Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 201 of 352
Found at i:66373272 original size:7 final size:7
Alignment explanation
Indices: 66373262--66373306 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
66373252 GAAGAAGGAC
66373262 AAAAAGAA
1 AAAAAG-A
66373270 AAAAAGAA
1 AAAAAG-A
66373278 AAAAAGA
1 AAAAAGA
66373285 AAAAA-A
1 AAAAAGA
66373291 GAAAAAGA
1 -AAAAAGA
66373299 AAAAAGA
1 AAAAAGA
66373306 A
1 A
66373307 GGAAATAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.03
7 19 0.54
8 15 0.43
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:66373303 original size:8 final size:8
Alignment explanation
Indices: 66373262--66373296 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
66373252 GAAGAAGGAC
66373262 AAAAAGAA
1 AAAAAGAA
66373270 AAAAAGAA
1 AAAAAGAA
66373278 AAAAAGAA
1 AAAAAGAA
66373286 AAAAAGAA
1 AAAAAGAA
66373294 AAA
1 AAA
66373297 GAAAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:66375450 original size:31 final size:30
Alignment explanation
Indices: 66375379--66375451 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
66375369 TTTTAGTCTG
* * *
66375379 TGAACCTGGCAATTGGGTCCACTTTGGTAC
1 TGAACTTGGCAACTAGGTCCACTTTGGTAC
* *
66375409 TGAACTTGGCAACTAGGTCCATTTTGGTCC
1 TGAACTTGGCAACTAGGTCCACTTTGGTAC
*
66375439 TTGCACTTGGCAA
1 -TGAACTTGGCAA
66375452 ATGTAAAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (30 bp):
TGAACTTGGCAACTAGGTCCACTTTGGTAC
Found at i:66382878 original size:16 final size:18
Alignment explanation
Indices: 66382843--66382882 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
66382833 GAGATAGTGA
66382843 GGAAGATGAGAAAGAAAT
1 GGAAGATGAGAAAGAAAT
*
66382861 GGAAG-TGAGGAA-AAAT
1 GGAAGATGAGAAAGAAAT
66382877 GGAAGA
1 GGAAGA
66382883 AACTCTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.10
Consensus pattern (18 bp):
GGAAGATGAGAAAGAAAT
Found at i:66384726 original size:7 final size:7
Alignment explanation
Indices: 66384714--66384746 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
66384704 TCTCACAAAA
66384714 ACCCAAC
1 ACCCAAC
66384721 ACCCAAC
1 ACCCAAC
66384728 ACCCAA-
1 ACCCAAC
66384734 ACCCAAC
1 ACCCAAC
66384741 ACCCAA
1 ACCCAA
66384747 ACCTTGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.45, C:0.55, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCCAAC
Found at i:66384739 original size:13 final size:13
Alignment explanation
Indices: 66384714--66384749 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
66384704 TCTCACAAAA
66384714 ACCCAACACCCAAC
1 ACCCAA-ACCCAAC
66384728 ACCCAAACCCAAC
1 ACCCAAACCCAAC
66384741 ACCCAAACC
1 ACCCAAACC
66384750 TTGACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (13 bp):
ACCCAAACCCAAC
Found at i:66385013 original size:47 final size:47
Alignment explanation
Indices: 66384960--66385053 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
66384950 TTTATAAGCT
*
66384960 CGTTGATACTAAAACCAAACAAGGTGGATATGACGGTGATATAGGGA
1 CGTTGATACTAAAACCAAAAAAGGTGGATATGACGGTGATATAGGGA
*
66385007 CGTTGATACTAAGACCAAAAAAGGTGGATATGACGGTGATATAGGGA
1 CGTTGATACTAAAACCAAAAAAGGTGGATATGACGGTGATATAGGGA
66385054 TGTTCACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (47 bp):
CGTTGATACTAAAACCAAAAAAGGTGGATATGACGGTGATATAGGGA
Found at i:66386230 original size:26 final size:26
Alignment explanation
Indices: 66386201--66386250 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
66386191 TAATAATATT
* *
66386201 GTAGCACAGCTGCCAGTAACAGTAAC
1 GTAGCAAAACTGCCAGTAACAGTAAC
* *
66386227 GTAGCAAAACTGCTAGTATCAGTA
1 GTAGCAAAACTGCCAGTAACAGTA
66386251 TATGTGGCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
GTAGCAAAACTGCCAGTAACAGTAAC
Found at i:66386419 original size:26 final size:28
Alignment explanation
Indices: 66386382--66386435 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
66386372 ATCATAACAC
66386382 AAATCAGTCA-TTTACCCTCAAGGGGTA
1 AAATCAGTCATTTTACCCTCAAGGGGTA
**
66386409 AAAT-AGTCATTTTACCCTTTAGGGGTA
1 AAATCAGTCATTTTACCCTCAAGGGGTA
66386436 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTCAAGGGGTA
Found at i:66386721 original size:19 final size:17
Alignment explanation
Indices: 66386683--66386723 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
66386673 TCCGTGTGGA
*
66386683 GCCCACAAGCCCATTGG
1 GCCCACAAGCCCATTCG
66386700 GCCCACACAGCCCATTTCG
1 GCCCACA-AGCCCA-TTCG
66386719 GCCCA
1 GCCCA
66386724 TCGTGGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 6 0.29
19 8 0.38
ACGTcount: A:0.22, C:0.46, G:0.20, T:0.12
Consensus pattern (17 bp):
GCCCACAAGCCCATTCG
Found at i:66387916 original size:24 final size:24
Alignment explanation
Indices: 66387888--66387943 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
66387878 TCCTAAAATC
66387888 TCTCCATAATCCTCTCATTGATTT
1 TCTCCATAATCCTCTCATTGATTT
** *
66387912 TCTCCCCAATCCTCTCCTTGATTT
1 TCTCCATAATCCTCTCATTGATTT
*
66387936 CCTCCATA
1 TCTCCATA
66387944 TAACACTCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.41
Consensus pattern (24 bp):
TCTCCATAATCCTCTCATTGATTT
Found at i:66393745 original size:26 final size:26
Alignment explanation
Indices: 66393716--66393789 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
66393706 ATAATATCAC
*
66393716 AGCAGAGCTGCCAGTAACAGTAACGT
1 AGCAAAGCTGCCAGTAACAGTAACGT
66393742 AGCAAAGCTGCCAGTAACAGTAACGT
1 AGCAAAGCTGCCAGTAACAGTAACGT
* *
66393768 AGCAAAACTGCCAGTATCAGTA
1 AGCAAAGCTGCCAGTAACAGTA
66393790 TATGTGGCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTAACGT
Found at i:66393973 original size:27 final size:27
Alignment explanation
Indices: 66393925--66394001 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
66393915 TAACACAAAT
** *
66393925 TAGTCA-TTTACCCTCGATGGGTAAAA
1 TAGTCATTTTACCCTTTAGGGGTAAAA
***
66393951 TAGTCATTTTACCCTTTAGGGGTATTT
1 TAGTCATTTTACCCTTTAGGGGTAAAA
*
66393978 TGGTCATTTTACCTACTTTAGGGG
1 TAGTCATTTTACC--CTTTAGGGG
66394002 CTAGGTACTC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.15
27 26 0.63
29 9 0.22
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGTCATTTTACCCTTTAGGGGTAAAA
Found at i:66394570 original size:30 final size:30
Alignment explanation
Indices: 66394536--66394597 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
66394526 GTTCTTTATA
66394536 CTAAAACCCAAATCATCACTCACTACTCAC
1 CTAAAACCCAAATCATCACTCACTACTCAC
* *
66394566 CTAAAACCCAAATCGTCGCTCACTACTCAC
1 CTAAAACCCAAATCATCACTCACTACTCAC
66394596 CT
1 CT
66394598 TGAACGAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.40, G:0.03, T:0.21
Consensus pattern (30 bp):
CTAAAACCCAAATCATCACTCACTACTCAC
Found at i:66395458 original size:24 final size:24
Alignment explanation
Indices: 66395430--66395485 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
66395420 TCCTAAAATC
*
66395430 TCTCCATAATCCTCTCATTGATTT
1 TCTCCACAATCCTCTCATTGATTT
* * *
66395454 TCTCCCCAATCTTCTCCTTGATTT
1 TCTCCACAATCCTCTCATTGATTT
*
66395478 CCTCCACA
1 TCTCCACA
66395486 TAACACTCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.41
Consensus pattern (24 bp):
TCTCCACAATCCTCTCATTGATTT
Found at i:66397255 original size:26 final size:27
Alignment explanation
Indices: 66397226--66397284 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
66397216 AATTTTCTCG
66397226 AAATTTTACCGG-GGGTAAAATCGTCA
1 AAATTTTACCGGCGGGTAAAATCGTCA
** * *
66397252 AAATTTTATTGGCGTGTAAAATTGTCA
1 AAATTTTACCGGCGGGTAAAATCGTCA
66397279 AAATTT
1 AAATTT
66397285 CATTGGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAATTTTACCGGCGGGTAAAATCGTCA
Found at i:66400875 original size:26 final size:26
Alignment explanation
Indices: 66400821--66400875 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
66400811 TTTTAATCAA
* *
66400821 GAAGCTCACAAAAAGCCTTTAAATGG
1 GAAGCTCACAAAAAGCCATTAAATAG
* * *
66400847 GAAGCTCACGAAAAGGCATTAATTAG
1 GAAGCTCACAAAAAGCCATTAAATAG
66400873 GAA
1 GAA
66400876 CTTTGGATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (26 bp):
GAAGCTCACAAAAAGCCATTAAATAG
Found at i:66405257 original size:26 final size:27
Alignment explanation
Indices: 66405228--66405279 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
66405218 ATCGAATGCC
*
66405228 CACATGGCTTGG-GACATGGGCGTGTT
1 CACATGGCTTGGCCACATGGGCGTGTT
66405254 CACATGGCTTGGCCACATGGGCGTGT
1 CACATGGCTTGGCCACATGGGCGTGT
66405280 GTCCCCTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.25
Consensus pattern (27 bp):
CACATGGCTTGGCCACATGGGCGTGTT
Found at i:66414513 original size:29 final size:29
Alignment explanation
Indices: 66414465--66414558 Score: 138
Period size: 28 Copynumber: 3.3 Consensus size: 29
66414455 ATTGCATGAC
*
66414465 TATGAATGTG-TTTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
66414493 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
66414522 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
66414550 TATGCATGT
1 TATGAATGT
66414559 ATGTAGACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 33 0.55
29 27 0.45
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:66419036 original size:26 final size:26
Alignment explanation
Indices: 66419000--66419052 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
66418990 ACTCAAGGAG
66419000 AGTTAGATTCACGAGTTGATCTAATT
1 AGTTAGATTCACGAGTTGATCTAATT
66419026 AGTTAGATTCACGAGTTGATCTAATT
1 AGTTAGATTCACGAGTTGATCTAATT
66419052 A
1 A
66419053 AGGAAACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTTAGATTCACGAGTTGATCTAATT
Found at i:66431214 original size:27 final size:27
Alignment explanation
Indices: 66431184--66431237 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66431174 TCATACAACC
* *
66431184 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
66431211 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
66431238 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:66432519 original size:40 final size:40
Alignment explanation
Indices: 66432475--66432621 Score: 204
Period size: 40 Copynumber: 3.7 Consensus size: 40
66432465 CCAACCCAAT
* * * *
66432475 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
66432515 TGCCTTCGGGACTTAACCCGAAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
** *
66432555 TGCCTTCGGGACTTAACCTAGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
66432595 TGCCTTCGGGACTTAACCCAGAAATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
66432622 TCCTCAATTG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:66439067 original size:19 final size:19
Alignment explanation
Indices: 66439043--66439082 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
66439033 CTTTTATTGA
66439043 ATTTAGAAAATAGTTTCTT
1 ATTTAGAAAATAGTTTCTT
66439062 ATTTAGAAAATAGTTTCTT
1 ATTTAGAAAATAGTTTCTT
66439081 AT
1 AT
66439083 CTCTCAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTAGAAAATAGTTTCTT
Found at i:66452635 original size:16 final size:16
Alignment explanation
Indices: 66452614--66452646 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66452604 CTAGCATGGT
66452614 TTAA-TTGTGAATTTTA
1 TTAATTTGTG-ATTTTA
66452630 TTAATTTGTGATTTTA
1 TTAATTTGTGATTTTA
66452646 T
1 T
66452647 GAAATAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (16 bp):
TTAATTTGTGATTTTA
Found at i:66461225 original size:28 final size:28
Alignment explanation
Indices: 66461193--66461257 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
66461183 ATTTACTAGA
* *
66461193 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATATATGCAAAATGACCATT
* *
66461221 ATACCCCTATATGTGCAAAATGACCTTT
1 ATACCCCTATATATGCAAAATGACCATT
66461249 ATACCCCTA
1 ATACCCCTA
66461258 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATATATGCAAAATGACCATT
Found at i:66461395 original size:28 final size:26
Alignment explanation
Indices: 66461363--66461452 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 26
66461353 AGGAAGCGTA
66461363 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* * **
66461391 TTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
66461418 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
66461447 CTGGTG
1 CTGGTG
66461453 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.40
28 21 0.42
29 8 0.16
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:66461422 original size:27 final size:28
Alignment explanation
Indices: 66461363--66461452 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
66461353 AGGAAGCGTA
*
66461363 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
66461391 TTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
66461418 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
66461447 CTGGTG
1 CTGGTG
66461453 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:66461463 original size:29 final size:28
Alignment explanation
Indices: 66461373--66461463 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
66461363 CTGGTGGCTA
* * * *
66461373 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
66461401 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
66461428 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
66461457 TGTCACA
1 TGCCACA
66461464 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:66461471 original size:55 final size:56
Alignment explanation
Indices: 66461363--66461477 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
66461353 AGGAAGCGTA
* * * *
66461363 CTGGTGGCTATGCCACAAATTATCTGTTTTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
66461418 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
66461474 CTGG
1 CTGG
66461478 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:66461588 original size:6 final size:6
Alignment explanation
Indices: 66461577--66461602 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66461567 GTGATATCAG
66461577 AGCCCA AGCCCA AGCCCA AGCCCA AG
1 AGCCCA AGCCCA AGCCCA AGCCCA AG
66461603 ATCCGGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.46, G:0.19, T:0.00
Consensus pattern (6 bp):
AGCCCA
Found at i:66468069 original size:28 final size:28
Alignment explanation
Indices: 66468037--66468101 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
66468027 ATTTACTAGA
*
66468037 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
66468065 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
66468093 ATATCCCTA
1 ATACCCCTA
66468102 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:66468281 original size:26 final size:26
Alignment explanation
Indices: 66468217--66468281 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 26
66468207 CTAGTGGCTA
*
66468217 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA--ATCTGTTCTGGTGGCAC
*
66468245 TG-CACGTAAATCTGTTCTGGTGGCAC
1 TGCCAC-AAAATCTGTTCTGGTGGCAC
66468271 TGCCACAAAAT
1 TGCCACAAAAT
66468282 ATCTATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 22 0.69
27 6 0.19
28 4 0.12
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (26 bp):
TGCCACAAAATCTGTTCTGGTGGCAC
Found at i:66485815 original size:17 final size:16
Alignment explanation
Indices: 66485788--66485844 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 16
66485778 TTAAAAACTT
* *
66485788 TGTTGTTGAAAGCTCG
1 TGTTTTTGAAAACTCG
*
66485804 TGTTCTTTGAAAAATCG
1 TGTT-TTTGAAAACTCG
66485821 TGCTATTTTGAAAACTCG
1 TG-T-TTTTGAAAACTCG
66485839 TGTTTT
1 TGTTTT
66485845 CCTAGACTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 12 0.35
18 14 0.41
19 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (16 bp):
TGTTTTTGAAAACTCG
Found at i:66486145 original size:33 final size:33
Alignment explanation
Indices: 66486103--66486210 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
66486093 TCAATAACAT
* *
66486103 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
66486136 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
66486169 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAT
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
66486202 AGTAGCAGT
1 AGTATCAGT
66486211 GTGGGCCTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
Found at i:66486210 original size:28 final size:28
Alignment explanation
Indices: 66486142--66486233 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 28
66486132 ATTCAGTATC
*
66486142 AGTA-CAGTCTGGGCCTAAGCCCTATAC
1 AGTAGCAGTCTGGGCCTAAGCCCTATAT
66486169 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAT
1 AG--T-AG--CAGTCTGGGCCTAAGCCCTATAT
* * *
66486202 AGTAGCAGTGTGGGCCTAAGCCCAATGT
1 AGTAGCAGTCTGGGCCTAAGCCCTATAT
66486230 AGTA
1 AGTA
66486234 ACAATATAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
27 2 0.04
28 24 0.44
29 1 0.02
30 3 0.05
31 1 0.02
33 24 0.44
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTAGCAGTCTGGGCCTAAGCCCTATAT
Found at i:66486429 original size:27 final size:27
Alignment explanation
Indices: 66486394--66486453 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
66486384 AGCATAGCTG
* * * *
66486394 CCAGAAACAGTAATTGTGGCAAAGCCA
1 CCAGTAACAATAAATGTGACAAAGCCA
*
66486421 CCAGTAACAATAAATGTGACATAGCCA
1 CCAGTAACAATAAATGTGACAAAGCCA
66486448 CCAGTA
1 CCAGTA
66486454 CAGAACTTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (27 bp):
CCAGTAACAATAAATGTGACAAAGCCA
Found at i:66486648 original size:27 final size:27
Alignment explanation
Indices: 66486601--66486663 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
66486591 TGTACCATAC
66486601 AGGGGTATTACGGCCACTTTACC-CTAT
1 AGGGGTATTACGGCCACTTTACCTCT-T
* **
66486628 AGGGGTATTACGGTCTTTTTACCTCTT
1 AGGGGTATTACGGCCACTTTACCTCTT
66486655 AGGGGTATT
1 AGGGGTATT
66486664 TTAGTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (27 bp):
AGGGGTATTACGGCCACTTTACCTCTT
Found at i:66486715 original size:27 final size:27
Alignment explanation
Indices: 66486680--66486744 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
66486670 ATTTCACCTA
* *
66486680 CAAGAGTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
* * *
66486707 CAAGGGTATTTTAGTAATTTTGCAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
*
66486734 CAATGGTATTT
1 CAAGGGTATTT
66486745 CTATAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAAATCTACAAAC
Found at i:66486751 original size:27 final size:27
Alignment explanation
Indices: 66486702--66486969 Score: 123
Period size: 27 Copynumber: 9.9 Consensus size: 27
66486692 GGTAAATCTA
66486702 CAAACCAAGGGTATTTTAGTAATTTTG
1 CAAACCAAGGGTATTTTAGTAATTTTG
*
66486729 CAAACCAATGGTATTTCTA-TAATTTTTAG
1 CAAACCAAGGGTATTT-TAGTAA-TTTT-G
* * *
66486758 -AAAGTCAAGGGTATTTTTGTAATTATG
1 CAAA-CCAAGGGTATTTTAGTAATTTTG
* * * *
66486785 TAAATCAGGGGTATTTCT-GTAATTTTC
1 CAAACCAAGGGTATTT-TAGTAATTTTG
** *
66486812 CAAATTAAGGGTATTTTAGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
** ** * *
66486839 CAAGTCGGGGGTA-TTTCGATAATTTTA
1 CAAACCAAGGGTATTTTAG-TAATTTTG
* ***** * **
66486866 TAGGTTGAGGGTATTTCAGTAATTTCA
1 CAAACCAAGGGTATTTTAGTAATTTTG
** * *
66486893 CAAACCAAGAATATTTTTGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
* * *
66486920 CAAACCAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
* * *
66486947 TAAACTAAAGGTA-TTTAGTAATT
1 CAAACCAAGGGTATTTTAGTAATT
66486970 CTACCCTACA
Statistics
Matches: 187, Mismatches: 44, Indels: 21
0.74 0.17 0.08
Matches are distributed among these distances:
26 14 0.07
27 139 0.74
28 20 0.11
29 14 0.07
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAACCAAGGGTATTTTAGTAATTTTG
Found at i:66486774 original size:56 final size:54
Alignment explanation
Indices: 66486700--66486945 Score: 186
Period size: 54 Copynumber: 4.5 Consensus size: 54
66486690 TTGGTAAATC
* *
66486700 TACAAACCAAGGGTATTTTAGTAATTTTGCAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTTAGTAATTTTGCAAACCAAGGGTATTTCTATAA-TTT
* * * * * * *
66486755 TAGAAAGTCAAGGGTATTTTTGTAATTATGTAAATCAGGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTTAGTAATTTTGCAAACCAAGGGTATTTCTATAATTT
* * * ** ** *
66486810 TCCAAATTAAGGGTATTTTAGTAATTTTACAAGTCGGGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTAGTAATTTTGCAAACCAAGGGTATTTCTATAATTT
* ** ** * ** ** * *
66486864 TATAGGTTGAGGGTATTTCAGTAATTTCACAAACCAAGAATATTTTTGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTTTGCAAACCAAGGGTATTTCTATAATTT
* * *
66486918 TACAAACCAGGGGTATTTTGGTAATTTT
1 TACAAATCAAGGGTATTTTAGTAATTTT
66486946 ATAAACTAAA
Statistics
Matches: 144, Mismatches: 46, Indels: 3
0.75 0.24 0.02
Matches are distributed among these distances:
54 95 0.66
55 12 0.08
56 37 0.26
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTAGTAATTTTGCAAACCAAGGGTATTTCTATAATTT
Found at i:66486995 original size:27 final size:27
Alignment explanation
Indices: 66486959--66487033 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
66486949 AACTAAAGGT
66486959 ATTT-AGTAATTCTACCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* *
66486985 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* * *
66487012 AATTCAGTAATACTAGCCTACA
1 ATTTCAGTAATTCTACCCTACA
66487034 GATATGAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAAGGGC
Found at i:66490681 original size:46 final size:45
Alignment explanation
Indices: 66490614--66490782 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
66490604 AACCCGCCCC
66490614 TAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGGGCGTTCGCATCCA
* *
66490660 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTT-GG--G-C--GTTCGCATCCA
* * * * *
66490708 TCA-CGAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGGGCGTTCGCATCCA
*
66490753 TAAGTGAACTTGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
66490783 CGGATGCTCA
Statistics
Matches: 99, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 6 0.06
46 51 0.52
47 24 0.24
48 5 0.05
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTGGGCGTTCGCATCCA
Found at i:66490747 original size:93 final size:93
Alignment explanation
Indices: 66490619--66490789 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66490609 GCCCCTAAGT
* *
66490619 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66490684 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
66490712 GAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66490777 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66490790 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:66493639 original size:16 final size:15
Alignment explanation
Indices: 66493605--66493643 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
66493595 AAATGAGTTA
*
66493605 GAAAAAGAAACGAGT
1 GAAAAAGAAAAGAGT
66493620 GAAAAAGAAAAGAGT
1 GAAAAAGAAAAGAGT
*
66493635 GGAAAAGAA
1 GAAAAAGAA
66493644 GAAAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAAAGAGT
Found at i:66497042 original size:37 final size:37
Alignment explanation
Indices: 66496966--66497058 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
66496956 CTTGTAAGAC
* *
66496966 CTAATCCACCCGATAACACACTAGATGCTCATAAGAG
1 CTAATCCACCCGATAACACACCAGATGCTCATAAAAG
** *
66497003 CTAATCCACCCGATAACATGCCA-ATTGCTCCTAAAAG
1 CTAATCCACCCGATAACACACCAGA-TGCTCATAAAAG
* * *
66497040 CTAGTCCAACCGAAAACAC
1 CTAATCCACCCGATAACAC
66497059 GCAAAACAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.18
Consensus pattern (37 bp):
CTAATCCACCCGATAACACACCAGATGCTCATAAAAG
Found at i:66497282 original size:9 final size:9
Alignment explanation
Indices: 66497268--66497294 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
66497258 CTATAAACAA
66497268 TTATATCAT
1 TTATATCAT
66497277 TTATATCAT
1 TTATATCAT
66497286 TTATATCAT
1 TTATATCAT
66497295 CAAACATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATATCAT
Found at i:66506131 original size:46 final size:46
Alignment explanation
Indices: 66506081--66506253 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
66506071 TGGTTGAGCA
*
66506081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66506127 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
66506174 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66506220 -CCTGAGCTCATTAAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66506254 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.54
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66506237 original size:93 final size:93
Alignment explanation
Indices: 66506078--66506248 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
66506068 GGATGGTTGA
* * * *
66506078 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTAAGT
66506143 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
66506171 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG-CCTGAGCTCATTAAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCATTAAG
66506235 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
66506249 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66512062 original size:27 final size:27
Alignment explanation
Indices: 66512032--66512209 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
66512022 ATATTAAGTC
* *
66512032 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
66512059 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
66512087 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
66512114 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
66512141 CGCA-ACCTTAGTGC-ATCATATTCATTT
1 CGCACA-CTTAGTGCTA-CATAATCAACT
* * *
66512168 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
66512195 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66512210 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.78
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:66512171 original size:54 final size:54
Alignment explanation
Indices: 66512032--66512209 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
66512022 ATATTAAGTC
* * * *
66512032 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * *
66512087 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
66512141 CGCA-ACCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACA-CTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
66512195 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66512210 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.02
54 56 0.53
55 47 0.45
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:66520190 original size:27 final size:27
Alignment explanation
Indices: 66520160--66520336 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
66520150 ATATTAAGTC
* * * *
66520160 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
66520187 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
66520214 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
66520241 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66520268 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66520295 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66520322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66520337 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 126 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66520242 original size:54 final size:54
Alignment explanation
Indices: 66520160--66520336 Score: 230
Period size: 54 Copynumber: 3.3 Consensus size: 54
66520150 ATATTAAGTC
* * * *
66520160 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
66520214 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
66520268 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
66520322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66520337 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 105 0.99
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:66520298 original size:81 final size:81
Alignment explanation
Indices: 66520181--66520335 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
66520171 TGCTATATAA
* * *
66520181 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
66520246 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
66520262 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66520326 CACTTAGTGC
65 CACTTAGTGC
66520336 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 2 0.03
81 64 0.97
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66524184 original size:104 final size:102
Alignment explanation
Indices: 66524004--66524223 Score: 343
Period size: 104 Copynumber: 2.1 Consensus size: 102
66523994 GTATATAAAA
** * *
66524004 GGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
66524069 AAACGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
66 AAACGTGAAA-GGGGTTGCTATGTGCTGATT-CCCCGAG
* *
66524108 GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTT
*
66524172 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCGAG
65 GAAACGTGAAAGGGGTTGCTATGTGCTGATTCCCCGAG
66524210 GGGTTGCTAAGTGC
1 GGGTTGCTAAGTGC
66524224 GATATCCATT
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 21 0.19
103 20 0.19
104 66 0.61
105 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (102 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
AAACGTGAAAGGGGTTGCTATGTGCTGATTCCCCGAG
Found at i:66524245 original size:70 final size:70
Alignment explanation
Indices: 66524144--66524292 Score: 237
Period size: 70 Copynumber: 2.1 Consensus size: 70
66524134 TCATTGGTGG
* *
66524144 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
66524208 AGGGGT
65 AGGGGT
***
66524214 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
66524279 GGGGT
66 GGGGT
66524284 TGCTAAGTG
1 TGCTAAGTG
66524293 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 3 0.04
70 70 0.96
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
GGGGT
Found at i:66524288 original size:26 final size:26
Alignment explanation
Indices: 66524253--66524304 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
66524243 AAATGAAAAG
* *
66524253 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
66524279 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
66524305 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:66527918 original size:46 final size:46
Alignment explanation
Indices: 66527868--66528040 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
66527858 TGGTTGAGCA
*
66527868 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66527914 TCCGAAGTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
66527961 TTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66528007 CCCGAGCTCGTTGAGTTGAGTCCAAGGTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66528041 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.56
47 27 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66538617 original size:50 final size:50
Alignment explanation
Indices: 66538542--66538767 Score: 262
Period size: 50 Copynumber: 4.5 Consensus size: 50
66538532 TGAGTACACG
* * *
66538542 TGTGTAGTACTAAGTGCAGGGTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * **
66538592 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * *
66538643 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
66538693 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
66538742 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
66538768 TGCATATCAG
Statistics
Matches: 152, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 35 0.23
50 72 0.47
51 36 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:66538717 original size:101 final size:99
Alignment explanation
Indices: 66538542--66538767 Score: 303
Period size: 101 Copynumber: 2.3 Consensus size: 99
66538532 TGAGTACACG
* * * *
66538542 TGTGTAGTACTAAGTGCAGGGTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
*
66538607 GCAGGCTACTATGCGTACTC-AATGACTTCGATCACA
66 GCAGGCTACTACGCGTAC-CGAATGA-TT-GATCACA
* *
66538643 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGTACTAAG
* * * *
66538707 TGCAGGCTACTACGTGTACCGGATTATTGGTCACA
65 TGCAGGCTACTACGCGTACCGAATGATTGATCACA
66538742 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
66538768 TGCATATCAG
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
99 32 0.29
100 4 0.04
101 76 0.68
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCGAATGATTGATCACA
Found at i:66551019 original size:46 final size:45
Alignment explanation
Indices: 66550848--66551019 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
66550838 CTCATAGCCT
66550848 ATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAA-GGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCAATGGCCG
* * * * *
66550894 ATGCATGTCCTAGATACGTCTTACACTAGCACTCGTCTCAAT-GCTG
1 ATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAATGGCCG
* * * *
66550940 ATACCGTGTCCCAGATATGGTCTTACACTGGCTC-TCATAATATGGCCG
1 AT-GCATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCA-ATGGCCG
66550988 ATGCATGTCCCAGACATGTCTTACACTGGCTC
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC
66551020 ACACAAGTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 57 0.55
47 28 0.27
48 16 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAATGGCCG
Found at i:66552919 original size:8 final size:8
Alignment explanation
Indices: 66552906--66552948 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
66552896 TAAATAAATT
66552906 TTTTATAA
1 TTTTATAA
66552914 TTTTATAA
1 TTTTATAA
66552922 TTTT-TAA
1 TTTTATAA
*
66552929 TTTTAT-T
1 TTTTATAA
*
66552936 TTTTAAAA
1 TTTTATAA
66552944 TTTTA
1 TTTTA
66552949 AGAATCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 12 0.40
8 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:66563441 original size:38 final size:38
Alignment explanation
Indices: 66563372--66563629 Score: 264
Period size: 38 Copynumber: 6.8 Consensus size: 38
66563362 CATTATTCGA
* * * * ** *
66563372 GCTCTGTTCCTAGTAGGCTTTGTGCTGGTGATATTTGA
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* ** * **
66563410 GCCCTGTGCCTAGCAAGCTTTTTGTCAGTGATATTCAG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* * * * *
66563448 GCTCTGTGCCCAGCAGGCTTCGTACCGGTGATATTCGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
*
66563486 GCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* * * *
66563524 GCTTTATGCCCAGCAAGCTTCGGGCCAGTGATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* ** * *
66563562 GCTCTGTGCCTAGCAGGCTTTTTGCCTGTTATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
66563600 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTG
66563630 TTGTAACACC
Statistics
Matches: 175, Mismatches: 45, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 175 1.00
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (38 bp):
GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
Found at i:66563627 original size:76 final size:76
Alignment explanation
Indices: 66563399--66563629 Score: 300
Period size: 76 Copynumber: 3.0 Consensus size: 76
66563389 CTTTGTGCTG
* * * ** *
66563399 GTGATATTTGAGCCCTGTGCCTAGCAAGCTTTTTGTCAGTGATATTCAGGCTCTGTGCCCAGCAG
1 GTGATATTTGGGCTCTGTGCCTAGCAAGCTTTTTGCCAGTGATATTTGGGCTCTGTGCCCAGCAA
* *
66563464 GCTTCGTACCG
66 GCTTCGTGCCA
* ** * *
66563475 GTGATATTCGGGCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGGGCTTTATGCCCAGCAA
1 GTGATATTTGGGCTCTGTGCCTAGCAAGCTTTTTGCCAGTGATATTTGGGCTCTGTGCCCAGCAA
*
66563540 GCTTCGGGCCA
66 GCTTCGTGCCA
* * * *
66563551 GTGATATTTGGGCTCTGTGCCTAGCAGGCTTTTTGCCTGTTATATTTGGGCTCTGTGCCTAGCAA
1 GTGATATTTGGGCTCTGTGCCTAGCAAGCTTTTTGCCAGTGATATTTGGGCTCTGTGCCCAGCAA
66563616 GCTTCGTGCCA
66 GCTTCGTGCCA
66563627 GTG
1 GTG
66563630 TTGTAACACC
Statistics
Matches: 131, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 131 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (76 bp):
GTGATATTTGGGCTCTGTGCCTAGCAAGCTTTTTGCCAGTGATATTTGGGCTCTGTGCCCAGCAA
GCTTCGTGCCA
Found at i:66565407 original size:57 final size:56
Alignment explanation
Indices: 66565314--66565470 Score: 183
Period size: 57 Copynumber: 2.8 Consensus size: 56
66565304 ATCATATAGC
* *
66565314 AGGATTACCACTCCAAGCTAAAT-CTTGTCTTCAACATATGCTCACAAGAGCTTAATT
1 AGGATTACCAGTCCAAGCTAAATCCTT-TCTT-AACATATGCTCACAAGAGCTCAATT
* * * * *
66565371 AGGATTACTAGTCTAGGCTAAATCCTTTCTATAACATATGTTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAAGCTAAATCCTTTCT-TAACATATGCTCACAAGAGCTCAATT
*
66565428 AGGATTACCAGTCCAAGCTAAATCCTAATT-GTAACATATGCTC
1 AGGATTACCAGTCCAAGCTAAATCCT--TTCTTAACATATGCTC
66565471 GAGAGGGATT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
57 78 0.93
58 4 0.05
59 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (56 bp):
AGGATTACCAGTCCAAGCTAAATCCTTTCTTAACATATGCTCACAAGAGCTCAATT
Found at i:66566333 original size:21 final size:21
Alignment explanation
Indices: 66566307--66566348 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
66566297 AAAATTTGTG
66566307 TCCATCTTCATCCTCCTTGGC
1 TCCATCTTCATCCTCCTTGGC
66566328 TCCATCTTCATCCTCCTTGGC
1 TCCATCTTCATCCTCCTTGGC
66566349 CAAATTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.38
Consensus pattern (21 bp):
TCCATCTTCATCCTCCTTGGC
Found at i:66567221 original size:48 final size:48
Alignment explanation
Indices: 66567150--66567437 Score: 362
Period size: 48 Copynumber: 6.0 Consensus size: 48
66567140 ACCGTGCTAA
* * * *
66567150 ATGTGCCTATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* *
66567198 ATGTGCCTGCGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* * * *
66567246 ATGTGCATGTGTAAGACCATGTCTGGGACGTGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* * *
66567294 ATGTGCTTGTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCA-GCGATGATAT
* * * *
66567342 GTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* * * * *
66567390 CTGTGCCAGTGTAAGACCATGTTTGGGACATGACATCAGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
66567438 GTGAATTCAT
Statistics
Matches: 211, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
48 210 1.00
49 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
Found at i:66567410 original size:144 final size:144
Alignment explanation
Indices: 66567150--66567437 Score: 400
Period size: 144 Copynumber: 2.0 Consensus size: 144
66567140 ACCGTGCTAA
* ** *
66567150 ATGTGCCTATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGCCTGCGTAAGAC
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGCGTAAGAC
** * *
66567215 CATGTCTGGGACATGGCATCGGCGATGATATATGTGCATGTGTAAGACCATGTCTGGGACGTGGC
66 CATGTCTGGGACATGGCATCAACGATGATATATGTGCATGTGTAAGACCATGTCTGGGACATGAC
*
66567280 ATCGGTGATGATAT
131 ATCAGTGATGATAT
* * * *
66567294 ATGTGCTTGTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATATGTGTGCCAGTGTAAGA
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCA-GCAATGATATATGTGCCAGCGTAAGA
* * *
66567358 CCATGTTTGGGACATGGCATCAACGATGATATCTGTGCCA-GTGTAAGACCATGTTTGGGACATG
65 CCATGTCTGGGACATGGCATCAACGATGATATATGTG-CATGTGTAAGACCATGTCTGGGACATG
66567422 ACATCAGTGATGATAT
129 ACATCAGTGATGATAT
66567438 GTGAATTCAT
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
143 1 0.01
144 123 0.98
145 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (144 bp):
ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGCGTAAGAC
CATGTCTGGGACATGGCATCAACGATGATATATGTGCATGTGTAAGACCATGTCTGGGACATGAC
ATCAGTGATGATAT
Found at i:66567451 original size:48 final size:46
Alignment explanation
Indices: 66567158--66567473 Score: 258
Period size: 48 Copynumber: 6.6 Consensus size: 46
66567148 AAATGTGCCT
* * * * *
66567158 ATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGC
1 ATGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTTC
* * * *
66567204 CTGCGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
1 AT--GTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTTC
* * *
66567252 ATGTGTAAGACCATGTCTGGGACGTGGCATCGGTGATGATATATGTGCTT-
1 A--TGTAAGACCATGTCTGGGACATGGCATCAGCGATG--ATATGTG-TTC
* * * *
66567302 GTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATATGTGTGCC
1 ATGTAAGACCATGTCTGGGACATGGCATCA-GCGATGATATGTGT-TC
* * * *
66567349 AGTGTAAGACCATGTTTGGGACATGGCATCAACGATGATATCTGTGCC
1 A-TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGT-TC
* * *
66567397 AGTGTAAGACCATGTTTGGGACATGACATCAGTGATGATATGTGAATTC
1 A-TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTG--TTC
* * *
66567446 ATGTAAGATCATGTCAGAGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
66567474 TGGTATTTTA
Statistics
Matches: 223, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.00
46 8 0.04
48 202 0.91
49 3 0.01
50 8 0.04
51 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (46 bp):
ATGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTTC
Found at i:66567451 original size:96 final size:94
Alignment explanation
Indices: 66567158--66567473 Score: 341
Period size: 96 Copynumber: 3.3 Consensus size: 94
66567148 AAATGTGCCT
* * * *
66567158 ATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGCCTGCGTAAGACCATGTCTG
1 ATGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCTGTGTAAGACCATGTCTG
* * * *
66567223 GGACATGGCATCGGCGATGATATATG-TGC
66 GGACATGACATCAG-GATGATATGTGATTC
* * * *
66567252 ATGTGTAAGACCATGTCTGGGACGTGGCATCGGTGATGATATATGTGCTTGTGTAAGACCATGTC
1 A--TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCTGTGTAAGACCATGTC
*
66567317 TGGGACATGACAT-AGGCAATGATATGTG-TGCC
64 TGGGACATGACATCAGG--ATGATATGTGAT-TC
* * * * *
66567349 AGTGTAAGACCATGTTTGGGACATGGCATCAACGATGATATCTGTGCCAGTGTAAGACCATGTTT
1 A-TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCTGTGTAAGACCATGTCT
66567414 GGGACATGACATCAGTGATGATATGTGAATTC
65 GGGACATGACATCAG-GATGATATGTG-ATTC
* * *
66567446 ATGTAAGATCATGTCAGAGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
66567474 TGGTATTTTA
Statistics
Matches: 187, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
94 2 0.01
95 1 0.01
96 176 0.94
97 6 0.03
98 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (94 bp):
ATGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCTGTGTAAGACCATGTCTG
GGACATGACATCAGGATGATATGTGATTC
Found at i:66567451 original size:144 final size:143
Alignment explanation
Indices: 66567157--66567469 Score: 389
Period size: 144 Copynumber: 2.2 Consensus size: 143
66567147 TAAATGTGCC
* ** *
66567157 TATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGCCTGCGTAAGACCATGTCT
1 TATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGCGTAAGACCATGTCT
** * * *
66567222 GGGACATGGCATCGGCGATGATATATGTGCATGTGTAAGACCATGTCTGGGACGTGGCATCGGTG
66 GGGACATGGCATCAACGATGATATATGTGCATGTGTAAGACCATGTCTGGGACATGACATCAGTG
*
66567287 ATGATATATGTGCT
131 ATGA-ATATGTGAT
* * * *
66567301 TGTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATATGTGTGCCAGTGTAAGACCATGTT
1 TATGTAAGACCATGTCTGGGACATGACATCA-GCAATGATATATGTGCCAGCGTAAGACCATGTC
* *
66567365 TGGGACATGGCATCAACGATGATATCTGTGCCA-GTGTAAGACCATGTTTGGGACATGACATCAG
65 TGGGACATGGCATCAACGATGATATATGTG-CATGTGTAAGACCATGTCTGGGACATGACATCAG
66567429 TGATG-ATATGTGAAT
129 TGATGAATATGTG-AT
* * *
66567444 TCATGTAAGATCATGTCAGAGACATG
1 T-ATGTAAGACCATGTCTGGGACATG
66567470 GCATTGGTAT
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
142 7 0.05
143 3 0.02
144 133 0.92
145 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (143 bp):
TATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGCGTAAGACCATGTCT
GGGACATGGCATCAACGATGATATATGTGCATGTGTAAGACCATGTCTGGGACATGACATCAGTG
ATGAATATGTGAT
Found at i:66569163 original size:15 final size:17
Alignment explanation
Indices: 66569137--66569170 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66569127 TATTTAATTA
66569137 TTTATCATCTTTT-AAT
1 TTTATCATCTTTTCAAT
66569153 TTTATCA-CTTTTCAAT
1 TTTATCATCTTTTCAAT
66569169 TT
1 TT
66569171 GTCCTTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTTCAAT
Found at i:66571472 original size:19 final size:19
Alignment explanation
Indices: 66571448--66571488 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
66571438 TTGAAGAGTA
66571448 TAATTGAAGTAGAGGTCCT
1 TAATTGAAGTAGAGGTCCT
66571467 TAATTGAAGTAGAGGTCCT
1 TAATTGAAGTAGAGGTCCT
66571486 TAA
1 TAA
66571489 ATGGACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (19 bp):
TAATTGAAGTAGAGGTCCT
Found at i:66572474 original size:54 final size:55
Alignment explanation
Indices: 66572410--66572543 Score: 144
Period size: 55 Copynumber: 2.5 Consensus size: 55
66572400 GTTTAAGGAT
* * * * ** *
66572410 ACCAAGTAAGACCATGCCAAGGCATGGCATTGA-CAAGTTTTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATCGATAAACTACTACAAGGCAAAGAA
* * * * *
66572464 ATCATGTAAGACCATGTCAAGACATGGCATCGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATCGATAAACTACTACAAGGCAAAGAA
*
66572519 CCCATGTAAGACCATGCCAAGGCAT
1 ACCATGTAAGACCATGCCAAGGCAT
66572544 AGCAATGGTT
Statistics
Matches: 63, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 28 0.44
55 35 0.56
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (55 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATCGATAAACTACTACAAGGCAAAGAA
Found at i:66572581 original size:53 final size:53
Alignment explanation
Indices: 66572404--66572607 Score: 169
Period size: 53 Copynumber: 3.8 Consensus size: 53
66572394 ATTAGGGTTT
* * * * * *
66572404 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTG-ACAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATGGTA-AA-CTTCATAAGGC
* * * * *
66572458 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATCGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAT-GGTAAACTTC-ATAAGGC
* * * * *
66572513 AAAGATCCCATGTAAGACCATGCCAAGGCATAGCAATGGTTAA-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATGGTAAACTTCATAAGGC
* **
66572566 AAGGATACCACGTAAGACCATGTTAAGACATGGCAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATGGTAA
66572608 GTTTAAAAAG
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 41 0.35
54 34 0.29
55 39 0.33
56 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATGGTAAACTTCATAAGGC
Found at i:66572626 original size:53 final size:53
Alignment explanation
Indices: 66572508--66572627 Score: 127
Period size: 53 Copynumber: 2.3 Consensus size: 53
66572498 AAACTACTAT
* * * * *
66572508 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATAGCAATGGTTAATTCAT
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAATTAAA
* ** *
66572561 AAGGCAAGGATACCACGTAAGACCATGTTAAGACATGGCAATGG-TAAGTTTAAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAA--TTAAA
66572615 AAGG-AAAGATACC
1 AAGGCAAAGATACC
66572628 CATGTATCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 3 0.05
53 45 0.82
54 7 0.13
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (53 bp):
AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAATTAAA
Found at i:66578468 original size:40 final size:40
Alignment explanation
Indices: 66578413--66578615 Score: 182
Period size: 40 Copynumber: 5.1 Consensus size: 40
66578403 CGGAATTTAA
* * ** *
66578413 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66578453 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66578493 CCAGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
66578532 CCAG-AATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
** * * * *
66578572 CCGGAAATAGTCACTTAGCACAAA-GCCTTTGGGACTTAGA
1 CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66578612 CCGG
1 CCGG
66578616 ACATCATTCG
Statistics
Matches: 136, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 29 0.21
40 89 0.65
41 16 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66578546 original size:39 final size:40
Alignment explanation
Indices: 66578432--66578563 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
66578422 GCAACTCGTT
* *
66578432 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATT-TAGTAACTCGCA
*
66578472 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* *
66578512 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
66578551 CAAATGCCTTCGG
1 CAAATGCCTTCGG
66578564 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
39 35 0.42
40 46 0.55
41 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
Found at i:66578600 original size:79 final size:80
Alignment explanation
Indices: 66578432--66578610 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 80
66578422 GCAACTCGTT
* **
66578432 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
** *
66578496 GATTTAGTAACTCGCAC
64 GAAATAGTAACTAGCAC
* ** *
66578513 CAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
*
66578576 AAATAGTCACTTAGCA-
65 AAATAGTAAC-TAGCAC
*
66578592 CAAAGCCTTTGGGACTTAG
1 CAAAGCCTTCGGGACTTAG
66578611 ACCGGACATC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
78 3 0.04
79 55 0.68
80 20 0.25
81 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
AATAGTAACTAGCAC
Found at i:66585967 original size:52 final size:54
Alignment explanation
Indices: 66585777--66585979 Score: 185
Period size: 55 Copynumber: 3.8 Consensus size: 54
66585767 AGGGTTTAAG
* * ** * * * * * *
66585777 GATACCAAGTAAGACCATGCCAAGGTATGACATTGGCAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCTATAAGACAAA
* * * * *
66585831 GAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGCTACTATAAGACAAA
1 GATACCATGTAAGACCATGTCAAGACATGACAATGGTAAG-TTCTATAAGACAAA
* * * * * *
66585886 GATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC-ATAAGGCAAT
1 GATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCTATAAGACAAA
*
66585939 GATACCA-GTAAGACCATGTCAAGACATGACAATGGTTAGTT
1 GATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTT
66585980 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
52 31 0.26
53 14 0.12
54 34 0.28
55 41 0.34
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCTATAAGACAAA
Found at i:66590195 original size:43 final size:43
Alignment explanation
Indices: 66590163--66590256 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
66590153 TACATGTAAT
66590163 CACATATCGATGCC-ACTATCCCAAATAGGGTCTTACACGAGAA
1 CACATATCGATGCCAAC-ATCCCAAATAGGGTCTTACACGAGAA
** *
66590206 CACATATCGATGCCAACATCCC-AAGCGTGGTCTTACATGAGAA
1 CACATATCGATGCCAACATCCCAAATAG-GGTCTTACACGAGAA
66590249 CACATATC
1 CACATATC
66590257 AAAAATCCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 3 0.07
43 41 0.89
44 2 0.04
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (43 bp):
CACATATCGATGCCAACATCCCAAATAGGGTCTTACACGAGAA
Found at i:66597956 original size:17 final size:18
Alignment explanation
Indices: 66597922--66597957 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
66597912 ACCGGGCCAG
66597922 AATGGGCTAAATGGGCCC
1 AATGGGCTAAATGGGCCC
*
66597940 AATGGGCTATA-GGGCCC
1 AATGGGCTAAATGGGCCC
66597957 A
1 A
66597958 TAATAGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.22, G:0.33, T:0.17
Consensus pattern (18 bp):
AATGGGCTAAATGGGCCC
Found at i:66598100 original size:28 final size:29
Alignment explanation
Indices: 66598031--66598103 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
66598021 ATGTTTTTTA
66598031 GGCCTAATGGGCCATACGAATGTGATTTG
1 GGCCTAATGGGCCATACGAATGTGATTTG
* *
66598060 GGCCTAATAGGCCATAGGAA--TGATATTG
1 GGCCTAATGGGCCATACGAATGTGAT-TTG
* *
66598088 GGCTTAGTGGGCCATA
1 GGCCTAATGGGCCATA
66598104 TGCATGTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 4 0.11
28 16 0.42
29 18 0.47
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GGCCTAATGGGCCATACGAATGTGATTTG
Found at i:66605769 original size:29 final size:29
Alignment explanation
Indices: 66605727--66605811 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
66605717 GTATGACTAT
66605727 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
66605756 GAATGTGATTTGGGCCTAATGGGCCAAAG
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
66605785 GAATGAGA-TTGGGCCTAGTGGGTCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
66605812 TGCATGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 16 0.32
29 34 0.68
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:66606948 original size:20 final size:19
Alignment explanation
Indices: 66606904--66606952 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
66606894 CAAAGTAATT
* *
66606904 AAGGTTTTTCATTGTGAGG
1 AAGGTTTTTCATTCTAAGG
66606923 AAGGTTTTTCATTCTAAGG
1 AAGGTTTTTCATTCTAAGG
*
66606942 AAGGGTTTTCA
1 AAGGTTTTTCA
66606953 ATGAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (19 bp):
AAGGTTTTTCATTCTAAGG
Found at i:66609877 original size:46 final size:46
Alignment explanation
Indices: 66609825--66610098 Score: 381
Period size: 46 Copynumber: 6.0 Consensus size: 46
66609815 AGTGTGCTCT
**
66609825 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
66609871 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
66609917 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
66609963 ATGAT-GGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
66610009 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
66610055 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
66610099 TCATGTCAAA
Statistics
Matches: 211, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 208 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:66610403 original size:16 final size:17
Alignment explanation
Indices: 66610384--66610416 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66610374 ATGATGGTGC
66610384 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
66610400 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
66610417 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:66612244 original size:43 final size:42
Alignment explanation
Indices: 66612189--66612316 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 42
66612179 ATATTGTATA
* *
66612189 ATGCCAACGTCCCAGACATGGTT-TTACATGTA-ATCACATATCG
1 ATGCC-ACGTCCCAGACA-GGTTCTTACACG-AGAACACATATCG
66612232 ATGCCACTGTCCCAGACAGGTTCTTACACGAGAACACATATCG
1 ATGCCAC-GTCCCAGACAGGTTCTTACACGAGAACACATATCG
* * *
66612275 ATGCCAACATCCCAGAC--GTCGTCTTACATGAGAAAACATATC
1 ATGCC-ACGTCCCAGACAGGT--TCTTACACGAGAACACATATC
66612317 AAAAATCCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
41 2 0.03
42 7 0.09
43 63 0.85
44 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATGCCACGTCCCAGACAGGTTCTTACACGAGAACACATATCG
Found at i:66615231 original size:50 final size:48
Alignment explanation
Indices: 66615174--66615302 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 48
66615164 CTAAATGTTC
* * *
66615174 ATATCATGGCTCGAGGCCAACTCAATGTATCTCACACTCCCGAAGTGCTA-
1 ATATCATGGCCCGAAGCCAAATCAATGTATCTCACA--CCCGAAGTGC-AG
* ** * *
66615224 ATATCATGGCCCAAAGCCAAATCAATAAAGCTCGCACCCGAAGTGCAG
1 ATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCGAAGTGCAG
*
66615272 ATATCATGGCCCGAAGCCAAATCAAAGTATC
1 ATATCATGGCCCGAAGCCAAATCAATGTATC
66615303 CTCTAATGAC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 36 0.55
50 28 0.43
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (48 bp):
ATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCGAAGTGCAG
Found at i:66621183 original size:46 final size:46
Alignment explanation
Indices: 66621060--66621184 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
66621050 GGTTGAGCAT
* * *
66621060 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
66621106 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
66621152 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66621185 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:66636435 original size:12 final size:12
Alignment explanation
Indices: 66636418--66636442 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66636408 AATATGTTAT
66636418 TATAATAAAACA
1 TATAATAAAACA
66636430 TATAATAAAACA
1 TATAATAAAACA
66636442 T
1 T
66636443 CATGCATTTG
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAATAAAACA
Found at i:66637419 original size:56 final size:55
Alignment explanation
Indices: 66637339--66637458 Score: 177
Period size: 56 Copynumber: 2.2 Consensus size: 55
66637329 CTTAGCATCA
* *
66637339 ATATATGTGTGCAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
* * *
66637394 ATATATGTGTGCGAGTAAGATCACGTTTAATACGTTGTCATCTATATGTGATTCCG
1 ATATATGTGTGC-AGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
*
66637450 GTATATGTG
1 ATATATGTG
66637459 ATTACATGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 12 0.21
56 46 0.79
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (55 bp):
ATATATGTGTGCAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
Found at i:66644501 original size:27 final size:26
Alignment explanation
Indices: 66644427--66644515 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 26
66644417 CAAAATAGTC
* * * *
66644427 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTC-GTA
*
66644454 ATTTCACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTC-GTA
66644481 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCG-TA
66644508 ATTTTACA
1 ATTTTACA
66644516 AATTGGGGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (26 bp):
ATTTTACACTACAAGGGTATTTCGTA
Found at i:66644525 original size:27 final size:27
Alignment explanation
Indices: 66644467--66644834 Score: 415
Period size: 27 Copynumber: 13.7 Consensus size: 27
66644457 TCACACTACA
* *
66644467 AGGGTATTTC-AGTAATTTTAC-ACTACA
1 AGGGTATTTCGA-TAATTTTACAAAT-CG
*
66644494 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
66644521 GGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
66644548 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
66644575 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
66644602 AAGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66644629 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
66644656 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66644683 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
66644710 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
66644737 AGAGTATTTCAATAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66644764 -GAGGTATTTCGATAATTTCAC-AATCG
1 AG-GGTATTTCGATAATTTTACAAATCG
*
66644790 AAGGTATGTT-GATAATTTTACAAATCG
1 AGGGTAT-TTCGATAATTTTACAAATCG
66644817 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
66644835 CTCTTTATTA
Statistics
Matches: 301, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 24 0.08
27 274 0.91
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:66645204 original size:27 final size:28
Alignment explanation
Indices: 66645150--66645205 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
66645140 TCGCCCCTTT
* *
66645150 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
66645178 AGGCCCAATCACATTC-TATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
66645205 A
1 A
66645206 TGTAACACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:66645285 original size:17 final size:18
Alignment explanation
Indices: 66645263--66645297 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
66645253 TTACATTGAA
66645263 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
66645280 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
66645298 CTTCTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:66647915 original size:40 final size:40
Alignment explanation
Indices: 66647832--66648094 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
66647822 TTGAATGCTG
* * * * * *
66647832 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
66647872 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66647912 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66647952 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
66647992 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66648032 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66648071 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66648095 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66648114 original size:79 final size:80
Alignment explanation
Indices: 66647871--66648129 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
66647861 AAGTGAATAT
* * * * * * *
66647871 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
66647935 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
66647951 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
66648016 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
66648031 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
66648095 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
66648110 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
66648130 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:66706612 original size:39 final size:40
Alignment explanation
Indices: 66706567--66706790 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
66706557 GCTCCTCGTT
* * * *
66706567 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
66706607 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
66706646 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
66706686 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTTGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
66706725 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
66706766 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
66706791 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 65 0.42
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:66706731 original size:79 final size:79
Alignment explanation
Indices: 66706567--66706791 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 79
66706557 GCTCCTCGTT
* * *
66706567 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
*
66706632 TTTAATAACTCGCA
66 CTTAATAACTCGCA
* * * *
66706646 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
* * *
66706710 AACTT-GTATCTTGCA
65 -ACTTAATAACTCGCA
* ** * * * * * *
66706725 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
66706789 GAC
64 GAC
66706792 AGCATTCAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
78 3 0.03
79 90 0.76
80 26 0.22
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
CTTAATAACTCGCA
Found at i:66706799 original size:41 final size:41
Alignment explanation
Indices: 66706722--66706799 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
66706712 CTTGTATCTT
* * *
66706722 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
66706763 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
66706800 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:66714345 original size:23 final size:24
Alignment explanation
Indices: 66714313--66714435 Score: 93
Period size: 23 Copynumber: 5.4 Consensus size: 24
66714303 AGCTAATGAA
66714313 CAGTAAGCTCTAATGAGCTGAAAT
1 CAGTAAGCTCTAATGAGCTGAAAT
*
66714337 GA-TAAGCTCT-ATCGAGCTG--AT
1 CAGTAAGCTCTAAT-GAGCTGAAAT
*
66714358 CAGTAAGCTCTATTGAGCTG-AA-
1 CAGTAAGCTCTAATGAGCTGAAAT
* * *
66714380 CAGTAAGTTC-ATACGAGTTGAAA-
1 CAGTAAGCTCTA-ATGAGCTGAAAT
* *
66714403 CAGTAAGCTCCAATGAGCTTAAAAT
1 CAGTAAGCTCTAATGAGC-TGAAAT
66714428 -AGTAAGCT
1 CAGTAAGCT
66714436 TTTACGAGCT
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.05
22 30 0.38
23 31 0.39
24 14 0.18
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (24 bp):
CAGTAAGCTCTAATGAGCTGAAAT
Found at i:66714366 original size:45 final size:45
Alignment explanation
Indices: 66714311--66714421 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
66714301 TGAGCTAATG
66714311 AACAGTAAGCTCTAATGAGCTGAA-ATGATAAGCTC-TATCGAGCTG-
1 AACAGTAAGCTCTAATGAGCTGAACA-G-TAAGCTCATA-CGAGCTGA
* * * *
66714356 ATCAGTAAGCTCTATTGAGCTGAACAGTAAGTTCATACGAGTTGA
1 AACAGTAAGCTCTAATGAGCTGAACAGTAAGCTCATACGAGCTGA
*
66714401 AACAGTAAGCTCCAATGAGCT
1 AACAGTAAGCTCTAATGAGCT
66714422 TAAAATAGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 12 0.21
45 43 0.77
46 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (45 bp):
AACAGTAAGCTCTAATGAGCTGAACAGTAAGCTCATACGAGCTGA
Found at i:66714367 original size:22 final size:22
Alignment explanation
Indices: 66714309--66714412 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 22
66714299 CCTGAGCTAA
66714309 TGAACAGTAAGCTCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
66714331 TGAA-ATGATAAGCTCTATCGAGC
1 TGAACA-G-TAAGCTCTATCGAGC
* *
66714354 TGATCAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
* *
66714376 TGAACAGTAAGTTC-ATACGAGT
1 TGAACAGTAAGCTCTAT-CGAGC
66714398 TGAAACAGTAAGCTC
1 TG-AACAGTAAGCTC
66714413 CAATGAGCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.04
22 38 0.55
23 27 0.39
24 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:66719800 original size:43 final size:43
Alignment explanation
Indices: 66719645--66719801 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
66719635 CGTGTTATTG
* * * *
66719645 TGTAAGACCACATCTGGGACATTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGAGACATTGGCATCGA-TATTTGA-TTACA
* * * *
66719689 TTTAAGACCATGTCT-AGGACATCGGCATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTGA-GACATTGGCATCGATATTTGATTACA
* *
66719731 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGAGACATTGGCATCGATATTTGATTACA
*
66719774 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGAGACATTGGCAT
66719802 TGTATGAGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 26 0.29
43 40 0.44
44 24 0.27
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACATTGGCATCGATATTTGATTACA
Found at i:66731002 original size:50 final size:50
Alignment explanation
Indices: 66730885--66731026 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 50
66730875 CAAAGCTATT
* * * * **
66730885 TGATACGCATAGTACCCTGCACTTAGTACTGCACATGCGACC-AATTATC
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
* *
66730934 -AAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
*
66730984 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
66731027 CACAATAGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 34 0.43
50 43 0.54
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
Found at i:66737684 original size:40 final size:40
Alignment explanation
Indices: 66737472--66737675 Score: 374
Period size: 40 Copynumber: 5.1 Consensus size: 40
66737462 AACCCAAGTA
* *
66737472 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66737511 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66737551 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66737591 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
66737631 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66737671 CCTTC
1 CCTTC
66737676 AGATCTTAGT
Statistics
Matches: 161, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66745018 original size:43 final size:43
Alignment explanation
Indices: 66744970--66745055 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
66744960 ACAGAGTTTC
* *
66744970 ACATCCTCATTGAAGATCCAGTCAAATCACTCGAGGTGTTTAA
1 ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
* *
66745013 ACATCCTTATTAAAGATTCACTCAAATCACTCGAGGTGTTTAA
1 ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
66745056 GGAAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
Found at i:66751443 original size:43 final size:43
Alignment explanation
Indices: 66751330--66751446 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
66751320 TTGATGCCTC
* * * * *
66751330 TGTCCCAGACAGGGTCTTACACGAAATCATAATACGATGCCAA
1 TGTCCCAAACATGGTCTTACACGTAATCACAATACAATGCCAA
* *
66751373 TGTCCCAGACATGGTCTTACACATAATCACAATACAATGCCAA
1 TGTCCCAAACATGGTCTTACACGTAATCACAATACAATGCCAA
* * *
66751416 TGTTCCAAACTTGGTCTTACATGTAATCACA
1 TGTCCCAAACATGGTCTTACACGTAATCACA
66751447 TCTCGATAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
TGTCCCAAACATGGTCTTACACGTAATCACAATACAATGCCAA
Found at i:66753060 original size:29 final size:29
Alignment explanation
Indices: 66753003--66753060 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
66752993 ACTAAATTGG
66753003 AAATTGAAATAATAAATTAATTAAAAGAT
1 AAATTGAAATAATAAATTAATTAAAAGAT
*
66753032 AAATTGAAATAATTAATTAATTAAAAGAT
1 AAATTGAAATAATAAATTAATTAAAAGAT
66753061 GATAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATTGAAATAATAAATTAATTAAAAGAT
Found at i:66756254 original size:28 final size:28
Alignment explanation
Indices: 66756214--66756342 Score: 177
Period size: 28 Copynumber: 4.5 Consensus size: 28
66756204 CTCAATAAGG
*
66756214 TCGCACACTTAGTGTTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
*
66756242 TCGCACACTTAGTGCTTACATAATCAAAC
1 TCGCACACTTAGTGC-TATATAATCAAAC
66756271 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* ** *
66756299 TTGCACACTTAGTGCTATGCAATTTAAAC
1 TCGCACACTTAGTGCTATATAA-TCAAAC
*
66756328 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
66756343 CAATCTCATG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.50
29 45 0.50
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:66756274 original size:29 final size:29
Alignment explanation
Indices: 66756214--66756342 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
66756204 CTCAATAAGG
*
66756214 TCGCACACTTAGTG-TTATATAATCAAAC
1 TCGCACACTTAGTGCTTACATAATCAAAC
66756242 TCGCACACTTAGTGCTTACATAATCAAAC
1 TCGCACACTTAGTGCTTACATAATCAAAC
*
66756271 TCGCACACTTAGTGC-TATATAATCAAAC
1 TCGCACACTTAGTGCTTACATAATCAAAC
* * * *
66756299 TTGCACACTTAGTGCTATGCA-ATTTAAAC
1 TCGCACACTTAGTGCT-TACATAATCAAAC
*
66756328 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
66756343 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
28 40 0.45
29 47 0.53
30 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
TCGCACACTTAGTGCTTACATAATCAAAC
Found at i:66756305 original size:57 final size:57
Alignment explanation
Indices: 66756214--66756342 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
66756204 CTCAATAAGG
*
66756214 TCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * *
66756271 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
*
66756328 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
66756343 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:66757498 original size:20 final size:21
Alignment explanation
Indices: 66757460--66757500 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
66757450 CCCTCTTCCC
66757460 TCCTTATTTTATTCGCCTTTT
1 TCCTTATTTTATTCGCCTTTT
66757481 TCCTT-TTTTAATTC-CCTTTT
1 TCCTTATTTT-ATTCGCCTTTT
66757501 ATTTTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.10, C:0.24, G:0.02, T:0.63
Consensus pattern (21 bp):
TCCTTATTTTATTCGCCTTTT
Found at i:66758131 original size:19 final size:20
Alignment explanation
Indices: 66758107--66758144 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66758097 GGTACCACCA
66758107 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66758126 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66758145 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66758532 original size:93 final size:93
Alignment explanation
Indices: 66758373--66758543 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
66758363 GCCCTTAAGT
*
66758373 GAACTCGGACTCAACTCAACGAGCTCGAGTGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAATGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
66758438 CGAGTTCAGATGCCTAGTTAAATCTCAC
66 CGAGTTCAGATGCCTAGTTAAATCTCAC
* * * *
66758466 GAACTCGGACTCAACTCAACGTGTTCGGACAT-TT-GCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTC-GA-ATGTTCGCATCCATAAATGAACTCAGACTCAACTC
66758529 AACGAGTTCAGATGC
64 AACGAGTTCAGATGC
66758544 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 66 0.93
94 4 0.06
95 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAATGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTAAATCTCAC
Found at i:66758559 original size:46 final size:46
Alignment explanation
Indices: 66758368--66758552 Score: 109
Period size: 46 Copynumber: 4.0 Consensus size: 46
66758358 AACCCGCCCT
* * *
66758368 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGTGTTC--GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA-TGCTCAACCAT-C
* * *
66758413 ATAAATGAACTCAGACTCAACTCAACGAGTTCAGATGC-CTAGTTA-AATC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATC
* * * * * *
66758462 TCA-CGAACTCGGACTCAACTCAACGTGTTCGGACAT-TTGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATC
66758507 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATC
66758553 CTAGTGACAT
Statistics
Matches: 104, Mismatches: 19, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
44 8 0.08
45 4 0.04
46 55 0.53
47 27 0.26
48 2 0.02
49 5 0.05
50 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATC
Found at i:66764109 original size:28 final size:28
Alignment explanation
Indices: 66764052--66764141 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 28
66764042 TGACAGAGTT
* * *
66764052 ACCAGATACAAATATTTTGTGGCAGTGCC
1 ACCAGA-ACAGATAATTTGTGGCAGGGCC
*
66764081 ACTAGAACAGATAATTTGTGGCAGGGCC
1 ACCAGAACAGATAATTTGTGGCAGGGCC
**
66764109 ACCAGAACAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAATTTGTGGCAGGGCC
66764137 ACCAG
1 ACCAG
66764142 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 49 0.91
29 5 0.09
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (28 bp):
ACCAGAACAGATAATTTGTGGCAGGGCC
Found at i:66764294 original size:28 final size:28
Alignment explanation
Indices: 66764247--66764311 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
66764237 AAATTAACCC
*
66764247 TAGGGGTATAAAGGTTATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
66764275 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
66764303 TAGGGGTAT
1 TAGGGGTAT
66764312 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:66768624 original size:19 final size:20
Alignment explanation
Indices: 66768600--66768637 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66768590 GGTACCACCA
66768600 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66768619 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66768638 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66769026 original size:46 final size:46
Alignment explanation
Indices: 66768861--66769030 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
66768851 AACCCGCCCC
* * *
66768861 TAAGTGAACTCGGACTCAACTCAATGAGCTT--GA-GTGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACAT-TT-GCATCCA
* * * *
66768907 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
66768955 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
66769000 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
66769031 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 51 0.51
47 30 0.30
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Done.