus size: 87
39175788 AATAAAAGCA
* * * *
39175798 AGGG-CTTAATTGCTTTTTCTTTGAAAAAGTTTGAGAGTCTTTTTTGATGCATTTTGAAAGGTAA
1 AGGGACTTAATTGC-TTTT-TTT-AAAAAGATTGAGAGTCCTTTTTGATACATTTTAAAAGGTAA
* *
39175862 GTACCCAATTGAGTGCAAAAAAAAAG
63 ATACCCAAATGAGTGC-AAAAAAAAG
*
39175888 TAGGGACTTAATTGCTTTTTTTAAAAAGGATTGAGAG-CCTTTTTGATACATTTTAAAAGTTTAA
1 -AGGGACTTAATTGCTTTTTTTAAAAA-GATTGAGAGTCCTTTTTGATACATTTTAAAAG-GTAA
* *
39175952 ATATCTAAATGAGTGC-AAAAAAAG
63 ATACCCAAATGAGTGCAAAAAAAAG
39175976 A--GA-TTAATTGCTTTTTTTAA
1 AGGGACTTAATTGCTTTTTTTAA
39175996 CAAAAACTTG
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
84 17 0.18
85 2 0.02
87 1 0.01
88 8 0.08
89 24 0.25
90 26 0.27
91 8 0.08
92 9 0.09
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (87 bp):
AGGGACTTAATTGCTTTTTTTAAAAAGATTGAGAGTCCTTTTTGATACATTTTAAAAGGTAAATA
CCCAAATGAGTGCAAAAAAAAG
Found at i:39179743 original size:2 final size:2
Alignment explanation
Indices: 39179738--39179769 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
39179728 TACACACATG
*
39179738 CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
39179770 TACATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:39179744 original size:10 final size:10
Alignment explanation
Indices: 39179729--39179769 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
39179719 CTCTCTCTCT
*
39179729 ACACACATGC
1 ACACACACGC
39179739 ACACACA--C
1 ACACACACGC
*
39179747 ACACACACAC
1 ACACACACGC
39179757 ACACACACGC
1 ACACACACGC
39179767 ACA
1 ACA
39179770 TACATACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.46, C:0.46, G:0.05, T:0.02
Consensus pattern (10 bp):
ACACACACGC
Found at i:39180294 original size:1 final size:1
Alignment explanation
Indices: 39180255--39180279 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
39180245 TAATAAAACC
39180255 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
39180280 GAACATACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:39185954 original size:27 final size:26
Alignment explanation
Indices: 39185923--39185987 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
39185913 TACTTTCTCT
*
39185923 CCAAAATTTTTAC-TTCCCCCAAATCC
1 CCAAAACTTTTACTTTCCCCCAAA-CC
*
39185949 CGCAAAACTTTTACTTTCTCCCAAACC
1 C-CAAAACTTTTACTTTCCCCCAAACC
39185976 CCAAAAACTTTT
1 CC-AAAACTTTT
39185988 TTTTTTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.06
27 23 0.68
28 9 0.26
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.31
Consensus pattern (26 bp):
CCAAAACTTTTACTTTCCCCCAAACC
Found at i:39185961 original size:55 final size:53
Alignment explanation
Indices: 39185802--39185961 Score: 189
Period size: 52 Copynumber: 3.0 Consensus size: 53
39185792 CCCTCAAGCC
* * * *
39185802 CTTTTACTTTCCCCCAAGAAATTGTACTCCCCCCAAACCCTCAAAACTTTT-TT
1 CTTTTACTTTCCTCCAA-AAATTTTACTTCCCCCAAACCCCCAAAACTTTTATT
* *
39185855 -TTTTACTTTCCTCTCAAAACTTTTACTTCCTCCAAACCCCCAAAACTTTTTATT
1 CTTTTACTTTCCTC-CAAAAATTTTACTTCCCCCAAACCCCCAAAAC-TTTTATT
* *
39185909 CTTTTACTTTCTCTCCAAAATTTTTACTTCCCCCAAATCCCGCAAAACTTTTA
1 CTTTTACTTTC-CTCCAAAAATTTTACTTCCCCCAAA-CCCCCAAAACTTTTA
39185962 CTTTCTCCCA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
52 36 0.39
53 7 0.08
54 2 0.02
55 35 0.38
56 12 0.13
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.39
Consensus pattern (53 bp):
CTTTTACTTTCCTCCAAAAATTTTACTTCCCCCAAACCCCCAAAACTTTTATT
Found at i:39186365 original size:19 final size:19
Alignment explanation
Indices: 39186341--39186378 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39186331 AAGTTAATAA
*
39186341 CAAATTTGATTATGGTGGG
1 CAAATTTGATTACGGTGGG
39186360 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
39186379 TGGCAGTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:39187289 original size:9 final size:9
Alignment explanation
Indices: 39187272--39187308 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39187262 TGAATTTTCG
39187272 AATTCGAAT
1 AATTCGAAT
*
39187281 AACTCGAAT
1 AATTCGAAT
*
39187290 AATTTGAAT
1 AATTCGAAT
39187299 AATTCGAAT
1 AATTCGAAT
39187308 A
1 A
39187309 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39187391 original size:30 final size:31
Alignment explanation
Indices: 39187357--39187417 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
39187347 AAACCTTTTT
* *
39187357 ACTTTTCCATCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCACCAAAACTTTTACTCCCTTCCC
*
39187387 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
1 ACTTTCCCACCAAAACTTTTACTCCCTTCCC
39187418 CTCCCCTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCACCAAAACTTTTACTCCCTTCCC
Found at i:39187429 original size:30 final size:30
Alignment explanation
Indices: 39187367--39187429 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
39187357 ACTTTTCCAT
*
39187367 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCTTCCCACTTCCCCCC
39187397 CAAAACTTTTACTCCCTTCCC-C-TCCCCTCC
1 CAAAACTTTTACT-CCTTCCCACTTCCCC-CC
39187427 CAA
1 CAA
39187430 CCCCCCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 19 0.63
31 7 0.23
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (30 bp):
CAAAACTTTTACTCCTTCCCACTTCCCCCC
Found at i:39199415 original size:29 final size:31
Alignment explanation
Indices: 39199382--39199458 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
39199372 ATAAACACCA
39199382 GTACAAAGTACCTGATA-A-T-TAAGTCATCG
1 GTACAAAGTACCTGATATATTGTAA-TCATCG
* * *
39199411 GTACATAGTACTTGATATATTGTAATCATTG
1 GTACAAAGTACCTGATATATTGTAATCATCG
*
39199442 GTACACAGTACCTGATA
1 GTACAAAGTACCTGATA
39199459 CTTTAAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.38
30 1 0.03
31 21 0.52
32 3 0.08
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (31 bp):
GTACAAAGTACCTGATATATTGTAATCATCG
Found at i:39200556 original size:30 final size:30
Alignment explanation
Indices: 39200522--39200646 Score: 151
Period size: 30 Copynumber: 4.2 Consensus size: 30
39200512 CGACCAATGG
* *
39200522 AAAGGGATAGCTTCGGCTATCGAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* *
39200552 AAAGGGATGGTTTCAGCTATCAAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* * * **
39200582 AAAGTGATGGGTTCAGCTATTGAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
* *
39200612 AAAGGGATAGCTTCGGCTATAAAATTATGA
1 AAAGGGATAGCTTCAGCTATCAAATTATGA
39200642 AAAGG
1 AAAGG
39200647 TATGGTGACA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (30 bp):
AAAGGGATAGCTTCAGCTATCAAATTATGA
Found at i:39215387 original size:19 final size:19
Alignment explanation
Indices: 39215363--39215404 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
39215353 TTGCTAAAGA
39215363 TGCAAATATGTAGTGATAG
1 TGCAAATATGTAGTGATAG
*
39215382 TGCAAATATGTAGTGATAT
1 TGCAAATATGTAGTGATAG
39215401 TGCA
1 TGCA
39215405 TGGACAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (19 bp):
TGCAAATATGTAGTGATAG
Found at i:39231937 original size:9 final size:9
Alignment explanation
Indices: 39231923--39232007 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
39231913 TTTGGTTAAA
39231923 AATTAACCG
1 AATTAACCG
*
39231932 AATTAACTG
1 AATTAACCG
*
39231941 AATTACCCG
1 AATTAACCG
39231950 AATTAACCG
1 AATTAACCG
* *
39231959 AATTACCCT
1 AATTAACCG
*
39231968 AATTAATCG
1 AATTAACCG
*
39231977 AATTAACTG
1 AATTAACCG
* *
39231986 AATTACCCA
1 AATTAACCG
39231995 AATTAACCG
1 AATTAACCG
39232004 AATT
1 AATT
39232008 GAATCACTAC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:39233375 original size:29 final size:29
Alignment explanation
Indices: 39233343--39233412 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
39233333 CAAACAACCT
* *
39233343 TGTGACCCACACAACCTACCGCACTGTCG
1 TGTGACCCACACAACCTACCACACGGTCG
* * * * *
39233372 TGTGATCTATACAGCTTACCACACGGTCG
1 TGTGACCCACACAACCTACCACACGGTCG
39233401 TGTGACCCACAC
1 TGTGACCCACAC
39233413 GGTCTACCAC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (29 bp):
TGTGACCCACACAACCTACCACACGGTCG
Found at i:39235984 original size:16 final size:16
Alignment explanation
Indices: 39235963--39236007 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
39235953 AATTTTGAAA
39235963 TATTTTTTAAAATTTT
1 TATTTTTTAAAATTTT
* *
39235979 TATTTTTTTAAATATT
1 TATTTTTTAAAATTTT
*
39235995 T-TTTTTTAGAATT
1 TATTTTTTAAAATT
39236008 AGGATCAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTTAAAATTTT
Found at i:39235987 original size:17 final size:17
Alignment explanation
Indices: 39235965--39236001 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
39235955 TTTTGAAATA
39235965 TTTTTTAAA-ATTTTTAT
1 TTTTTTAAATATTTTT-T
39235982 TTTTTTAAATATTTTTT
1 TTTTTTAAATATTTTTT
39235999 TTT
1 TTT
39236002 AGAATTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTAAATATTTTTT
Found at i:39236431 original size:12 final size:12
Alignment explanation
Indices: 39236414--39236439 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39236404 GCTATAGTTG
39236414 AAAAATTAAATA
1 AAAAATTAAATA
39236426 AAAAATTAAATA
1 AAAAATTAAATA
39236438 AA
1 AA
39236440 TTCACAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTAAATA
Found at i:39237632 original size:13 final size:13
Alignment explanation
Indices: 39237609--39237642 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
39237599 ACTCTCTCAC
39237609 ACATA-TATATAT
1 ACATATTATATAT
*
39237621 ATATATTATATAT
1 ACATATTATATAT
39237634 ACATATTAT
1 ACATATTAT
39237643 TCCAATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ACATATTATATAT
Found at i:39252045 original size:72 final size:72
Alignment explanation
Indices: 39251965--39252105 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
39251955 TCTATATGTT
* *
39251965 CACTCGAATGCCGATTTAGAATTCTAAGTTAACTTATGAATAGATTTAAT-TTTCTTACATGATT
1 CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTT-ATGTTTCTTACATGATT
39252029 CAAAATTA
65 CAAAATTA
* * * *
39252037 CACTCGAATGTCGGTTTAAAATTTTAGGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
1 CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
39252102 AAAA
66 AAAA
39252106 CTTTGATCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
71 2 0.03
72 60 0.97
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (72 bp):
CACTCGAATGCCGATTTAAAATTCTAAGTTAACTCATGAATAGATTTATGTTTCTTACATGATTC
AAAATTA
Found at i:39255244 original size:20 final size:19
Alignment explanation
Indices: 39255176--39255241 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
39255166 TCATATATAA
* *
39255176 TAAATATTATAAATTATTT
1 TAAATATTATTAATTAATT
39255195 TATAATATTATTAA--AATAT
1 TA-AATATTATTAATTAAT-T
39255214 TAAA-A-TATTAATTAATT
1 TAAATATTATTAATTAATT
39255231 TAAATATTATT
1 TAAATATTATT
39255242 TAAATGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 8 0.21
19 9 0.23
20 10 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATATTATTAATTAATT
Found at i:39261873 original size:15 final size:16
Alignment explanation
Indices: 39261850--39261883 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
39261840 GTTTACAAAA
39261850 TATGTATATATATAAG
1 TATGTATATATATAAG
39261866 TATG-ATATATATAAG
1 TATGTATATATATAAG
39261881 TAT
1 TAT
39261884 ATTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TATGTATATATATAAG
Found at i:39261896 original size:23 final size:22
Alignment explanation
Indices: 39261870--39261923 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
39261860 TATAAGTATG
* * *
39261870 ATATATATAAGTATATTTTGAAA
1 ATATGTATAAGCATATATT-AAA
*
39261893 ATATGTATATGCATATATTAAA
1 ATATGTATAAGCATATATTAAA
39261915 ATATGTATA
1 ATATGTATA
39261924 TATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
ATATGTATAAGCATATATTAAA
Found at i:39261924 original size:16 final size:17
Alignment explanation
Indices: 39261899--39261944 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
39261889 GAAAATATGT
39261899 ATATGCATATAT-TAAA
1 ATATGCATATATATAAA
*
39261915 ATATGTATATATATAAA
1 ATATGCATATATATAAA
*
39261932 A-ATG-AAATATATA
1 ATATGCATATATATA
39261945 TTTATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 8 0.30
16 14 0.52
17 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (17 bp):
ATATGCATATATATAAA
Found at i:39265959 original size:29 final size:30
Alignment explanation
Indices: 39265900--39265957 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39265890 TCCGAGCCTT
*
39265900 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGCAAAAGTTTA
* *
39265930 GGGGCAAAATTGTAATTTTGCAAAAGTT
1 GGGGCAAAAATGTAATTATGCAAAAGTT
39265958 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:39266187 original size:13 final size:13
Alignment explanation
Indices: 39266169--39266200 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39266159 TTTCCAGCAA
39266169 TTATGAATTTATT
1 TTATGAATTTATT
39266182 TTATGAATTTATT
1 TTATGAATTTATT
*
39266195 TGATGA
1 TTATGA
39266201 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:39266408 original size:50 final size:50
Alignment explanation
Indices: 39266295--39266536 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
39266285 ATTTGGGTAA
* * *
39266295 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
39266351 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
39266401 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
39266451 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
39266501 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
39266537 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:39266484 original size:100 final size:103
Alignment explanation
Indices: 39266295--39266544 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
39266285 ATTTGGGTAA
39266295 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
39266360 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
39266401 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
39266463 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
39266501 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
39266545 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:39273553 original size:29 final size:30
Alignment explanation
Indices: 39273494--39273551 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39273484 TCCGAGCCTT
*
39273494 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
39273524 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
39273552 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:39273781 original size:13 final size:13
Alignment explanation
Indices: 39273763--39273794 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39273753 TTTCCAGCAA
39273763 TTATGAATTTATT
1 TTATGAATTTATT
39273776 TTATGAATTTATT
1 TTATGAATTTATT
*
39273789 TGATGA
1 TTATGA
39273795 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:39274002 original size:50 final size:50
Alignment explanation
Indices: 39273889--39274124 Score: 285
Period size: 50 Copynumber: 4.6 Consensus size: 50
39273879 ATTTGGGTAA
* * *
39273889 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
39273945 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
39273995 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
39274045 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
39274095 AGAACATCCCATGTAAGACCATGTCTGGGA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGA
39274125 TGGATTTGGC
Statistics
Matches: 160, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.57
51 23 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:39274078 original size:100 final size:103
Alignment explanation
Indices: 39273889--39274124 Score: 345
Period size: 100 Copynumber: 2.3 Consensus size: 103
39273879 ATTTGGGTAA
39273889 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
39273954 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
39273995 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
39274057 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
39274095 AGAACATCCCATGTAAGACCATGTCTGGGA
1 AG-AGATCCCATGTAAGACCATGTCTGGGA
39274125 TGGATTTGGC
Statistics
Matches: 121, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.42
101 27 0.22
105 2 0.02
106 40 0.33
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:39278110 original size:18 final size:18
Alignment explanation
Indices: 39278068--39278110 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
39278058 GGGCTGCTGA
39278068 ACGTGGGCGGTTGCTGCG
1 ACGTGGGCGGTTGCTGCG
*
39278086 -CTATGGGCGGTTGCTGCG
1 AC-GTGGGCGGTTGCTGCG
39278104 ACGTGGG
1 ACGTGGG
39278111 GCGTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.07, C:0.21, G:0.49, T:0.23
Consensus pattern (18 bp):
ACGTGGGCGGTTGCTGCG
Done.