Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 167 of 210
Found at i:50111757 original size:23 final size:23
Alignment explanation
Indices: 50111724--50111772 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
50111714 ATCCAAAAAG
50111724 TATATGAGAATATAGTCGTCACT
1 TATATGAGAATATAGTCGTCACT
*
50111747 TATATGCGAATATAGTCGTCACT
1 TATATGAGAATATAGTCGTCACT
50111770 TAT
1 TAT
50111773 GTAACACCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
TATATGAGAATATAGTCGTCACT
Found at i:50113428 original size:42 final size:42
Alignment explanation
Indices: 50113382--50113620 Score: 250
Period size: 42 Copynumber: 5.7 Consensus size: 42
50113372 TCTAAAGCTG
* * * *
50113382 AACAGAAGCTCGTAAAAGCTAAACAGAAAC-CTATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTC-ATAAGAGTTA
* * *
50113424 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGGGTTA
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
* *
50113466 AACAGAAGCTCA-AAAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAA-AGCTGAACAGAAACTCATAAGAGTTA
* * * *
50113508 AATAGAAGCTCATAAGAGCTGAACAGAAACTTATAAGAGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
** * * *
50113550 AGTAGAAGCTCGA-AAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATAAAAGCTGAACAGAAACTCATAAGAGTTA
* *
50113592 AACAGAAGCTCATAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAAAGCTGAACAGAAA
50113621 GTAAAACATG
Statistics
Matches: 167, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.02
42 160 0.96
43 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
Found at i:50113543 original size:21 final size:21
Alignment explanation
Indices: 50113363--50113620 Score: 191
Period size: 21 Copynumber: 12.4 Consensus size: 21
50113353 GTACATCATT
*
50113363 AACAGAAGCTC-TAA-AGCTG
1 AACAGAAACTCATAAGAGCTG
* * * *
50113382 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAACTCATAAGAGCTG
* *
50113403 AACAGAAAC-CTATAAGGGTTG
1 AACAGAAACTC-ATAAGAGCTG
*
50113424 AACAGAAGCTCATAAGAGCTG
1 AACAGAAACTCATAAGAGCTG
* * * *
50113445 AACAAAAACTCATAAGGGTTA
1 AACAGAAACTCATAAGAGCTG
* *
50113466 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAACTCATAAGAGCTG
* * * *
50113487 AACGGAAACTCATATGAGTTA
1 AACAGAAACTCATAAGAGCTG
* *
50113508 AATAGAAGCTCATAAGAGCTG
1 AACAGAAACTCATAAGAGCTG
* *
50113529 AACAGAAACTTATAAGAGTTG
1 AACAGAAACTCATAAGAGCTG
** *
50113550 AGTAGAAGCTCGA-AAGAGCTG
1 AACAGAAACTC-ATAAGAGCTG
* * * *
50113571 AACGGAAACTCATATGAGTTA
1 AACAGAAACTCATAAGAGCTG
* *
50113592 AACAGAAGCTCATAAGAGCTA
1 AACAGAAACTCATAAGAGCTG
50113613 AACAGAAA
1 AACAGAAA
50113621 GTAAAACATG
Statistics
Matches: 179, Mismatches: 54, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
19 11 0.06
20 5 0.03
21 161 0.90
22 2 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGCTG
Found at i:50113617 original size:84 final size:84
Alignment explanation
Indices: 50113382--50113620 Score: 320
Period size: 84 Copynumber: 2.8 Consensus size: 84
50113372 TCTAAAGCTG
* * * * *
50113382 AACAGAAGCTCGTAAA-AGCTAAACAGAAAC-CTATAAGGGTTGAACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCG-AAAGAGCTGAACGGAAACTC-ATATGAGTTAAACAGAAGCTCATAAGAGCTG
* *
50113445 AACAAAAACTCATAAGGGTTA
64 AACAGAAACTCATAAGAGTTA
* *
50113466 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCATAAGAGCTGAA
1 AACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCATAAGAGCTGAA
* *
50113531 CAGAAACTTATAAGAGTTG
66 CAGAAACTCATAAGAGTTA
** *
50113550 AGTAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCATAAGAGCTAAA
1 AACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCATAAGAGCTGAA
50113615 CAGAAA
66 CAGAAA
50113621 GTAAAACATG
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 3 0.02
84 133 0.97
85 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (84 bp):
AACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCATAAGAGCTGAA
CAGAAACTCATAAGAGTTA
Found at i:50115895 original size:71 final size:71
Alignment explanation
Indices: 50115754--50115921 Score: 198
Period size: 71 Copynumber: 2.4 Consensus size: 71
50115744 AACCAAAGTG
* * * *
50115754 CTACTGATACCCTGAAGACTTCTACCAAGACAAGTCAAGTCAATAGCCAAAGTTCAACATCTCCT
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCTCCT
*
50115819 GCACTT
66 ACACTT
* * *
50115825 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAGTAGCCAAAGTTTAGCATC-CTC
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCTC-C
50115889 TACACTT
65 TACACTT
* *
50115896 TTATCGAT-CCTTTGATGGA-TTCTACC
1 CTACCGATACC-TTGA-GGACTTCTACC
50115922 GATACCAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
70 3 0.04
71 78 0.93
72 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (71 bp):
CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCTCCT
ACACTT
Found at i:50120784 original size:7 final size:6
Alignment explanation
Indices: 50120762--50120848 Score: 66
Period size: 6 Copynumber: 13.8 Consensus size: 6
50120752 GAAGTTTAAG
* * * *
50120762 AAAATA AAAATAA AAAACTA AAAACA AAAACA AAAATA AAAAGA AACATA
1 AAAATA AAAAT-A AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * *
50120812 AAAAGA AAAAGA AAACTA AAAAGA AAACATA TAAAAT
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA -AAAAT
50120849 CAATGGTCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
6 47 0.72
7 14 0.22
8 4 0.06
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:50120801 original size:18 final size:18
Alignment explanation
Indices: 50120762--50120838 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
50120752 GAAGTTTAAG
* *
50120762 AAAATAAAAATAAAAAACTA
1 AAAAGAAAAAT-AAAAA-GA
* * *
50120782 AAAACAAAAACAAAAATA
1 AAAAGAAAAATAAAAAGA
*
50120800 AAAAGAAACATAAAAAGA
1 AAAAGAAAAATAAAAAGA
*
50120818 AAAAGAAAACTAAAAAGA
1 AAAAGAAAAATAAAAAGA
50120836 AAA
1 AAA
50120839 CATATAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
18 35 0.71
19 5 0.10
20 9 0.18
ACGTcount: A:0.81, C:0.06, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAATAAAAAGA
Found at i:50122527 original size:28 final size:29
Alignment explanation
Indices: 50122496--50122564 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
50122486 AAAAAAAAGC
50122496 AGAATAATAAAATAA-AATAAAATAATAA
1 AGAATAATAAAATAATAATAAAATAATAA
*
50122524 AGAA-ATTAAAGA-AATAATAAAATAATAA
1 AGAATAATAAA-ATAATAATAAAATAATAA
*
50122552 AGAATTA-AAAATA
1 AGAATAATAAAATA
50122565 GGGGAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (29 bp):
AGAATAATAAAATAATAATAAAATAATAA
Found at i:50129590 original size:24 final size:25
Alignment explanation
Indices: 50129541--50129590 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
50129531 AAAAATGGAT
* *
50129541 AATTAATTGTTGTCCTTAAAATAGG
1 AATTAATTGTTGTCCATAAAAAAGG
50129566 AATT-ATTGTT-TCCATAAGAAAAGG
1 AATTAATTGTTGTCCATAA-AAAAGG
50129590 A
1 A
50129591 CATAAGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
AATTAATTGTTGTCCATAAAAAAGG
Found at i:50134648 original size:21 final size:21
Alignment explanation
Indices: 50134622--50134664 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
50134612 GTAGTACTTT
*
50134622 TGAGTTAGTAAAAAAAATTCA
1 TGAGTTAGTAAAAAAAAATCA
50134643 TGAGTTAGTAAAAAAAAATCA
1 TGAGTTAGTAAAAAAAAATCA
50134664 T
1 T
50134665 TTATTAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
TGAGTTAGTAAAAAAAAATCA
Found at i:50141835 original size:37 final size:37
Alignment explanation
Indices: 50141783--50141869 Score: 149
Period size: 37 Copynumber: 2.4 Consensus size: 37
50141773 ACACAAGCAG
*
50141783 TCCAACCGA-AACATGCCAAATGCTCATGAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
*
50141819 TCTAACCGATAACATGCCAAATGCTCATAAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
50141856 TCCAACCGATAACA
1 TCCAACCGATAACA
50141870 CCCCTCGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 8 0.17
37 39 0.83
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (37 bp):
TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
Found at i:50147545 original size:15 final size:15
Alignment explanation
Indices: 50147525--50147565 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50147515 CGATGTATAA
*
50147525 TGTGATATGTGATTG
1 TGTGATATGTGATCG
*
50147540 TGTGATACGTGATCG
1 TGTGATATGTGATCG
*
50147555 TGTGGTATGTG
1 TGTGATATGTG
50147566 TAAAACATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.41
Consensus pattern (15 bp):
TGTGATATGTGATCG
Found at i:50150716 original size:25 final size:26
Alignment explanation
Indices: 50150682--50150772 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 26
50150672 ATTCTATTTG
*
50150682 GCCTTTGTGGTGTATCT-TGTATGTT
1 GCCTTTGTGGCGTATCTCTGTATGTT
*
50150707 GCCTTTGTGGCGTA-CTCTG-A--TA
1 GCCTTTGTGGCGTATCTCTGTATGTT
*
50150729 GACTTTGTGGCGTAT-TCTGTATGTT
1 GCCTTTGTGGCGTATCTCTGTATGTT
50150754 GCCTTTGTGGCGT-TCTCTG
1 GCCTTTGTGGCGTATCTCTG
50150773 ATAATATTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
22 18 0.33
23 1 0.02
24 4 0.07
25 32 0.58
ACGTcount: A:0.09, C:0.18, G:0.29, T:0.45
Consensus pattern (26 bp):
GCCTTTGTGGCGTATCTCTGTATGTT
Found at i:50150737 original size:22 final size:22
Alignment explanation
Indices: 50150709--50150775 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
50150699 TGTATGTTGC
50150709 CTTTGTGGCGTACTCTGATAGA
1 CTTTGTGGCGTACTCTGATAGA
* * *
50150731 CTTTGTGGCGTATTCTGTATGTTGC
1 CTTTGTGGCGTACTCTG-A--TAGA
*
50150756 CTTTGTGGCGTTCTCTGATA
1 CTTTGTGGCGTACTCTGATA
50150776 ATATTTGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 17 0.47
23 1 0.03
24 1 0.03
25 17 0.47
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.43
Consensus pattern (22 bp):
CTTTGTGGCGTACTCTGATAGA
Found at i:50150753 original size:47 final size:47
Alignment explanation
Indices: 50150684--50150867 Score: 180
Period size: 47 Copynumber: 4.0 Consensus size: 47
50150674 TCTATTTGGC
*
50150684 CTTTGTGGTGTA-TCTTGTATGTTGCCTTTGTGGCGTACTCTGATAGA
1 CTTTGTGGCGTATTC-TGTATGTTGCCTTTGTGGCGTACTCTGATAGA
*
50150731 CTTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCGTTCTCTGATA-A
1 CTTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCGTACTCTGATAGA
* * * ** * *
50150777 TATTTGGGGTGTATTCTGTATGTTTTCTTTGTGGTGTACTCTGGTAG-
1 -CTTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCGTACTCTGATAGA
* * * * *
50150824 CTTTTGTGGCTTATTCCGTCTG--GCCCTTGTGGCATACTCTGATA
1 C-TTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCGTACTCTGATA
50150868 AGTTTATGTT
Statistics
Matches: 111, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 16 0.14
46 1 0.01
47 92 0.83
48 2 0.02
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.46
Consensus pattern (47 bp):
CTTTGTGGCGTATTCTGTATGTTGCCTTTGTGGCGTACTCTGATAGA
Found at i:50152422 original size:23 final size:22
Alignment explanation
Indices: 50152357--50152422 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
50152347 TTGGTGGGAG
* *
50152357 CATTCTGGCACTATAATGCAATT
1 CATTTTGGCACT-TAATGCAACT
*
50152380 CATTTTGGCA-TTGATGTGCAACT
1 CATTTTGGCACTT-A-ATGCAACT
50152403 CATTTTGGCACTTCAATGCA
1 CATTTTGGCACTT-AATGCA
50152423 TTACATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
23 29 0.83
24 3 0.09
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
CATTTTGGCACTTAATGCAACT
Found at i:50153778 original size:19 final size:17
Alignment explanation
Indices: 50153754--50153788 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
50153744 ATTATTTGAA
50153754 TATTATATAATTCTTGTTT
1 TATTAT-TAATT-TTGTTT
50153773 TATTATTAATTTTGTT
1 TATTATTAATTTTGTT
50153789 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTATTAATTTTGTTT
Found at i:50153794 original size:18 final size:19
Alignment explanation
Indices: 50153754--50153794 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
50153744 ATTATTTGAA
*
50153754 TATTATATAATTCTTGTTT
1 TATTATATAATTCTTGTTC
50153773 TATTAT-TAATT-TTGTTAC
1 TATTATATAATTCTTGTT-C
50153791 TATT
1 TATT
50153795 TTAGAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTATATAATTCTTGTTC
Found at i:50165253 original size:25 final size:25
Alignment explanation
Indices: 50165225--50165341 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
50165215 TTACCTTACA
*
50165225 GGCTTTCCAGATAACTCGCCACAAG
1 GGCTTTCCAGATAACTCACCACAAG
* *
50165250 GGCTTCCCA-A-ACATTACACCACATAG
1 GGCTTTCCAGATA-ACT-CACCACA-AG
* * *
50165276 GCCTTT-CAGAAAATTCACCACAAG
1 GGCTTTCCAGATAACTCACCACAAG
* * *
50165300 GGCTTCCCAGATAACCTCGCCACAAA
1 GGCTTTCCAGATAA-CTCACCACAAG
*
50165326 GGCTTTACTAGATAAC
1 GGCTTT-CCAGATAAC
50165342 CTGCCATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.01
24 9 0.13
25 29 0.41
26 24 0.34
27 8 0.11
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (25 bp):
GGCTTTCCAGATAACTCACCACAAG
Found at i:50165322 original size:26 final size:26
Alignment explanation
Indices: 50165293--50165359 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
50165283 AGAAAATTCA
* *
50165293 CCACAAGGGC-TTCCCAGATAACCTCG
1 CCACAAAGGCTTTACCAGATAACCT-G
*
50165319 CCACAAAGGCTTTACTAGATAACCTG
1 CCACAAAGGCTTTACCAGATAACCTG
* *
50165345 CCATAAATGCTTTAC
1 CCACAAAGGCTTTAC
50165360 ACAAACTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (26 bp):
CCACAAAGGCTTTACCAGATAACCTG
Found at i:50165338 original size:27 final size:26
Alignment explanation
Indices: 50165308--50165359 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
50165298 AGGGCTTCCC
50165308 AGATAACCTCGCCACAAAGGCTTTACT
1 AGATAACCT-GCCACAAAGGCTTTACT
* *
50165335 AGATAACCTGCCATAAATGCTTTAC
1 AGATAACCTGCCACAAAGGCTTTAC
50165360 ACAAACTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (26 bp):
AGATAACCTGCCACAAAGGCTTTACT
Found at i:50166175 original size:40 final size:40
Alignment explanation
Indices: 50166120--50166200 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
50166110 CACACATTGG
50166120 ATACACAAATCTCTATCACATCAATGACTCAAAGAGTCTA
1 ATACACAAATCTCTATCACATCAATGACTCAAAGAGTCTA
50166160 ATACACAAATCTCTATCACATCAATGACTCAAAGAGTCTA
1 ATACACAAATCTCTATCACATCAATGACTCAAAGAGTCTA
50166200 A
1 A
50166201 CATATCTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (40 bp):
ATACACAAATCTCTATCACATCAATGACTCAAAGAGTCTA
Found at i:50169954 original size:27 final size:27
Alignment explanation
Indices: 50169926--50170298 Score: 315
Period size: 27 Copynumber: 13.9 Consensus size: 27
50169916 TCATCTTCTA
** *
50169926 GGGGTATAACAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
** * * *
50169953 GGGGTATTTTGGTCATTCTACCGTCTG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
50169980 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
50170007 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
50170034 GGGCTATTTCAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
50170061 GGGGTATTTC-GATTATTTTATCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
50170088 GGGGTATTTCAATTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
** *
50170115 ATGGTATTTCGGTCATTTTACCCTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
50170141 GGGGTATTTCGGTTATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*** *
50170168 GGGGTATTTTTTTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
50170195 GAGGTATTT-TGATTATTTTATCCC-ATA
1 GGGGTATTTCAG-TCATTTTA-CCCTATG
* *
50170222 GGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
50170249 AGGGTACTTT-GGTCATTTTACACTATG
1 GGGGTA-TTTCAGTCATTTTACCCTATG
* **
50170276 AGGGTATTTTGGTCATTTTACCC
1 GGGGTATTTCAGTCATTTTACCC
50170299 ATTTTGGGGT
Statistics
Matches: 287, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
26 29 0.10
27 251 0.87
28 7 0.02
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:50169984 original size:54 final size:54
Alignment explanation
Indices: 50169926--50170298 Score: 367
Period size: 54 Copynumber: 6.9 Consensus size: 54
50169916 TCATCTTCTA
** * * * * *
50169926 GGGGTATAACAGTCATTTTACCCTATAGGGGTATTTTGGTCATTCTACCGTCTG
1 GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* * * *
50169980 GGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* * * * * *
50170034 GGGCTATTTCAGTTATTTTACCCTATGGGGGTATTTCGATTATTTTATCTTATG
1 GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* ** *
50170088 GGGGTATTTCAATTATTTTACCCTATGATGGTATTTCGGTCATTTTACCCTAT-
1 GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* * ** *
50170141 GGGGTATTTCGGTTATTCTACCCTATGGGGGTATTTTTTTCATTCTACCCTATG
1 GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* * * * *
50170195 GAGGTATTT-TGATTATTTTATCCC-ATAGGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATTTCAG-TTATTTTA-CCCTATGGGGGTATTTTGGTCATTTTACCCTATG
* * * * *
50170249 AGGGTACTTT-GGTCATTTTACACTATGAGGGTATTTTGGTCATTTTACCC
1 GGGGTA-TTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCC
50170299 ATTTTGGGGT
Statistics
Matches: 260, Mismatches: 54, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
53 47 0.18
54 206 0.79
55 7 0.03
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.43
Consensus pattern (54 bp):
GGGGTATTTCAGTTATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
Found at i:50170013 original size:81 final size:80
Alignment explanation
Indices: 50169936--50170298 Score: 397
Period size: 81 Copynumber: 4.5 Consensus size: 80
50169926 GGGGTATAAC
* * *
50169936 AGTCATTTTACCCTATAGGGGTATTTTGGTCATTCTACCGTCTGGGGGTATTTCGGTCATTCTAC
1 AGTCATTTTACCCTAT-GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTAC
50170001 CCTATGGGGGTATTTT
65 CCTATGGGGGTATTTT
** * * * * *
50170017 AGTCATTTTACCCTATGGGGCTATTTCAGTTATTTTACCCTATGGGGGTATTTCGATTATTTTAT
1 AGTCATTTTACCCTATGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTAC
* *
50170082 CTTATGGGGGTATTTC
65 CCTATGGGGGTATTTT
* * * * *
50170098 AATTATTTTACCCTATGATGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTTATTCTAC
1 AGTCATTTTACCCTATG-GGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTAC
50170162 CCTATGGGGGTATTTT
65 CCTATGGGGGTATTTT
** * * * * *
50170178 TTTCATTCTACCCTATGGAGGTATTTTGATTATTTTATCCC-ATAGGGGTATTTCGGTCATTTTA
1 AGTCATTTTACCCTATGG-GGTATTTTGGTCATTTTA-CCCTATGGGGGTATTTCGGTCATTCTA
* * *
50170242 CCTTATGAGGGTACTTT
64 CCCTATGGGGGTATTTT
* *
50170259 GGTCATTTTACACTATGAGGGTATTTTGGTCATTTTACCC
1 AGTCATTTTACCCTATG-GGGTATTTTGGTCATTTTACCC
50170299 ATTTTGGGGT
Statistics
Matches: 235, Mismatches: 41, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
80 69 0.29
81 163 0.69
82 3 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (80 bp):
AGTCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACC
CTATGGGGGTATTTT
Found at i:50170997 original size:12 final size:12
Alignment explanation
Indices: 50170980--50171021 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
50170970 ATTCCAATTT
50170980 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
50170992 TCTCT-CTAAATA
1 TCTCTCCTCAA-A
*
50171004 TCCCTCCTCAAA
1 TCTCTCCTCAAA
50171016 TCTCTC
1 TCTCTC
50171022 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:50174153 original size:16 final size:16
Alignment explanation
Indices: 50174099--50174153 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
50174089 TTTCTAAAAA
50174099 TAATATTATT-TTAATT
1 TAATATT-TTATTAATT
*
50174115 TAATATTTATATTGA--
1 TAATATTT-TATTAATT
50174130 TAATATTTTATTAATT
1 TAATATTTTATTAATT
50174146 TAATATTT
1 TAATATTT
50174154 ATGTGAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 5 0.15
15 9 0.27
16 16 0.48
17 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTATTAATT
Found at i:50174176 original size:30 final size:32
Alignment explanation
Indices: 50174098--50174208 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 32
50174088 TTTTCTAAAA
* *
50174098 ATAATATT-ATTTTAATTTAATATTTATATTG
1 ATAATATTAAATTTAATTTAATATTTATAGTG
**
50174129 ATAATATTTTA-TTAATTTAATATTTAT-GTG
1 ATAATATTAAATTTAATTTAATATTTATAGTG
* **
50174159 A-GATATTAAATTTAATTTAATATTTATCTTG
1 ATAATATTAAATTTAATTTAATATTTATAGTG
*
50174190 ATAAGATT--ATTTAATTTAA
1 ATAATATTAAATTTAATTTAA
50174209 CATTAATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
29 6 0.09
30 30 0.45
31 27 0.40
32 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (32 bp):
ATAATATTAAATTTAATTTAATATTTATAGTG
Found at i:50179200 original size:21 final size:22
Alignment explanation
Indices: 50179174--50179216 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
50179164 GGCTAGGTTT
*
50179174 TTTTAAT-TTTTAATGTTAGGG
1 TTTTAATATTTTAATGGTAGGG
50179195 TTTTAATATTTTAATGGTAGGG
1 TTTTAATATTTTAATGGTAGGG
50179217 CTAGAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (22 bp):
TTTTAATATTTTAATGGTAGGG
Found at i:50183053 original size:2 final size:2
Alignment explanation
Indices: 50183046--50183097 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
50183036 NNNNNNNTAC
50183046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50183088 TA TA TA TA TA
1 TA TA TA TA TA
50183098 AAGTAGAGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50184538 original size:13 final size:13
Alignment explanation
Indices: 50184520--50184544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50184510 TGGTTAGCAA
50184520 CAGTTAGTCATAG
1 CAGTTAGTCATAG
50184533 CAGTTAGTCATA
1 CAGTTAGTCATA
50184545 CAAGTATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
CAGTTAGTCATAG
Found at i:50190278 original size:30 final size:31
Alignment explanation
Indices: 50190239--50190298 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
50190229 AGAGGTGGGA
50190239 TGGGAAGGGAATAA-AAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAACAA-TTTTAGGGGAAAAG
* *
50190270 TGGG-AGGGAGTAACAATTTTGGGGGAAAA
1 TGGGAAGGGAATAACAATTTTAGGGGAAAA
50190299 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAACAATTTTAGGGGAAAAG
Found at i:50194682 original size:2 final size:2
Alignment explanation
Indices: 50194675--50194714 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
50194665 CTCTATCTCA
50194675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50194715 TTGTATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50197497 original size:2 final size:2
Alignment explanation
Indices: 50197492--50197520 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50197482 TTACAAGTTT
50197492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50197521 TGTTAGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50200894 original size:19 final size:19
Alignment explanation
Indices: 50200870--50200909 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
50200860 ATTATCTCTA
*
50200870 AATTTTAAAAATAATTTTT
1 AATTTTAAAAATAATGTTT
50200889 AATTTTAAAAATAATGTTT
1 AATTTTAAAAATAATGTTT
50200908 AA
1 AA
50200910 AATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATTTTAAAAATAATGTTT
Found at i:50203568 original size:70 final size:70
Alignment explanation
Indices: 50203480--50203618 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
50203470 GTGGATAGCT
* *
50203480 TTTGTTGCCTTTTTATATGTTATCCATGATTGTTTAAATGGATTAGATCGAGAATCGATTGATAT
1 TTTGTTACCTTTTTATATGTCATCCATGATTGTTTAAATGGATTAGATCGAGAATCGATTGATAT
50203545 ATCAC
66 ATCAC
* *
50203550 TTTGTTACCTTTTTATATGTCATCTATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGATAT
1 TTTGTTACCTTTTTATATGTCATCCATGATTGTTTAAATGGATTAGATCGAGAATCGATTGATAT
50203615 ATCA
66 ATCA
50203619 ATTCGATGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (70 bp):
TTTGTTACCTTTTTATATGTCATCCATGATTGTTTAAATGGATTAGATCGAGAATCGATTGATAT
ATCAC
Found at i:50203841 original size:49 final size:49
Alignment explanation
Indices: 50203788--50203887 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
50203778 TTTCTAAACC
50203788 AACCAGCCCAAATCCAAAAAATTGAATAAAAAGTACAACCCAAATAAAA
1 AACCAGCCCAAATCCAAAAAATTGAATAAAAAGTACAACCCAAATAAAA
50203837 AACCAGCCCAAATCCAAAAAATTGAATAAAAAGTACAACCCAAATAAAA
1 AACCAGCCCAAATCCAAAAAATTGAATAAAAAGTACAACCCAAATAAAA
50203886 AA
1 AA
50203888 ACAGAAAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.60, C:0.22, G:0.06, T:0.12
Consensus pattern (49 bp):
AACCAGCCCAAATCCAAAAAATTGAATAAAAAGTACAACCCAAATAAAA
Found at i:50204136 original size:18 final size:17
Alignment explanation
Indices: 50204113--50204151 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50204103 AATATTTTTA
50204113 AAAAATAATAATTTAAAG
1 AAAAAT-ATAATTTAAAG
* *
50204131 AAAAATCTAATTTAAAT
1 AAAAATATAATTTAAAG
50204148 AAAA
1 AAAA
50204152 TTGTGGTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAATATAATTTAAAG
Found at i:50205570 original size:2 final size:2
Alignment explanation
Indices: 50205563--50205599 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
50205553 GTAGTCCACT
50205563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50205600 TCTTTCAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50207679 original size:3 final size:3
Alignment explanation
Indices: 50207671--50207706 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50207661 TAGATAGCTT
50207671 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
50207707 TTGAATCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:50208890 original size:13 final size:13
Alignment explanation
Indices: 50208869--50208919 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
50208859 CCCCTAAAAA
50208869 TAATATTTTAATT
1 TAATATTTTAATT
* **
50208882 TAATCTTTTAAAAA
1 TAATATTTT-AATT
50208896 TAATATTTTAATT
1 TAATATTTTAATT
*
50208909 TAATCTTTTAA
1 TAATATTTTAA
50208920 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATATTTTAATT
Found at i:50208904 original size:14 final size:14
Alignment explanation
Indices: 50208863--50208906 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
50208853 TTTTGACCCC
50208863 TAAAAATAATATTT
1 TAAAAATAATATTT
** *
50208877 T-AATTTAATCTTT
1 TAAAAATAATATTT
50208890 TAAAAATAATATTT
1 TAAAAATAATATTT
50208904 TAA
1 TAA
50208907 TTTAATCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAAATAATATTT
Found at i:50208914 original size:27 final size:27
Alignment explanation
Indices: 50208863--50208923 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
50208853 TTTTGACCCC
50208863 TAAAAATAATATTTTAATTTAATCTTT
1 TAAAAATAATATTTTAATTTAATCTTT
50208890 TAAAAATAATATTTTAATTTAATCTTT
1 TAAAAATAATATTTTAATTTAATCTTT
50208917 TAAAAAT
1 TAAAAAT
50208924 TTTAAAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAAAATAATATTTTAATTTAATCTTT
Found at i:50213646 original size:13 final size:13
Alignment explanation
Indices: 50213628--50213670 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
50213618 CAGAAGAGTA
50213628 TTATTATTTATTT
1 TTATTATTTATTT
50213641 TTATTATGTTATTAT
1 TTATTAT-TTATT-T
50213656 TT-TATATTTATTT
1 TTAT-TATTTATTT
50213669 TT
1 TT
50213671 TTGCATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.37
14 11 0.41
15 6 0.22
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATTATTTATTT
Found at i:50215905 original size:22 final size:21
Alignment explanation
Indices: 50215862--50215918 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
50215852 TGTAGTTTTC
50215862 TAGGTGAAAAGTTGGATGTGA
1 TAGGTGAAAAGTTGGATGTGA
*
50215883 TAGGTGAAATA-TTAGGATTTGA
1 TAGGTGAAA-AGTT-GGATGTGA
*
50215905 TAGGTGAAAGGTTG
1 TAGGTGAAAAGTTG
50215919 ATGGGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.32
Consensus pattern (21 bp):
TAGGTGAAAAGTTGGATGTGA
Found at i:50224290 original size:18 final size:18
Alignment explanation
Indices: 50224269--50224304 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50224259 ACCCTGTCTG
50224269 TGATAATTTCATATCATT
1 TGATAATTTCATATCATT
50224287 TGATAATTTCATATCATT
1 TGATAATTTCATATCATT
50224305 GTAAAATTTG
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:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
TGATAATTTCATATCATT
Found at i:50224312 original size:18 final size:18
Alignment explanation
Indices: 50224273--50224313 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50224263 TGTCTGTGAT
*
50224273 AATTTCATATCATTTGAT
1 AATTTCATATCATTTGAA
50224291 AATTTCATATCA-TTGTAA
1 AATTTCATATCATTTG-AA
50224309 AATTT
1 AATTT
50224314 GAAATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (18 bp):
AATTTCATATCATTTGAA
Found at i:50224379 original size:15 final size:15
Alignment explanation
Indices: 50224359--50224396 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
50224349 AAATATTTAT
50224359 GTTTAAACCTTTAGA
1 GTTTAAACCTTTAGA
*
50224374 GTTTAAACCTTTATA
1 GTTTAAACCTTTAGA
50224389 GTTGTAAA
1 GTT-TAAA
50224397 GTTGTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (15 bp):
GTTTAAACCTTTAGA
Found at i:50229086 original size:6 final size:6
Alignment explanation
Indices: 50229075--50229099 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50229065 CATTATCAAC
50229075 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
50229100 AGGGAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:50231057 original size:43 final size:42
Alignment explanation
Indices: 50230987--50231102 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 42
50230977 TATAAAGCTC
* * * * *
50230987 ATACAATGCCATATCCCAGATATGGTCTTACATGCTAACGCAT
1 ATACGATGCCATGTCCCAGACATGGTCTTACATACGAA-GCAT
* *
50231030 AT-CGATGCCACTGTCCCAGACAGGGTCTT--ATACGAATCAT
1 ATACGATGCCA-TGTCCCAGACATGGTCTTACATACGAAGCAT
*
50231070 ATATGATGCCAATGTCCCAGACATGGTCTTACA
1 ATACGATGCC-ATGTCCCAGACATGGTCTTACA
50231103 CGAAATCACA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
40 5 0.08
41 28 0.47
42 8 0.14
43 18 0.31
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATACGATGCCATGTCCCAGACATGGTCTTACATACGAAGCAT
Found at i:50231088 original size:41 final size:42
Alignment explanation
Indices: 50231028--50231106 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
50231018 ATGCTAACGC
* *
50231028 ATATCGATGCCACTGTCCCAGACAGGGTCTTATACGAATCAT
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCAT
*
50231070 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAA
50231107 ATCACACCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 30 0.88
42 4 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCAT
Found at i:50231322 original size:61 final size:62
Alignment explanation
Indices: 50231227--50231582 Score: 417
Period size: 61 Copynumber: 5.9 Consensus size: 62
50231217 ATCCAATACT
* * *
50231227 CAAATC-AATTCGACAAT-TAATATCCATATACAAATTAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGT-ATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
* * *
50231288 CAAATC-AATACGGCAATGAATATCTATATACAAATCAAATTCGGCAATGTATA-CCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
* * * *
50231348 TAAATCAAATTCGGCAATGTATATCTATATTCAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
* * *
50231410 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTTGGCAA---ATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
* * * * ** *
50231469 CAAATC-ACTTCGGCAATGTATATTTATAAACAAATCAATTTCGATAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
** *
50231530 CAAATCAAATTTAGCAATGTATATCTTTATACAAATC-AATT-GGACAATGTATA
1 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGG-CAATGTATA
50231583 AAACATATAC
Statistics
Matches: 251, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
58 32 0.13
59 15 0.06
60 12 0.05
61 118 0.47
62 74 0.29
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (62 bp):
CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATATCTATATA
Found at i:50231520 original size:120 final size:123
Alignment explanation
Indices: 50231227--50231568 Score: 399
Period size: 120 Copynumber: 2.8 Consensus size: 123
50231217 ATCCAATACT
* * * * *
50231227 CAAATC-AATTCGACAAT-TAATATCCATATACAAATTAAATTCGGCAATGTATATCTATATACA
1 CAAATCAAATTCGGCAATGT-ATATCTATAAACAAATCAAATTCGACAATGTATATCTATATACA
* * *
50231290 AATC-AATACGGCAATGAATATCTATATACAAATCAAATTCGGCAATGTATACCATATA
65 AATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATATATACCATATA
* ** * * *
50231348 TAAATCAAATTCGGCAATGTATATCTATATTCAAATCAAATTCGGCAATGTATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTATATACAA
* * * *
50231413 ATCAAATTCGGCAATGTATAACCATATACAAATCAAATTTGGCAA-ATAT-CTATATA
66 ATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATATATACCATATA
* * * * *
50231469 CAAATC-ACTTCGGCAATGTATATTTATAAACAAATCAATTTCGATAATGTATATCTATAAACAA
1 CAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTATATACAA
** *
50231533 ATCAAATTTAGCAATGTATATCTTTATACAAATCAA
66 ATCAAATTCGGCAATGTATATCTATATACAAATCAA
50231569 TTGGACAATG
Statistics
Matches: 188, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
120 79 0.42
121 16 0.09
122 56 0.30
123 37 0.20
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (123 bp):
CAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTATATACAA
ATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATATATACCATATA
Found at i:50231537 original size:151 final size:152
Alignment explanation
Indices: 50231227--50231593 Score: 433
Period size: 151 Copynumber: 2.4 Consensus size: 152
50231217 ATCCAATACT
* * * *
50231227 CAAATC-AATTCGACAAT-TAATATCCATATACAAATTAAATTCGGCAATGTATATCTATATACA
1 CAAATCAAATTCGGCAATGT-ATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACA
* *
50231290 AATCAATACGGCAATGAATATCTATATACAAATCAAATTCGGCAATGTATACCATATATAAATCA
65 AATCAATACGGCAA-GAATATCTATATACAAATCAAATTCGGCAATGTATACCATAAACAAATCA
* **
50231355 AATTCGGCAATGTATATCTATATT
129 AATTCGACAATGTATATCTATAAA
*
50231379 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
** * **
50231444 ATCAAATTTGGC-A-AATATCTATATACAAATC-ACTTCGGCAATGTATATTTATAAACAAATCA
66 ATC-AATACGGCAAGAATATCTATATACAAATCAAATTCGGCAATGTATA-CCATAAACAAATCA
* *
50231506 ATTTCGATAATGTATATCTATAAA
129 AATTCGACAATGTATATCTATAAA
** ** *
50231530 CAAATCAAATTTAGCAATGTATATCTTTATACAAATC-AATT-GGACAATGTATAAAACATATAC
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGG-CAATGTAT-AACCATATAC
50231593 A
64 A
50231594 TTTAATTTCA
Statistics
Matches: 186, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
149 2 0.01
150 27 0.15
151 89 0.48
152 6 0.03
153 55 0.30
154 7 0.04
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (152 bp):
CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
ATCAATACGGCAAGAATATCTATATACAAATCAAATTCGGCAATGTATACCATAAACAAATCAAA
TTCGACAATGTATATCTATAAA
Found at i:50231580 original size:30 final size:31
Alignment explanation
Indices: 50231227--50231582 Score: 417
Period size: 31 Copynumber: 11.7 Consensus size: 31
50231217 ATCCAATACT
* *
50231227 CAAATC-AATTCGACAAT-TAATATCCATATA
1 CAAATCAAATTCGGCAATGT-ATATCTATATA
*
50231257 CAAATTAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50231288 CAAATC-AATACGGCAATGAATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
50231318 CAAATCAAATTCGGCAATGTATA-CCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50231348 TAAATCAAATTCGGCAATGTATATCTATATT
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50231379 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50231410 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
50231441 CAAATCAAATTTGGCAA---ATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
50231469 CAAATC-ACTTCGGCAATGTATATTTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* ** *
50231499 CAAATCAATTTCGATAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
** *
50231530 CAAATCAAATTTAGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
50231561 CAAATC-AATT-GGACAATGTATA
1 CAAATCAAATTCGG-CAATGTATA
50231583 AAACATATAC
Statistics
Matches: 282, Mismatches: 35, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
27 8 0.03
28 15 0.05
29 1 0.00
30 89 0.32
31 168 0.60
32 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:50237933 original size:125 final size:123
Alignment explanation
Indices: 50237708--50237992 Score: 385
Period size: 125 Copynumber: 2.3 Consensus size: 123
50237698 TATATATCCA
* * * * *
50237708 TATACGAATCAAATTCGGCAATGTATATCTATATACAAATCAATTTGGCAATGAATATCTATATA
1 TATACAAATCAAATTCGGCAATGTATAACCATATACAAATCAATTCGGCAATGAATATCTATAAA
* *
50237773 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCTG-CAATGTATAACTG
66 AAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTC-GACAATGTATAACTG
* * *
50237831 TATACAGATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATAA
1 TATACAAATCAAATTCGGCAATGTATAACCATATACAAATC-AATTCGGCAATGAATATCTAT-A
* * * *
50237896 AAAAAATCAATTTCGGTAATGTATATCTATAAACAAATCAAATTCGACAATGTATATCTT
64 AAAAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATAACTG
*
50237956 TATACAAATC-AATTCGGCAATGTATAAAACATATACA
1 TATACAAATCAAATTCGGCAATGTAT-AACCATATACA
50237993 TTTAATTTCA
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
123 36 0.26
124 34 0.24
125 71 0.50
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (123 bp):
TATACAAATCAAATTCGGCAATGTATAACCATATACAAATCAATTCGGCAATGAATATCTATAAA
AAAATCAAATTCGGCAATGTATATCTATAAACAAATCAAATTCGACAATGTATAACTG
Found at i:50237992 original size:31 final size:31
Alignment explanation
Indices: 50237680--50237981 Score: 385
Period size: 31 Copynumber: 9.7 Consensus size: 31
50237670 ATCCAATACT
* *
50237680 CAAATCAAATT-GGCAATATATATATCCATATA
1 CAAATCAAATTCGGC-A-ATGTATATCTATATA
*
50237712 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50237743 CAAATC-AATTTGGCAATGAATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
50237773 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
50237804 CAAATCAAATTCTGCAATGTATAACTGTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
50237835 CAGATCAAATTCAGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
50237866 CAAATCAAATTCGGCAATGTATATCTATAAAA
1 CAAATCAAATTCGGCAATGTATATCTAT-ATA
* * * *
50237898 AAAATCAATTTCGGTAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
50237929 CAAATCAAATTCGACAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
50237960 CAAATC-AATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
50237982 AAACATATAC
Statistics
Matches: 237, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
30 43 0.18
31 153 0.65
32 38 0.16
33 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:50239990 original size:20 final size:20
Alignment explanation
Indices: 50239962--50240007 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
50239952 ATTGATTTTG
*
50239962 TATTTTTTTTA-AAAATTCAA
1 TATTATTTTTATAAAATTC-A
*
50239982 TATTATTTTTATTAAATTCA
1 TATTATTTTTATAAAATTCA
50240002 TATTAT
1 TATTAT
50240008 ATCATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTTTTATAAAATTCA
Found at i:50246775 original size:18 final size:18
Alignment explanation
Indices: 50246754--50246797 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
50246744 CATAATAACA
50246754 AAAATTATAAAATAAAAT-
1 AAAATTATAAAA-AAAATC
50246772 AAAATTATAAAAAAAATC
1 AAAATTATAAAAAAAATC
50246790 AAAATTAT
1 AAAATTAT
50246798 TCATAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTATAAAAAAAATC
Found at i:50247951 original size:23 final size:23
Alignment explanation
Indices: 50247907--50247953 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50247897 TTATAAAATC
* *
50247907 AAATTAAATTATAAACAGATAAA
1 AAATTAAAATATAAACAAATAAA
**
50247930 AAATTAAAATATAATTAAATAAA
1 AAATTAAAATATAAACAAATAAA
50247953 A
1 A
50247954 CTCACACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTAAAATATAAACAAATAAA
Found at i:50250689 original size:10 final size:11
Alignment explanation
Indices: 50250671--50250714 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
50250661 TTAATAAGAT
50250671 TTAATATTAAA
1 TTAATATTAAA
50250682 TTAA-ATTAAA
1 TTAATATTAAA
* *
50250692 TATTATATTAAT
1 T-TAATATTAAA
50250704 TTAATATTAAA
1 TTAATATTAAA
50250715 ATGATTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.26
11 14 0.52
12 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:50250695 original size:17 final size:16
Alignment explanation
Indices: 50250673--50250714 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
50250663 AATAAGATTT
50250673 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
* *
50250690 AATATTATATTAATTT
1 AATATTAAATTAATTA
50250706 AATATTAAA
1 AATATTAAA
50250715 ATGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:50257228 original size:19 final size:21
Alignment explanation
Indices: 50257187--50257229 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
50257177 TTTTTAGAAA
* *
50257187 AAAAAAACAAAGGTGAAACAG
1 AAAAAAACAAAGCTGAAAAAG
50257208 AAAAAAA-AAAGCT-AAAAAG
1 AAAAAAACAAAGCTGAAAAAG
50257227 AAA
1 AAA
50257230 CCGTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 7 0.35
ACGTcount: A:0.74, C:0.07, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAAAACAAAGCTGAAAAAG
Found at i:50257800 original size:70 final size:69
Alignment explanation
Indices: 50257600--50257802 Score: 203
Period size: 71 Copynumber: 2.9 Consensus size: 69
50257590 GGGAGTATGA
* * * **
50257600 AATTCCCATTAATTTTTTTTTCTTTTAAATAATTTTTGAAAAAGTTGTTTCCAA-TTATAAAAAT
1 AATTCCCATTAAATATTTTTTCCTTTAAAT-ATTTTT-AAAAAGTTGTCACCAACTT-TAAAAAT
**
50257664 TTCATTT
63 CCCATTT
* * * * **
50257671 AATTCCCATCATATATTTTTTTCCTTTACATATACTTTTAAAAAG-TATCAGAAACTTTAAAAAT
1 AATTCCCATTAAATA-TTTTTTCCTTTA-A-ATATTTTTAAAAAGTTGTCACCAACTTTAAAAAT
50257735 CCCATTT
63 CCCATTT
*
50257742 AATTCCCATTAAATATTTTTTCCTTTAAATATTTATTTAAAAGTTGTCACCAACTTTAAAA
1 AATTCCCATTAAATATTTTTTCCTTTAAATATTT-TTAAAAAGTTGTCACCAACTTTAAAA
50257803 TAAATATAGT
Statistics
Matches: 106, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
68 5 0.05
69 8 0.08
70 26 0.25
71 40 0.38
72 19 0.18
73 6 0.06
74 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.46
Consensus pattern (69 bp):
AATTCCCATTAAATATTTTTTCCTTTAAATATTTTTAAAAAGTTGTCACCAACTTTAAAAATCCC
ATTT
Found at i:50257929 original size:23 final size:23
Alignment explanation
Indices: 50257899--50257953 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
50257889 GTCACCAACT
*
50257899 TTAAAATTCCCATTTAATT-TCTA
1 TTAAAATTCCCATCTAATTCTC-A
*
50257922 TTAAAATTCTCATCTAATTCTCA
1 TTAAAATTCCCATCTAATTCTCA
50257945 TTAAAATTC
1 TTAAAATTC
50257954 ACATAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAAATTCCCATCTAATTCTCA
Found at i:50257931 original size:11 final size:12
Alignment explanation
Indices: 50257899--50257953 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
50257889 GTCACCAACT
*
50257899 TTAAAATTCCCA
1 TTAAAATTCTCA
* *
50257911 TTTAATTTCT-A
1 TTAAAATTCTCA
50257922 TTAAAATTCTCA
1 TTAAAATTCTCA
50257934 TCT--AATTCTCA
1 T-TAAAATTCTCA
50257945 TTAAAATTC
1 TTAAAATTC
50257954 ACATAACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
10 1 0.03
11 18 0.53
12 14 0.41
13 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAAATTCTCA
Found at i:50259084 original size:12 final size:12
Alignment explanation
Indices: 50259060--50259091 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
50259050 TTTTCATTTA
50259060 TTTTCTTTCT-T
1 TTTTCTTTCTGT
50259071 TTTT-TTTCTGT
1 TTTTCTTTCTGT
50259082 TTTTCTTTCT
1 TTTTCTTTCT
50259092 CTTCTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.26
11 9 0.47
12 5 0.26
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTCTTTCTGT
Found at i:50271676 original size:51 final size:50
Alignment explanation
Indices: 50271618--50271787 Score: 173
Period size: 51 Copynumber: 3.4 Consensus size: 50
50271608 TTTTGGGGTT
* * * *
50271618 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACAATTATC-TTCGATACACGTAGTAGCC
* * *
50271669 TTCACATAGTACTACACACGTGATCAAGTT-T-TACGATCCACGTAGTAGCC
1 TTCACATAGTACTACACATGTGA-CAA-TTATCTTCGATACACGTAGTAGCC
*** * * *
50271719 TTCACATAGTACTACACATGTGACCAAAGCTTTTTGGTACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGA-CAATTATCTTCGATACACGTAGTAGCC
50271770 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
50271788 CGTGTTCATC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
50 43 0.43
51 52 0.52
52 3 0.03
53 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (50 bp):
TTCACATAGTACTACACATGTGACAATTATCTTCGATACACGTAGTAGCC
Found at i:50271718 original size:50 final size:51
Alignment explanation
Indices: 50271650--50271791 Score: 216
Period size: 50 Copynumber: 2.8 Consensus size: 51
50271640 ACTATTATCA
*
50271650 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* *
50271699 TTACGATCCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* *
50271751 TTTGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
50271792 TTCATCGATA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.47
51 38 0.46
52 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (51 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:50283492 original size:24 final size:26
Alignment explanation
Indices: 50283465--50283513 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
50283455 GGGGAGTAAA
*
50283465 AAAAAGAAGAAG-AA-AAGAGAAAAC
1 AAAAAGAAAAAGAAAGAAGAGAAAAC
*
50283489 AAAAATAAAAAGAAAGAAGAGAAAA
1 AAAAAGAAAAAGAAAGAAGAGAAAA
50283514 AGAATGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 2 0.10
26 9 0.43
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAAGAAAGAAGAGAAAAC
Found at i:50283506 original size:28 final size:26
Alignment explanation
Indices: 50283462--50283514 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
50283452 AACGGGGAGT
50283462 AAAAAAAAGAAGAAGAAAAGAGAAAAC
1 AAAAAAAAGAAGAAGAAAAGA-AAAAC
*
50283489 AAAAATAAA-AAGAAAGAAGAGAAAAA
1 AAAAA-AAAGAAG-AAGAAAAGAAAAA
50283515 GAATGAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (26 bp):
AAAAAAAAGAAGAAGAAAAGAAAAAC
Found at i:50283508 original size:26 final size:27
Alignment explanation
Indices: 50283462--50283513 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
50283452 AACGGGGAGT
50283462 AAAAAAAAGAAGAAGAAAAGAGAAAAC
1 AAAAAAAAGAAGAAGAAAAGAGAAAAC
*
50283489 AAAAATAAA-AAGAA-AGAAGAGAAAA
1 AAAAA-AAAGAAGAAGAAAAGAGAAAA
50283514 AGAATGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 10 0.43
28 3 0.13
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAGAAGAAAAGAGAAAAC
Found at i:50292153 original size:2 final size:2
Alignment explanation
Indices: 50292146--50292191 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
50292136 CCAAAATTGG
50292146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50292188 AT AT
1 AT AT
50292192 GGCTTAGCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50295288 original size:41 final size:41
Alignment explanation
Indices: 50295243--50295348 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 41
50295233 ATCCTACTTG
* * * *
50295243 GCTCAAAGCTCGACACGATACACCAGTACGAAGACTTCTAA
1 GCTCAAAGCACGACACAATACACCAGCACGAAGACTACTAA
* * * * *
50295284 GCTCAAGGCACGATACAATACACCGGCACGAAGCCTACTAG
1 GCTCAAAGCACGACACAATACACCAGCACGAAGACTACTAA
* * *
50295325 GCTCAAAGCCCGATATAATACACC
1 GCTCAAAGCACGACACAATACACC
50295349 CAACACATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (41 bp):
GCTCAAAGCACGACACAATACACCAGCACGAAGACTACTAA
Found at i:50298798 original size:5 final size:5
Alignment explanation
Indices: 50298784--50298854 Score: 67
Period size: 5 Copynumber: 14.2 Consensus size: 5
50298774 CATGGGAAAT
*
50298784 TTTTC CTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC -TTTC TTCCTTCC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT--TT-C
* *
50298834 TTTTT TTTTC TTTTC CTTTC T
1 TTTTC TTTTC TTTTC TTTTC T
50298855 CCCCCCTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
4 12 0.21
5 37 0.66
6 2 0.04
7 2 0.04
8 3 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:50309699 original size:8 final size:7
Alignment explanation
Indices: 50309674--50309704 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50309664 CGAAAAGAAA
50309674 AAAAAAG
1 AAAAAAG
50309681 AAAAAAG
1 AAAAAAG
50309688 AAAAAAG
1 AAAAAAG
*
50309695 CAAAAAG
1 AAAAAAG
50309702 AAA
1 AAA
50309705 TAAAATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:50309858 original size:9 final size:9
Alignment explanation
Indices: 50309822--50309854 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
50309812 TAAAAATAAT
50309822 AATAAGAAA
1 AATAAGAAA
50309831 AATAAGAAA
1 AATAAGAAA
50309840 AATAA-ATAA
1 AATAAGA-AA
50309849 AATAAG
1 AATAAG
50309855 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 21 0.95
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (9 bp):
AATAAGAAA
Found at i:50317807 original size:30 final size:30
Alignment explanation
Indices: 50317766--50317834 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
50317756 AGTAGCACAC
50317766 GACCATGTGGACCGCCCATGTGCGGAACAT
1 GACCATGTGGACCGCCCATGTGCGGAACAT
* * * * *
50317796 GACCGTGTGGACTGCCCGTGTGTGGCACAT
1 GACCATGTGGACCGCCCATGTGCGGAACAT
*
50317826 GCCCATGTG
1 GACCATGTG
50317835 CAAAACCACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.20
Consensus pattern (30 bp):
GACCATGTGGACCGCCCATGTGCGGAACAT
Found at i:50326438 original size:6 final size:6
Alignment explanation
Indices: 50326427--50326453 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50326417 TAAAAAAATA
50326427 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
50326454 GATTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:50327481 original size:15 final size:16
Alignment explanation
Indices: 50327461--50327495 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50327451 TTAAACAAGG
50327461 TTAAAGATTAATT-AA
1 TTAAAGATTAATTAAA
*
50327476 TTAAAGTTTAATTAAA
1 TTAAAGATTAATTAAA
50327492 TTAA
1 TTAA
50327496 TTAAGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTAAAGATTAATTAAA
Found at i:50327505 original size:19 final size:20
Alignment explanation
Indices: 50327470--50327509 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
50327460 GTTAAAGATT
*
50327470 AATTAATTAAAGTTTAATTA
1 AATTAATTAAAGGTTAATTA
50327490 AATTAATT-AAGGTTAATTA
1 AATTAATTAAAGGTTAATTA
50327509 A
1 A
50327510 CTTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
AATTAATTAAAGGTTAATTA
Found at i:50327527 original size:11 final size:10
Alignment explanation
Indices: 50327472--50327523 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
50327462 TAAAGATTAA
50327472 TTAATTAAAG
1 TTAATTAAAG
50327482 TTTAATTAAA-
1 -TTAATTAAAG
*
50327492 TTAATTAAGG
1 TTAATTAAAG
**
50327502 TTAATTAACT
1 TTAATTAAAG
50327512 TATAATTAAAG
1 T-TAATTAAAG
50327523 T
1 T
50327524 ATAAAAGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
10 9 0.26
11 17 0.50
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (10 bp):
TTAATTAAAG
Found at i:50328649 original size:30 final size:29
Alignment explanation
Indices: 50328613--50328801 Score: 207
Period size: 30 Copynumber: 6.3 Consensus size: 29
50328603 TGAGTAACCA
*
50328613 CAATTATAATGTTAGCTTGTGTGAGCAATT
1 CAATTATAATGTCAGCTTGTGTGAG-AATT
* * *
50328643 CAATTATAATGTCAGCTTGTTTAAGCAATC
1 CAATTATAATGTCAGCTTGTGTGAG-AATT
*
50328673 CGATTATAATGTCAGCTTGTGTGAGAATT
1 CAATTATAATGTCAGCTTGTGTGAGAATT
** *
50328702 CAATTATAATGTCAATTTGAGTGAGAAATT
1 CAATTATAATGTCAGCTTGTGTGAG-AATT
** *
50328732 TGATTATAATGTCAGCTTGTATGAGAAATT
1 CAATTATAATGTCAGCTTGTGTGAG-AATT
* * *
50328762 CGATTATAATGTAAGCTTGTGTGAGAAAT
1 CAATTATAATGTCAGCTTGTGTGAGAATT
50328791 CTAATTATAAT
1 C-AATTATAAT
50328802 TTCAACTTTT
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
29 28 0.21
30 106 0.79
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (29 bp):
CAATTATAATGTCAGCTTGTGTGAGAATT
Found at i:50328766 original size:89 final size:89
Alignment explanation
Indices: 50328613--50328809 Score: 259
Period size: 89 Copynumber: 2.2 Consensus size: 89
50328603 TGAGTAACCA
* * * * * *
50328613 CAATTATAATGTTAGCTTGTGTGAGCAATTCAATTATAATGTCAGCTTGTTTAAGCAATCCGATT
1 CAATTATAATGTCAACTTGAGTGAGAAATTCAATTATAATGTCAGCTTGTATAAGAAATCCGATT
* *
50328678 ATAATGTCAGCTTGTGTGAGAATT
66 ATAATGTAAGCTTGTGTGAGAAAT
* ** * *
50328702 CAATTATAATGTCAATTTGAGTGAGAAATTTGATTATAATGTCAGCTTGTATGAGAAATTCGATT
1 CAATTATAATGTCAACTTGAGTGAGAAATTCAATTATAATGTCAGCTTGTATAAGAAATCCGATT
50328767 ATAATGTAAGCTTGTGTGAGAAAT
66 ATAATGTAAGCTTGTGTGAGAAAT
*
50328791 CTAATTATAATTTCAACTT
1 C-AATTATAATGTCAACTT
50328810 TTGGGAGCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 77 0.84
90 15 0.16
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (89 bp):
CAATTATAATGTCAACTTGAGTGAGAAATTCAATTATAATGTCAGCTTGTATAAGAAATCCGATT
ATAATGTAAGCTTGTGTGAGAAAT
Found at i:50330753 original size:19 final size:18
Alignment explanation
Indices: 50330729--50330769 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50330719 CATAATGAGA
*
50330729 TAATACATTTTAAAACTAT
1 TAATACA-TATAAAACTAT
*
50330748 TAATACATATATAACTAT
1 TAATACATATAAAACTAT
50330766 TAAT
1 TAAT
50330770 TAGTCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATACATATAAAACTAT
Found at i:50331238 original size:23 final size:20
Alignment explanation
Indices: 50331191--50331256 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
50331181 TGTGATATAG
*
50331191 TATTACATAATATAATAACA
1 TATTACATAATATAATAAAA
*
50331211 TATTATATAACTATAACTAAAA
1 TATTACATAA-TATAA-TAAAA
50331233 CTATTA-ATACATAT-AT-AAA
1 -TATTACATA-ATATAATAAAA
50331252 TATTA
1 TATTA
50331257 TTTTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.12
19 3 0.08
20 10 0.25
21 6 0.15
22 10 0.25
23 6 0.15
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (20 bp):
TATTACATAATATAATAAAA
Found at i:50333090 original size:25 final size:25
Alignment explanation
Indices: 50333028--50333108 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
50333018 AGTAAGTTTT
* * * *
50333028 CTGAAACTATTTTTGATAGTATATC
1 CTGAAACTACTATAGATAGTATATA
* * *
50333053 CAGAAACTGCTATAGGTAGTATATA
1 CTGAAACTACTATAGATAGTATATA
*
50333078 CTGAGACTACTATAGATAG-ACTATA
1 CTGAAACTACTATAGATAGTA-TATA
50333103 CTGAAA
1 CTGAAA
50333109 ACACTTAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (25 bp):
CTGAAACTACTATAGATAGTATATA
Found at i:50344304 original size:21 final size:23
Alignment explanation
Indices: 50344274--50344339 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
50344264 TTCAACTATG
*
50344274 ATTAAATTTAATC-ACT-TTAAT
1 ATTAAATTTAATCTAATATTAAT
*
50344295 ATTAATTTTAATCTAATATTAAT
1 ATTAAATTTAATCTAATATTAAT
* * *
50344318 ATTAGATTAAATTTAATATTAA
1 ATTAAATTTAATCTAATATTAA
50344340 ATCTTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 12 0.32
22 2 0.05
23 23 0.62
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTAAATTTAATCTAATATTAAT
Found at i:50344466 original size:17 final size:17
Alignment explanation
Indices: 50344380--50344469 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 17
50344370 CAAGGTAAAC
50344380 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
50344397 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
*
50344417 ATTAAATTAAA--AAAT
1 ATTAAATTAAATTTAAT
50344432 ATT--ATTAAGA--TAAGT
1 ATTAAATTAA-ATTTAA-T
50344447 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
50344464 ATTAAA
1 ATTAAA
50344470 CTATTAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 22
0.71 0.02 0.26
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
15 10 0.17
16 1 0.02
17 20 0.33
18 5 0.08
19 2 0.03
20 14 0.23
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:50353815 original size:50 final size:50
Alignment explanation
Indices: 50353741--50353932 Score: 169
Period size: 50 Copynumber: 3.8 Consensus size: 50
50353731 AAAGTGAAAG
* * *
50353741 TGAT-GGTCACGTGTGTGGTACTATGTGTAGGCTACTATGTGTACTGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAA
* * * * *
50353790 TGATAGGTCGCATGTGTAGTACTATGTGTAGGGTACT-TGCGTACCGGATAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGG--AA
* * * * * *
50353841 T-TTCGATCACGTGTGTAGTACTATGTGCAGGCTAGTACGTGTA-TCGG-A
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACT-GGAA
*
50353889 TGGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
50353933 AACCGAACAT
Statistics
Matches: 112, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
48 2 0.02
49 13 0.12
50 55 0.49
51 42 0.38
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (50 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAA
Found at i:50353865 original size:100 final size:101
Alignment explanation
Indices: 50353747--50353927 Score: 251
Period size: 100 Copynumber: 1.8 Consensus size: 101
50353737 AAAGTGATGG
* * * *
50353747 TCACGTGTGTGGTACTATGTGTAGGCTACTATGTGTA-CTGGAATGAT-A-GGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GG-ATGATAATGGTCACATGTGTAG
* *
50353809 TACTATGTGTAGGGTACTTGCGTACCGGATAATTTCGA
64 TACTATGTGCAGGCTACTTGCGTACCGGATAATTTCGA
* *
50353847 TCACGTGTGTAGTACTATGTGCAGGCTAGTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
50353912 CTATGTGCAGGCTACT
66 CTATGTGCAGGCTACT
50353928 ATGTGAACCG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
99 4 0.06
100 36 0.51
101 30 0.43
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTTGCGTACCGGATAATTTCGA
Found at i:50354053 original size:23 final size:22
Alignment explanation
Indices: 50354027--50354070 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
50354017 AATTGACTAA
50354027 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
50354050 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
50354071 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:50357957 original size:17 final size:18
Alignment explanation
Indices: 50357930--50357964 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50357920 GTGAATGGGT
50357930 TTTTTTAATTATATTTTA
1 TTTTTTAATTATATTTTA
*
50357948 TTTTTT-ATTATCTTTTA
1 TTTTTTAATTATATTTTA
50357965 ATTATGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTATATTTTA
Found at i:50361625 original size:19 final size:20
Alignment explanation
Indices: 50361590--50361631 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
50361580 ATATAAAGTT
50361590 AAAGCAACTGAAAAACA-AA
1 AAAGCAACTGAAAAACAGAA
*
50361609 AAAGCAAC-GAGAGAACAGAA
1 AAAGCAACTGA-AAAACAGAA
50361629 AAA
1 AAA
50361632 ACCACAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.67, C:0.14, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAGCAACTGAAAAACAGAA
Found at i:50362899 original size:41 final size:43
Alignment explanation
Indices: 50362819--50362904 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
50362809 CTTAAGTAAA
*
50362819 ACCATATTTAATATAGTTTTTTTTAATGTGTTAATGAGTATTAT
1 ACCATATTTAATATAGTTTTTTTTAA-GTGTTAAAGAGTATTAT
50362863 ACCATATTTAATATAGTTTTTTTT-A-TGTTAAAGAGTATTAT
1 ACCATATTTAATATAGTTTTTTTTAAGTGTTAAAGAGTATTAT
50362904 A
1 A
50362905 AATTAATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 16 0.39
43 1 0.02
44 24 0.59
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (43 bp):
ACCATATTTAATATAGTTTTTTTTAAGTGTTAAAGAGTATTAT
Found at i:50366346 original size:18 final size:18
Alignment explanation
Indices: 50366323--50366358 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50366313 CTTTCTATTT
50366323 TTCTAATAAAAGAAGTTG
1 TTCTAATAAAAGAAGTTG
50366341 TTCTAATAAAAGAAGTTG
1 TTCTAATAAAAGAAGTTG
50366359 AGGTGTGAGT
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:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
TTCTAATAAAAGAAGTTG
Found at i:50366436 original size:17 final size:18
Alignment explanation
Indices: 50366409--50366443 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50366399 GTGAAAGTGG
50366409 TTTTTTAATTATATTTTA
1 TTTTTTAATTATATTTTA
*
50366427 TTTTTT-ATTATCTTTTA
1 TTTTTTAATTATATTTTA
50366444 ATTGTGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTATATTTTA
Found at i:50366525 original size:41 final size:41
Alignment explanation
Indices: 50366480--50366570 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
50366470 ATTTCTTTTA
50366480 AAATTTTATGTAGTCTTTTTATTTTTAGTCACATCCTAATT
1 AAATTTTATGTAGTCTTTTTATTTTTAGTCACATCCTAATT
50366521 AAATTTTATGTAGTCTTTTTATTTTTAGTCACATCCTAATT
1 AAATTTTATGTAGTCTTTTTATTTTTAGTCACATCCTAATT
50366562 AAATCTTTA
1 AAAT-TTTA
50366571 GTCACATCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 45 0.92
42 4 0.08
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (41 bp):
AAATTTTATGTAGTCTTTTTATTTTTAGTCACATCCTAATT
Found at i:50366526 original size:23 final size:23
Alignment explanation
Indices: 50366500--50366585 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 23
50366490 TAGTCTTTTT
50366500 ATTTTTAGTCACATCCTAATTAA
1 ATTTTTAGTCACATCCTAATTAA
* **
50366523 A-TTTTATGT-A-GT-CT--TTTT
1 ATTTTTA-GTCACATCCTAATTAA
50366541 ATTTTTAGTCACATCCTAATTAA
1 ATTTTTAGTCACATCCTAATTAA
*
50366564 ATCTTTAGTCACATCCTAATTA
1 ATTTTTAGTCACATCCTAATTA
50366586 TTGATGCATC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
18 5 0.10
19 6 0.12
20 3 0.06
21 3 0.06
22 6 0.12
23 26 0.53
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (23 bp):
ATTTTTAGTCACATCCTAATTAA
Found at i:50369592 original size:2 final size:2
Alignment explanation
Indices: 50369585--50369635 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
50369575 GTATTTAGAA
50369585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50369627 AT AT AT AT A
1 AT AT AT AT A
50369636 GGGGTTGATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50369990 original size:13 final size:13
Alignment explanation
Indices: 50369972--50370000 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50369962 CTTTATATGC
50369972 TATAAATTATATA
1 TATAAATTATATA
50369985 TATAAATTATATA
1 TATAAATTATATA
50369998 TAT
1 TAT
50370001 TCTTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATTATATA
Found at i:50371256 original size:17 final size:17
Alignment explanation
Indices: 50371234--50371266 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50371224 TTACAAAATC
50371234 AAATCTTATAAGATTAA
1 AAATCTTATAAGATTAA
*
50371251 AAATCTTCTAAGATTA
1 AAATCTTATAAGATTA
50371267 GTTTCTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATCTTATAAGATTAA
Found at i:50371296 original size:36 final size:36
Alignment explanation
Indices: 50371246--50371364 Score: 213
Period size: 36 Copynumber: 3.3 Consensus size: 36
50371236 ATCTTATAAG
*
50371246 ATTAAAAATCTTCTAAGATTAGTTTCTATATTTACC
1 ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
50371282 ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
1 ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
50371318 ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
1 ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
*
50371354 ATAAC-AATCTT
1 ATTACAAATCTT
50371365 TATTTTCCTT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
35 6 0.07
36 75 0.93
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (36 bp):
ATTACAAATCTTCTAAGATTAGTTTCTATATTTACC
Found at i:50377950 original size:22 final size:22
Alignment explanation
Indices: 50377922--50378005 Score: 123
Period size: 22 Copynumber: 3.8 Consensus size: 22
50377912 TCCTTGACTG
50377922 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
50377944 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
* * * **
50377966 ATGAGGGTTTAGTTCGTTAAAC
1 ATGAGAGCTTAGTACGTTAGCC
50377988 ATGAGAGCTTAGTACGTT
1 ATGAGAGCTTAGTACGTT
50378006 GTTCGAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (22 bp):
ATGAGAGCTTAGTACGTTAGCC
Found at i:50380610 original size:22 final size:23
Alignment explanation
Indices: 50380584--50380628 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
50380574 TATTATTCTA
*
50380584 AATTTAATATATTTA-AAAAATT
1 AATTTAACATATTTATAAAAATT
* *
50380606 AATTTCACATTTTTATAAAAATT
1 AATTTAACATATTTATAAAAATT
50380629 TAAAAACCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTAACATATTTATAAAAATT
Found at i:50381617 original size:24 final size:24
Alignment explanation
Indices: 50381590--50381652 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
50381580 GGTATACCAT
50381590 TTAAAATTATTTATAAATATT-AAA
1 TTAAAATTATTTATAAA-ATTAAAA
* *
50381614 TTAATAATAATTAATAAAATTAAAA
1 TTAA-AATTATTTATAAAATTAAAA
50381639 TATAAAA-TATTTAT
1 T-TAAAATTATTTAT
50381653 CAATTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 12 0.38
25 17 0.53
26 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAAATTATTTATAAAATTAAAA
Found at i:50381872 original size:17 final size:17
Alignment explanation
Indices: 50381846--50381879 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50381836 GAACGTGGTT
*
50381846 TTTTTGATTATATTTTA
1 TTTTTAATTATATTTTA
50381863 TTTTTAATTATATTTTA
1 TTTTTAATTATATTTTA
50381880 ATTGTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTAATTATATTTTA
Found at i:50385358 original size:16 final size:16
Alignment explanation
Indices: 50385337--50385368 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50385327 ATATTTTTAG
50385337 TATTTACCTTATAGTA
1 TATTTACCTTATAGTA
50385353 TATTTACCTTATAGTA
1 TATTTACCTTATAGTA
50385369 CAATATAAAT
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:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
TATTTACCTTATAGTA
Found at i:50386645 original size:17 final size:17
Alignment explanation
Indices: 50386623--50386656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50386613 ATTACAAAAT
50386623 CAAATCTTATAAGATTA
1 CAAATCTTATAAGATTA
*
50386640 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
50386657 GTTTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:50389922 original size:24 final size:24
Alignment explanation
Indices: 50389895--50389940 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
50389885 AAAAAGAAAC
*
50389895 AATTACCTTCACAATAATATAAAA
1 AATTACCTTCACAACAATATAAAA
50389919 AATTACCTTCACAACAATATAA
1 AATTACCTTCACAACAATATAA
50389941 TTTATTTATA
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:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (24 bp):
AATTACCTTCACAACAATATAAAA
Found at i:50394482 original size:17 final size:17
Alignment explanation
Indices: 50394460--50394493 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50394450 ATAATTATTT
50394460 GCCTACTTTTGGTAATA
1 GCCTACTTTTGGTAATA
50394477 GCCTACTTTTGGTAATA
1 GCCTACTTTTGGTAATA
50394494 TTGAAGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
GCCTACTTTTGGTAATA
Found at i:50402673 original size:19 final size:19
Alignment explanation
Indices: 50402649--50402689 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50402639 AGAGAATTTC
50402649 GATGAAATTATCAATTAGG
1 GATGAAATTATCAATTAGG
*
50402668 GATGAAATTATTAATTAGG
1 GATGAAATTATCAATTAGG
50402687 GAT
1 GAT
50402690 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (19 bp):
GATGAAATTATCAATTAGG
Found at i:50402775 original size:17 final size:17
Alignment explanation
Indices: 50402753--50402787 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50402743 TGGGTTGTTA
50402753 TTAATATGTATAAAAAT
1 TTAATATGTATAAAAAT
50402770 TTAATATGTATAAAAAT
1 TTAATATGTATAAAAAT
50402787 T
1 T
50402788 GACTAGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TTAATATGTATAAAAAT
Found at i:50403283 original size:25 final size:25
Alignment explanation
Indices: 50403247--50403348 Score: 127
Period size: 25 Copynumber: 4.1 Consensus size: 25
50403237 GGACACACCA
*
50403247 CAGCTCGA-ATGAGCTTCCCATTGTT
1 CAGCTC-ACATGAGCTTCCCATTATT
*
50403272 CAGCTCACATGAGCTTCCCGA-TACT
1 CAGCTCACATGAGCTTCCC-ATTATT
*
50403297 CAGCTCGCATGAGCTTCCCATTATT
1 CAGCTCACATGAGCTTCCCATTATT
**
50403322 CAGCTCACATGAGCTTCCTGTTATT
1 CAGCTCACATGAGCTTCCCATTATT
50403347 CA
1 CA
50403349 ACTCGGAAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
24 2 0.03
25 64 0.96
26 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (25 bp):
CAGCTCACATGAGCTTCCCATTATT
Found at i:50403361 original size:50 final size:50
Alignment explanation
Indices: 50403257--50403362 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
50403247 CAGCTCGAAT
* * *
50403257 GAGCTTCCCATTGTTCAGCTCACATGAGCTTCCCGATACTCAGCTCGCAT
1 GAGCTTCCCATTATTCAGCTCACATGAGCTTCCCGATACTCAACTCGCAA
* * * *
50403307 GAGCTTCCCATTATTCAGCTCACATGAGCTTCCTGTTATTCAACTCGGAA
1 GAGCTTCCCATTATTCAGCTCACATGAGCTTCCCGATACTCAACTCGCAA
50403357 GAGCTT
1 GAGCTT
50403363 ACTATTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GAGCTTCCCATTATTCAGCTCACATGAGCTTCCCGATACTCAACTCGCAA
Found at i:50404489 original size:17 final size:17
Alignment explanation
Indices: 50404467--50404500 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50404457 CTGGGATACG
50404467 GTCGTGTGTCCCTATTT
1 GTCGTGTGTCCCTATTT
50404484 GTCGTGTGTCCCTATTT
1 GTCGTGTGTCCCTATTT
50404501 TGAATGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.24, T:0.47
Consensus pattern (17 bp):
GTCGTGTGTCCCTATTT
Found at i:50412769 original size:22 final size:21
Alignment explanation
Indices: 50412731--50412771 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50412721 AATAAAAGAA
50412731 AAAATAACTTATATATTAATT
1 AAAATAACTTATATATTAATT
* *
50412752 AAAATTACTATATTTATTAA
1 AAAATAACT-TATATATTAA
50412772 ATATTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATAACTTATATATTAATT
Found at i:50413107 original size:20 final size:20
Alignment explanation
Indices: 50413068--50413107 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50413058 TGAATTACTT
* **
50413068 ATTACAGCTCTATTTTATTA
1 ATTACAACTCTATTCCATTA
50413088 ATTACAACTCTATTCCATTA
1 ATTACAACTCTATTCCATTA
50413108 CAGCCATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTACAACTCTATTCCATTA
Found at i:50414571 original size:15 final size:15
Alignment explanation
Indices: 50414553--50414593 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50414543 AATACTGAGC
50414553 AGAACAAAACAAAAT
1 AGAACAAAACAAAAT
* * *
50414568 AGAACAGAACAGAGT
1 AGAACAAAACAAAAT
50414583 AGAACAAAACA
1 AGAACAAAACA
50414594 TGTATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.66, C:0.15, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAACAAAACAAAAT
Found at i:50417199 original size:26 final size:26
Alignment explanation
Indices: 50417144--50417205 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
50417134 ATATAATAAA
* *
50417144 ATCATATAATAATAAAATTATCAAAC
1 ATCAAATAATAATAAAAGTATCAAAC
* *
50417170 ATCAAATAATAATAAAAGTCT-AACAT
1 ATCAAATAATAATAAAAGTATCAA-AC
50417196 ATCAAATAAT
1 ATCAAATAAT
50417206 TTTTTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (26 bp):
ATCAAATAATAATAAAAGTATCAAAC
Done.