Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 60 of 425
Found at i:16407029 original size:46 final size:45
Alignment explanation
Indices: 16406962--16407136 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
16406952 TGTAACCCGC
* *
16406962 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGTAT
* *
16407008 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCTAGCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGTA--T
* *** * *
16407054 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGTAT
*
16407101 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
16407137 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 66 0.61
47 32 0.30
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGTAT
Found at i:16407103 original size:93 final size:93
Alignment explanation
Indices: 16406970--16407141 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
16406960 GCCCATAAGT
* * *
16406970 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16407035 CGAGCTCGGATGCCTAGCTACATCTCTC
66 CGAGCTCGGATGCCTAGCTACATCTCTC
*
16407063 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
16407127 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
16407142 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGCTACATCTCTC
Found at i:16407156 original size:46 final size:44
Alignment explanation
Indices: 16407013--16407156 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
16407003 CGTATCCATA
* *
16407013 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGCTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC---C-AAATC-CT
* * *
16407062 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
16407105 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
16407152 AGTGA
1 AGTGA
16407157 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 34 0.44
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:16412318 original size:18 final size:19
Alignment explanation
Indices: 16412297--16412333 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16412287 TTTTTATCCC
*
16412297 TTACATTTAT-TTTTAATT
1 TTACACTTATATTTTAATT
16412315 TTACACTTATATTTTAATT
1 TTACACTTATATTTTAATT
16412334 CAATATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TTACACTTATATTTTAATT
Found at i:16412470 original size:13 final size:13
Alignment explanation
Indices: 16412452--16412478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16412442 CATCTGTGCC
16412452 TTTATTTTTATTT
1 TTTATTTTTATTT
16412465 TTTATTTTTATTT
1 TTTATTTTTATTT
16412478 T
1 T
16412479 ATTACTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:16412672 original size:20 final size:20
Alignment explanation
Indices: 16412647--16412694 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
16412637 TTTTCCTTAC
16412647 ATTTGTTTACGTACTTATTT
1 ATTTGTTTACGTACTTATTT
* *
16412667 ATTTGTTTACTTGCTTATTT
1 ATTTGTTTACGTACTTATTT
16412687 ATTT-TTTA
1 ATTTGTTTA
16412695 GGATTTTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (20 bp):
ATTTGTTTACGTACTTATTT
Found at i:16414717 original size:40 final size:40
Alignment explanation
Indices: 16414630--16414780 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
16414620 AATTGAATGA
* * * **
16414630 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
16414670 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
16414711 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
16414750 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
16414781 AAATTGTGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 82 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:16414794 original size:40 final size:39
Alignment explanation
Indices: 16414629--16414812 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 39
16414619 AAATTGAATG
* * *
16414629 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAA-T-T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATTGT
* * * * * *
16414669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTG-T
* * * *
16414709 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT--TGT
*
16414749 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
* * *
16414788 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16414813 CTTGGTGCGG
Statistics
Matches: 112, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 3 0.03
40 103 0.92
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
Found at i:16414837 original size:80 final size:81
Alignment explanation
Indices: 16414669--16414857 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
16414659 GCTGGAAATT
* * *
16414669 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATGGCTACATCCGGGCTAAGACCCGAAGGCA
*
16414734 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * * *
16414750 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATGGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16414813 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
16414829 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
16414858 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATGGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16430468 original size:15 final size:14
Alignment explanation
Indices: 16430448--16430488 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
16430438 AGTCCATTTA
16430448 TTTTATTTTTTTATT
1 TTTTATTTTTTT-TT
16430463 TTTTATTTTTGTTTT
1 TTTTATTTTT-TTTT
*
16430478 ATTTATTTTTT
1 TTTTATTTTTT
16430489 GAAGACTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.88
16 2 0.08
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTTTTT
Found at i:16442065 original size:2 final size:2
Alignment explanation
Indices: 16442058--16442093 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16442048 TTTGGAAGTG
16442058 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
16442094 CATAAGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16442627 original size:27 final size:28
Alignment explanation
Indices: 16442571--16442640 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
16442561 AAATTTGTAC
16442571 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
16442599 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
16442626 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16442641 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:16450002 original size:2 final size:2
Alignment explanation
Indices: 16449995--16450020 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16449985 TTTGGAAGTG
16449995 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
16450021 AGTATGCCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16450551 original size:27 final size:28
Alignment explanation
Indices: 16450495--16450564 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
16450485 AAATTTGTAC
16450495 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
16450523 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
16450550 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16450565 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:16452313 original size:21 final size:20
Alignment explanation
Indices: 16452271--16452313 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
16452261 TTTTCCTTAC
*
16452271 ATTTGTTTACGTACTTATTT
1 ATTTGTTTACGTACTCATTT
16452291 ATTTGTTTACACGT-CTCATTT
1 ATTTGTTT--ACGTACTCATTT
16452312 AT
1 AT
16452314 GTTTTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (20 bp):
ATTTGTTTACGTACTCATTT
Found at i:16454750 original size:12 final size:12
Alignment explanation
Indices: 16454735--16454785 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
16454725 AAAAGTAATT
*
16454735 TAAAAATATAAA
1 TAAAAATAAAAA
*
16454747 TAAAGATAAAAA
1 TAAAAATAAAAA
16454759 T-AAAATAAAAAA
1 TAAAAAT-AAAAA
16454771 TAAAAATAAATAA
1 TAAAAATAAA-AA
16454784 TA
1 TA
16454786 GATGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 4 0.12
12 20 0.61
13 9 0.27
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:16454756 original size:18 final size:18
Alignment explanation
Indices: 16454735--16454780 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
16454725 AAAAGTAATT
*
16454735 TAAAAATATAAAT-AAAGA
1 TAAAAATA-AAATAAAAAA
16454753 TAAAAATAAAATAAAAAA
1 TAAAAATAAAATAAAAAA
16454771 TAAAAATAAA
1 TAAAAATAAA
16454781 TAATAGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAAATAAAATAAAAAA
Found at i:16460698 original size:12 final size:13
Alignment explanation
Indices: 16460678--16460710 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16460668 AATATATGTA
16460678 AAATTGAAG-TTT
1 AAATTGAAGCTTT
*
16460690 AATTTGAAGCTTT
1 AAATTGAAGCTTT
16460703 AAATTGAA
1 AAATTGAA
16460711 AGTTATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (13 bp):
AAATTGAAGCTTT
Found at i:16461354 original size:19 final size:20
Alignment explanation
Indices: 16461314--16461358 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
16461304 GTTGCGCCTC
**
16461314 GTGTGCTAGATATGTGCTTT
1 GTGTGCTAGATATGCACTTT
16461334 GTGTGCTAGA-ATGCACTTT
1 GTGTGCTAGATATGCACTTT
16461353 GTGTGC
1 GTGTGC
16461359 CAGTATGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.16, C:0.13, G:0.31, T:0.40
Consensus pattern (20 bp):
GTGTGCTAGATATGCACTTT
Found at i:16461367 original size:38 final size:39
Alignment explanation
Indices: 16461314--16461392 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 39
16461304 GTTGCGCCTC
* * * *
16461314 GTGTGCTAGATATGTGCTTTGTGTGCTAGAATGCACTTT
1 GTGTGCCAGATATGTGCTATGTGCGCCAGAATGCACTTT
* *
16461353 GTGTGCCAG-TATGTGCTATGTGCGCCAGGATGCATTTT
1 GTGTGCCAGATATGTGCTATGTGCGCCAGAATGCACTTT
16461391 GT
1 GT
16461393 ACCTTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 26 0.76
39 8 0.24
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.38
Consensus pattern (39 bp):
GTGTGCCAGATATGTGCTATGTGCGCCAGAATGCACTTT
Found at i:16461374 original size:19 final size:19
Alignment explanation
Indices: 16461314--16461380 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
16461304 GTTGCGCCTC
*
16461314 GTGTGCTAGATATGTGCTTT
1 GTGTGCCAG-TATGTGCTTT
* * **
16461334 GTGTGCTAGAATGCACTTT
1 GTGTGCCAGTATGTGCTTT
*
16461353 GTGTGCCAGTATGTGCTAT
1 GTGTGCCAGTATGTGCTTT
*
16461372 GTGCGCCAG
1 GTGTGCCAG
16461381 GATGCATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 29 0.76
20 9 0.24
ACGTcount: A:0.16, C:0.16, G:0.31, T:0.36
Consensus pattern (19 bp):
GTGTGCCAGTATGTGCTTT
Found at i:16467457 original size:10 final size:9
Alignment explanation
Indices: 16467405--16467485 Score: 69
Period size: 10 Copynumber: 8.9 Consensus size: 9
16467395 ATATATTTTC
16467405 ATAAAAATT
1 ATAAAAATT
16467414 ATTAAAAA-T
1 A-TAAAAATT
*
16467423 AAAAAAATT
1 ATAAAAATT
16467432 AT--AAATT
1 ATAAAAATT
*
16467439 GATATAAATAT
1 -ATAAAAAT-T
*
16467450 ATAAAAATC
1 ATAAAAATT
16467459 ATAAAAATTT
1 ATAAAAA-TT
*
16467469 ATAAATATT
1 ATAAAAATT
16467478 ATAAAAAT
1 ATAAAAAT
16467486 AAAATTCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
7 5 0.09
8 7 0.12
9 21 0.36
10 24 0.41
11 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16467471 original size:19 final size:19
Alignment explanation
Indices: 16467403--16467485 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
16467393 TTATATATTT
16467403 TCATAAAAA-TTATTAAAAA
1 TCATAAAAATTTA-TAAAAA
* *
16467422 T-A-AAAAAATTAT-AAAT
1 TCATAAAAATTTATAAAAA
* * *
16467438 TGATATAAATATATAAAAA
1 TCATAAAAATTTATAAAAA
*
16467457 TCATAAAAATTTATAAATA
1 TCATAAAAATTTATAAAAA
*
16467476 TTATAAAAAT
1 TCATAAAAAT
16467486 AAAATTCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 11 0.22
19 28 0.56
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (19 bp):
TCATAAAAATTTATAAAAA
Found at i:16467471 original size:27 final size:27
Alignment explanation
Indices: 16467403--16467485 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 27
16467393 TTATATATTT
* *
16467403 TCATAAAAA-TTATTAAAAATAAAAAAA
1 TCATAAAAATTTA-TAAATATATAAAAA
*
16467430 T--TATAAATTGATATAAATATATAAAAA
1 TCATAAAAATT--TATAAATATATAAAAA
16467457 TCATAAAAATTTATAAATATTATAAAAA
1 TCATAAAAATTTATAAATA-TATAAAAA
16467485 T
1 T
16467486 AAAATTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 22 0.48
28 11 0.24
29 7 0.15
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (27 bp):
TCATAAAAATTTATAAATATATAAAAA
Found at i:16467481 original size:36 final size:33
Alignment explanation
Indices: 16467416--16467517 Score: 93
Period size: 34 Copynumber: 3.0 Consensus size: 33
16467406 TAAAAATTAT
*
16467416 TAAAAAT-AAAAAAATTATAAAT-TGATATAAATATA
1 TAAAAATCAAAAAATTTATAAATAT--TATAAA-A-A
16467451 TAAAAATCATAAAAATTTATAAATATTATAAAAA
1 TAAAAATCA-AAAAATTTATAAATATTATAAAAA
* *
16467485 TAAAATTCAAATAAATTT-TAAAAAATTATAAAA
1 TAAAAATCAAA-AAATTTAT-AAATATTATAAAA
16467518 TTAGTAAAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
33 3 0.05
34 27 0.46
35 8 0.14
36 7 0.12
37 13 0.22
38 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (33 bp):
TAAAAATCAAAAAATTTATAAATATTATAAAAA
Found at i:16482229 original size:20 final size:19
Alignment explanation
Indices: 16482206--16482263 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
16482196 TCAACACCTC
16482206 TATTTGCACTTCGATGCCTT
1 TATTTGCACTTCG-TGCCTT
** *
16482226 TATTCACACTTCGGTGTCTT
1 TATTTGCACTTC-GTGCCTT
16482246 T-TTTGCACTCTCGTGCCT
1 TATTTGCACT-TCGTGCCT
16482264 CTGATTGCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 11 0.37
20 18 0.60
21 1 0.03
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.45
Consensus pattern (19 bp):
TATTTGCACTTCGTGCCTT
Found at i:16482457 original size:24 final size:24
Alignment explanation
Indices: 16482425--16482472 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16482415 ATGACCTAAG
* *
16482425 TGAATATACATGAATGATTTTGAT
1 TGAACATACATGAATGATCTTGAT
16482449 TGAACATACATGAATGATCTTGAT
1 TGAACATACATGAATGATCTTGAT
16482473 GGAATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
TGAACATACATGAATGATCTTGAT
Found at i:16498185 original size:79 final size:81
Alignment explanation
Indices: 16498084--16498268 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
16498074 ACGACTCGCT
** * * *
16498084 CAAATGCCTTCGGGACGAAGCCC-GGTTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
16498147 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
16498164 CAAATGCCTTCGGG-CTTAGCCCAGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
16498228 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
16498244 CAAA-GCCTTCGGGACTTAGCCCAGA
1 CAAATGCCTTCGGGACTTAGCCCAGA
16498269 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:16498209 original size:39 final size:40
Alignment explanation
Indices: 16498077--16498215 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
16498067 GGATATAACG
* * * * *
16498077 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCAGATT-TAGTA
* *
16498117 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCAGATTTAGTA
* * * *
16498157 ACTTGCACAAATGCCTTCGGG-CTTAGCCCAGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCAGATTTAGTA
16498196 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
16498216 ATCCTAGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.38
40 47 0.55
41 6 0.07
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCAGATTTAGTA
Found at i:16501683 original size:20 final size:20
Alignment explanation
Indices: 16501658--16501702 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16501648 AGGGACTAAA
* *
16501658 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
16501678 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
16501698 ATGAA
1 ATGAA
16501703 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:16504857 original size:37 final size:37
Alignment explanation
Indices: 16504794--16504942 Score: 217
Period size: 37 Copynumber: 4.0 Consensus size: 37
16504784 AGCTCAGATG
* * * *
16504794 AAATCTCCACACGAAGTTATCAGGTCTTACCCAAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
*
16504831 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
*
16504868 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
* *
16504905 TAATCTCCACACGTAGTCATCGAGTCTTAACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTT-ACCCAGACA
16504943 TAGTCACCAC
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 95 0.92
38 8 0.08
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
Found at i:16504962 original size:38 final size:37
Alignment explanation
Indices: 16504817--16504963 Score: 141
Period size: 37 Copynumber: 3.9 Consensus size: 37
16504807 AAGTTATCAG
* * * * *
16504817 GTCTTACCCAAACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCACCACACATAGTCATCGA
* * * * *
16504854 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCACCACACATAGTCATCGA
* * *
16504891 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGA
1 GTCTTACCCAGACATAATCACCACACATAGTCATCGA
* * *
16504928 GTCTTAACCCAGACATAGTCACCACATATGGTCATC
1 GTCTT-ACCCAGACATAATCACCACACATAGTCATC
16504964 TGGTCTTTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 75 0.76
38 24 0.24
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (37 bp):
GTCTTACCCAGACATAATCACCACACATAGTCATCGA
Found at i:16504970 original size:38 final size:37
Alignment explanation
Indices: 16504816--16504979 Score: 127
Period size: 37 Copynumber: 4.4 Consensus size: 37
16504806 GAAGTTATCA
* * * *
16504816 GGTCTT-ACCCAAACAAAATCTCCACACGTAGTCATC
1 GGTCTTAACCCAGACATAATCACCACACATAGTCATC
* * * *
16504852 GGGTCTT-ACCCGGACAAAATCTCCACACGTAGTCATC
1 -GGTCTTAACCCAGACATAATCACCACACATAGTCATC
* * *
16504889 GGGTCTT-ACCCGGACATAATCTCCACACGTAGTCATC
1 -GGTCTTAACCCAGACATAATCACCACACATAGTCATC
* * *
16504926 GAGTCTTAACCCAGACATAGTCACCACATATGGTCATC
1 G-GTCTTAACCCAGACATAATCACCACACATAGTCATC
16504964 TGGTCTTTAATCCCAG
1 -GGTC-TTAA-CCCAG
16504980 GTTTACATCA
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.01
37 75 0.66
38 27 0.24
39 5 0.04
40 5 0.04
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (37 bp):
GGTCTTAACCCAGACATAATCACCACACATAGTCATC
Found at i:16505199 original size:46 final size:46
Alignment explanation
Indices: 16505131--16505267 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
16505121 TATATATACA
* * * *
16505131 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
16505177 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
16505223 TATCTCATACACATTTCGCATTAGCTATTCGGCCTTACTACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
16505268 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:16505301 original size:47 final size:47
Alignment explanation
Indices: 16505249--16505575 Score: 442
Period size: 47 Copynumber: 6.9 Consensus size: 47
16505239 CGCATTAGCT
*
16505249 ATTCGGCCTTA-CTACATATATACATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATC-ACATATATGCATGTTCACATTCATCACATTGGCC
*
16505296 ATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCC
* *
16505343 ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCC
* * *
16505390 ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGTCC
1 ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCC
* * *
16505437 ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGTCC
1 ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCC
* *
16505484 ATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATT-GCC
1 ATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCACATTGGCC
* * * **
16505534 ATTCGACCTTATCTCATATATACACATTCACATTCATCACAT
1 ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
16505576 AAAATCCTAA
Statistics
Matches: 260, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
46 25 0.10
47 194 0.75
48 2 0.01
49 1 0.00
50 14 0.05
51 24 0.09
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
ATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCC
Found at i:16511523 original size:35 final size:35
Alignment explanation
Indices: 16511477--16511546 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16511467 TGGAAATGAG
16511477 AAAGAATTACTATGGACTTTGTAACAGGATTACCC
1 AAAGAATTACTATGGACTTTGTAACAGGATTACCC
16511512 AAAGAATTACTATGGACTTTGTAACAGGATTACCC
1 AAAGAATTACTATGGACTTTGTAACAGGATTACCC
16511547 CTATCTCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (35 bp):
AAAGAATTACTATGGACTTTGTAACAGGATTACCC
Found at i:16517105 original size:46 final size:46
Alignment explanation
Indices: 16517050--16517230 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
16517040 TAGGATGGTT
16517050 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
16517096 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
16517142 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
16517189 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16517231 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:16517211 original size:93 final size:93
Alignment explanation
Indices: 16517052--16517222 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
16517042 GGATGGTTGA
* *
16517052 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16517117 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
16517145 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16517210 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16517223 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16520202 original size:15 final size:15
Alignment explanation
Indices: 16520182--16520235 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
16520172 GTATCTTGGG
16520182 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
16520197 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16520212 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16520227 TTTCTTTAT
1 TTTCTTTAT
16520236 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16520212 original size:30 final size:30
Alignment explanation
Indices: 16520178--16520246 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
16520168 TATCGTATCT
16520178 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
16520208 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
16520238 -GGTTTTCTT
1 TGGGTTTCTT
16520247 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:16522169 original size:46 final size:46
Alignment explanation
Indices: 16522116--16522296 Score: 251
Period size: 46 Copynumber: 3.9 Consensus size: 46
16522106 TAGGATGGTT
16522116 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
16522162 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAAC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
16522208 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
16522255 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16522297 GCGGTTACAT
Statistics
Matches: 119, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 73 0.61
47 34 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:16522280 original size:93 final size:93
Alignment explanation
Indices: 16522121--16522289 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
16522111 TGGTTGAGCG
* *
16522121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
16522186 GTCCGAGTTCATGAGATGTAACTAGGCA
66 GTCCGAGTTCATGAGATGTAACTAGGCA
*
16522214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
16522279 GTCCGAGTTCA
66 GTCCGAGTTCA
16522290 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
GTCCGAGTTCATGAGATGTAACTAGGCA
Found at i:16524724 original size:48 final size:48
Alignment explanation
Indices: 16524666--16524897 Score: 335
Period size: 48 Copynumber: 4.9 Consensus size: 48
16524656 AAAGGGTATT
*
16524666 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
*
16524714 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * *
16524762 GCCGATGCCATGTCCCAGACATGGTCTTACACCGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAG
*
16524810 GCCGATGCCAT-TTCCAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * *
16524857 GCCGATGCCATGTCCCAAATATGGTCTT-CACTAGCACACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
16524898 ATCACCCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.01
47 51 0.31
48 113 0.68
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:16524871 original size:95 final size:96
Alignment explanation
Indices: 16524666--16524884 Score: 343
Period size: 95 Copynumber: 2.3 Consensus size: 96
16524656 AAAGGGTATT
* *
16524666 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACCGGCTCACATATCGAGGCCGATGCCATGTCCCA
*
16524731 GACATGGTCTTACACTGGCTCTCATGTCGAG
66 GACATGGTCTTACACTGGCTCACATGTCGAG
* * * *
16524762 GCCGATGCCATGTCCCAGACATGGTCTTACACCGGCTCTCATAAT-GTGGCCGATGCCAT-TTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACCGGCTCACAT-ATCGAGGCCGATGCCATGTCCC
16524825 AGACATGGTCTTACACTGGCTCACATGTCGAG
65 AGACATGGTCTTACACTGGCTCACATGTCGAG
*
16524857 GCCGATGCCATGTCCCAAATATGGTCTT
1 GCCGATGCCATGTCCCAAACATGGTCTT
16524885 CACTAGCACA
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
95 60 0.53
96 52 0.46
97 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACCGGCTCACATATCGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:16528723 original size:28 final size:28
Alignment explanation
Indices: 16528683--16528754 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
16528673 AAAATTGTAC
* *
16528683 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
16528711 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
16528740 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16528755 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:16536639 original size:28 final size:28
Alignment explanation
Indices: 16536599--16536670 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
16536589 AAAATTGTAC
* *
16536599 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
16536627 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
16536656 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16536671 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:16553056 original size:11 final size:10
Alignment explanation
Indices: 16553027--16553079 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
16553017 AGATCATTAC
16553027 ATTAT-AAAA
1 ATTATAAAAA
16553036 ATTAATAAAAA
1 ATT-ATAAAAA
*
16553047 CTTATAAAAA
1 ATTATAAAAA
*
16553057 ATATTTAAAAA
1 AT-TATAAAAA
*
16553068 ATCATAAAAA
1 ATTATAAAAA
16553078 AT
1 AT
16553080 ATTAAACATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 3 0.08
10 18 0.50
11 15 0.42
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:16553065 original size:21 final size:21
Alignment explanation
Indices: 16553027--16553082 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
16553017 AGATCATTAC
* *
16553027 ATTATAAAAATTA-ATAAAAA
1 ATTATAAAAAATATTTAAAAA
*
16553047 CTTATAAAAAATATTTAAAAA
1 ATTATAAAAAATATTTAAAAA
*
16553068 ATCATAAAAAATATT
1 ATTATAAAAAATATT
16553083 AAACATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAAAAAATATTTAAAAA
Found at i:16553950 original size:10 final size:9
Alignment explanation
Indices: 16553921--16554029 Score: 71
Period size: 10 Copynumber: 11.7 Consensus size: 9
16553911 ATTTTATTCA
16553921 TTTTATAAT
1 TTTTATAAT
* *
16553930 TTATAAGAAT
1 TT-TTATAAT
16553940 TTTTATTAAT
1 TTTTA-TAAT
16553950 TTTTATAAGT
1 TTTTATAA-T
16553960 TTTTATAATT
1 TTTTATAA-T
16553970 TTTTATAAT
1 TTTTATAAT
* *
16553979 TATTGTAAGT
1 TTTTATAA-T
* *
16553989 TTATGTCAA-
1 TTTTAT-AAT
16553998 TTTTACT-AT
1 TTTTA-TAAT
*
16554007 TTTTA-ATT
1 TTTTATAAT
16554015 TTTTATAAT
1 TTTTATAAT
16554024 TTTTAT
1 TTTTAT
16554030 GAGAAAATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
8 7 0.09
9 30 0.38
10 39 0.50
11 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:16554028 original size:9 final size:9
Alignment explanation
Indices: 16553820--16554029 Score: 87
Period size: 9 Copynumber: 22.8 Consensus size: 9
16553810 GGTTTAAATT
16553820 TTTTTATAA
1 TTTTTATAA
16553829 --TTTATAA
1 TTTTTATAA
**
16553836 TTTTCCTAA
1 TTTTTATAA
16553845 TTTATTATAA
1 TTT-TTATAA
* *
16553855 TTTTGAT-G
1 TTTTTATAA
16553863 TTATTTATAA
1 TT-TTTATAA
16553873 GTTTTTATGAA
1 -TTTTTAT-AA
*
16553884 TTCTTATAA
1 TTTTTATAA
**
16553893 AATTTA-AA
1 TTTTTATAA
*
16553901 TATTGTAT-A
1 T-TTTTATAA
*
16553910 TATTTTATTCA
1 T-TTTTA-TAA
16553921 -TTTTATAA
1 TTTTTATAA
* *
16553929 TTTATAAGAA
1 TTT-TTATAA
16553939 TTTTTATTAA
1 TTTTTA-TAA
16553949 TTTTTATAA
1 TTTTTATAA
16553958 GTTTTTATAA
1 -TTTTTATAA
16553968 TTTTTTATAA
1 -TTTTTATAA
* *
16553978 TTATTGTAA
1 TTTTTATAA
* *
16553987 GTTTATGTCAA
1 -TTTTTAT-AA
16553998 -TTTTACT-A
1 TTTTTA-TAA
*
16554006 TTTTTA-AT
1 TTTTTATAA
16554014 TTTTTATAA
1 TTTTTATAA
16554023 TTTTTAT
1 TTTTTAT
16554030 GAGAAAATAA
Statistics
Matches: 150, Mismatches: 30, Indels: 42
0.68 0.14 0.19
Matches are distributed among these distances:
7 7 0.05
8 13 0.09
9 65 0.43
10 58 0.39
11 7 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16554556 original size:18 final size:18
Alignment explanation
Indices: 16554520--16554557 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16554510 TGAGTTTTAC
*
16554520 AATTTAAATACTTTGAAT
1 AATTTAAATACTTTAAAT
16554538 AATTTAAATAAC-TTAAAT
1 AATTTAAAT-ACTTTAAAT
16554556 AA
1 AA
16554558 CATATTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (18 bp):
AATTTAAATACTTTAAAT
Found at i:16554683 original size:19 final size:20
Alignment explanation
Indices: 16554640--16554693 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
16554630 CAACCAAAAT
16554640 AATTCAAAATAATTT-TCAAA
1 AATTCAAAAT-ATTTATCAAA
*
16554660 TATTCAAAATATTTAT-AAA
1 AATTCAAAATATTTATCAAA
16554679 AATTCCAAAAT-TTTA
1 AATT-CAAAATATTTA
16554694 AATTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTCAAAATATTTATCAAA
Found at i:16554730 original size:9 final size:9
Alignment explanation
Indices: 16554718--16554770 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
16554708 TATGAAAAAG
*
16554718 TAAAAATTC
1 TAAAAATTT
*
16554727 TAAAAAATT
1 TAAAAATTT
16554736 TAAAAATGTAT
1 TAAAAAT-T-T
*
16554747 AAAAAATGTT
1 TAAAAAT-TT
16554757 TAAAAATTT
1 TAAAAATTT
16554766 TAAAA
1 TAAAA
16554771 TATAAAACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 20 0.54
10 8 0.22
11 9 0.24
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
TAAAAATTT
Found at i:16555784 original size:3 final size:3
Alignment explanation
Indices: 16555769--16555806 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16555759 TACCATTTAT
*
16555769 TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16555807 TTGCTAGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16560365 original size:13 final size:13
Alignment explanation
Indices: 16560329--16560366 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
16560319 AACCCTAATA
*
16560329 AAAGAGAAAAACT
1 AAAGAGAAAATCT
*
16560342 AAAGACAAAATCT
1 AAAGAGAAAATCT
16560355 AAAGAGAAAATC
1 AAAGAGAAAATC
16560367 ATACAAGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.66, C:0.11, G:0.13, T:0.11
Consensus pattern (13 bp):
AAAGAGAAAATCT
Found at i:16563685 original size:26 final size:26
Alignment explanation
Indices: 16563656--16563707 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16563646 AATTACTATG
16563656 GTTTCCTTGGGAGTGATATAGAATCA
1 GTTTCCTTGGGAGTGATATAGAATCA
16563682 GTTTCCTTGGGAGTGATATAGAATCA
1 GTTTCCTTGGGAGTGATATAGAATCA
16563708 TTCCCAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
GTTTCCTTGGGAGTGATATAGAATCA
Found at i:16564149 original size:19 final size:19
Alignment explanation
Indices: 16564121--16564158 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16564111 TAGAGAATAG
*
16564121 TAAAGAGGTTTTAGTAGTT
1 TAAAGAGGTTTTAATAGTT
*
16564140 TAAAGTGGTTTTAATAGTT
1 TAAAGAGGTTTTAATAGTT
16564159 GAGTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (19 bp):
TAAAGAGGTTTTAATAGTT
Found at i:16564165 original size:22 final size:21
Alignment explanation
Indices: 16564118--16564174 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
16564108 AGGTAGAGAA
* *
16564118 TAGTAAAGAGGTTTTAGTAGT
1 TAGTAAAGTGGTTTTAATAGT
16564139 T--TAAAGTGGTTTTAATAGT
1 TAGTAAAGTGGTTTTAATAGT
*
16564158 TGAGTAAAAGTGTTTTT
1 T-AGT-AAAGTGGTTTT
16564175 GAGTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 17 0.59
21 1 0.03
22 1 0.03
23 10 0.34
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (21 bp):
TAGTAAAGTGGTTTTAATAGT
Found at i:16566688 original size:18 final size:18
Alignment explanation
Indices: 16566665--16566699 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16566655 CTCATGGATC
16566665 TGATAAACAAAATAAACT
1 TGATAAACAAAATAAACT
* *
16566683 TGATAAAGATAATAAAC
1 TGATAAACAAAATAAAC
16566700 GTAAAGAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (18 bp):
TGATAAACAAAATAAACT
Found at i:16568289 original size:26 final size:26
Alignment explanation
Indices: 16568260--16568326 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
16568250 CTTTTTAGAT
* *
16568260 TTAGTTTTTAGTTTTTTTTTCTTTTC
1 TTAGTTTTTAGTTTTTATTTCTATTC
* *
16568286 TTAGGTTTTAGATTTTATTTCTATTC
1 TTAGTTTTTAGTTTTTATTTCTATTC
*
16568312 TT-GTTATTTACTTTT
1 TTAGTT-TTTAGTTTT
16568327 ATGGAGAAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.70
Consensus pattern (26 bp):
TTAGTTTTTAGTTTTTATTTCTATTC
Found at i:16580368 original size:93 final size:93
Alignment explanation
Indices: 16580260--16580430 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
16580250 GCCCCAAAGT
* * *
16580260 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAGTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16580325 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
16580353 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16580418 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16580431 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:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:16580427 original size:46 final size:46
Alignment explanation
Indices: 16580256--16580427 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
16580246 ACCCGCCCCA
* * * *
16580256 AAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* * *
16580302 AAGTGAACTCGGACTCAAGTCAACGAGTTCGGATGCCTAGTT-ACAT--TT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
16580350 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
16580395 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16580428 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:16580884 original size:30 final size:30
Alignment explanation
Indices: 16580850--16580907 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16580840 ATTTAATACG
16580850 AACTTTGGAAAAATTACACTTTTGCCCCAA
1 AACTTTGGAAAAATTACACTTTTGCCCCAA
* * *
16580880 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTGGAAAAATTACACTTTTGCCCC
16580908 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCAA
Found at i:16590284 original size:23 final size:23
Alignment explanation
Indices: 16590258--16590321 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
16590248 TAAATCTGCT
16590258 AAAA-AAATTAAATTAAAAATTAA
1 AAAATAAATTAAA-TAAAAATTAA
** *
16590281 AAAATAGTTTGAATAAAAATTAA
1 AAAATAAATTAAATAAAAATTAA
*
16590304 AAACATAAAAT-AATAAAA
1 AAA-ATAAATTAAATAAAA
16590322 TAAATATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAATAAATTAAATAAAAATTAA
Found at i:16597893 original size:15 final size:15
Alignment explanation
Indices: 16597873--16597905 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16597863 AAATATATAT
16597873 TTTATA-AAAAATTAA
1 TTTATATAAAAA-TAA
16597888 TTTATATAAAAATAA
1 TTTATATAAAAATAA
16597903 TTT
1 TTT
16597906 GATTCCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTATATAAAAATAA
Found at i:16601298 original size:16 final size:16
Alignment explanation
Indices: 16601277--16601319 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
16601267 ATTTTTTATG
16601277 GGCCCAGCCCGAACCC
1 GGCCCAGCCCGAACCC
* *
16601293 GGCCCAGTCTGAACCC
1 GGCCCAGCCCGAACCC
*
16601309 GGCCCGGCCCG
1 GGCCCAGCCCG
16601320 GCTATGCACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.51, G:0.30, T:0.05
Consensus pattern (16 bp):
GGCCCAGCCCGAACCC
Found at i:16604278 original size:100 final size:101
Alignment explanation
Indices: 16603915--16604338 Score: 609
Period size: 100 Copynumber: 4.2 Consensus size: 101
16603905 TGGTTTAATG
* * * * * *
16603915 TTTTTTATGAATGTAATTTTTTTATAATTATTTTAAAATTTTTTTGTTAGTAATTTATGATTATG
1 TTTTTTATTAATGTAATTTTTTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
16603980 TTGTAATTTGTTTGTGTTTTAGTTTAGTGTTTTGTGA
66 TTATAAATTGTTAGTG-TTTAGTTTAGTGTTTTGTGA
* *
16604017 ATTTTTATTAATGTAATTTTTTTAAAAAAATTATTTTATAGTTATTTTGTTAATAATTTATGATT
1 TTTTTTATTAATGTAATTTTTTT---AAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATT
* *
16604082 AGGTTATAAATTGTT-CTGTTTAGTTTAGTGTTTTATGA
63 AGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
* *
16604120 TTTTTTTATTAATGTAAATTTTTTAAAAAATATTTTATAGTTATTTTGTTAGTAATTTATGATTA
1 -TTTTTTATTAATGT-AATTTTTTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTA
* *
16604185 GGTTATAAATTGTTAGTGTTTAGTTTTGTATTTTGTGA
64 GGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
16604223 -TTTTTATTAATGTAATTTTTTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
1 TTTTTTATTAATGTAATTTTTTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
* *
16604287 TTATAAATTGTTAGTGTTTAGTTTATTGTTTTTTGA
66 TTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
16604323 TTTTTTATTAATGTAA
1 TTTTTTATTAATGTAA
16604339 AATTTTTATA
Statistics
Matches: 289, Mismatches: 26, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
100 81 0.28
101 28 0.10
102 73 0.25
103 38 0.13
104 15 0.05
105 54 0.19
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (101 bp):
TTTTTTATTAATGTAATTTTTTTAAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
TTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
Found at i:16604368 original size:202 final size:203
Alignment explanation
Indices: 16603888--16604368 Score: 650
Period size: 202 Copynumber: 2.3 Consensus size: 203
16603878 TTGTTTGTGT
* * * *
16603888 TTAGTGTTTAGTGTTTATGGTTTAATG-TTTTTTATGAATGTAATTTTTTTATAATTATTTTAAA
1 TTAGTGTTTA--GTTTATTGTTTTATGATTTTTTATTAATGTAAATTTTTTATAATTATTTT--A
* * * * * *
16603952 ATTT-TTTTGTTAGTAATTTATGATTATGTTGTAATTTGTTTGTGTTTTAGTTTAGTGTTTTGTG
62 TTTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTAGTTTAGTATTTTGTG
16604016 AATTTTTATTAATGTAATTTTTTTAAAAAAATTATTTTATAGTTATTTTGTTAATAATTTATGAT
127 AATTTTTATTAATGTAATTTTTTT--AAAAATTATTTTATAGTTATTTTGTTAATAATTTATGAT
16604081 TAGGTTATAAATTG
190 TAGGTTATAAATTG
* * * *
16604095 TT-CTGTTTAGTTTAGTGTTTTATGATTTTTTTATTAATGTAAATTTTTTAAAAAATATTTTATA
1 TTAGTGTTTAGTTTATTGTTTTATGA-TTTTTTATTAATGTAAATTTTTT-ATAATTATTTTAT-
* *
16604159 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTG-TTTAGTTTTGTATTTTGTG-
63 TTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTAGTTTAGTATTTTGTGA
*
16604222 ATTTTTATTAATGTAATTTTTTT-AAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAG
128 ATTTTTATTAATGTAATTTTTTTAAAAATTATTTTATAGTTATTTTGTTAATAATTTATGATTAG
16604286 GTTATAAATTG
193 GTTATAAATTG
* *
16604297 TTAGTGTTTAGTTTATTGTTTTTTGATTTTTTATTAATGTAAAATTTTTATAATGTAATTTTATT
1 TTAGTGTTTAGTTTATTGTTTTATGATTTTTTATTAATGTAAATTTTTTATAAT-T-ATTTTATT
16604362 TTATTTT
64 TTATTTT
16604369 TATTTATTTG
Statistics
Matches: 242, Mismatches: 24, Indels: 21
0.84 0.08 0.07
Matches are distributed among these distances:
201 3 0.01
202 83 0.34
203 27 0.11
204 12 0.05
205 24 0.10
206 46 0.19
207 47 0.19
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.59
Consensus pattern (203 bp):
TTAGTGTTTAGTTTATTGTTTTATGATTTTTTATTAATGTAAATTTTTTATAATTATTTTATTTT
ATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTAGTTTAGTATTTTGTGAATT
TTTATTAATGTAATTTTTTTAAAAATTATTTTATAGTTATTTTGTTAATAATTTATGATTAGGTT
ATAAATTG
Found at i:16613327 original size:20 final size:21
Alignment explanation
Indices: 16613292--16613330 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16613282 ACCATTTTCA
*
16613292 AATCGAGTTTTGAAAAATGGG
1 AATCGAGTTTTAAAAAATGGG
16613313 AATCGA-TTTTAAAAAATG
1 AATCGAGTTTTAAAAAATG
16613331 AAAACGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (21 bp):
AATCGAGTTTTAAAAAATGGG
Found at i:16615041 original size:18 final size:17
Alignment explanation
Indices: 16615005--16615137 Score: 185
Period size: 18 Copynumber: 7.5 Consensus size: 17
16614995 AATCATATCT
16615005 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
16615024 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
16615042 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
16615059 TCTAAGATTGTAATCATA
1 TCTAAGATTG-AATCATA
*
16615077 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
16615094 TCTAAGATTGAAATCATA
1 TCTAAGATTG-AATCATA
* *
16615112 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
16615129 TCTAAGATT
1 TCTAAGATT
16615138 ACATATCATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:16615063 original size:35 final size:35
Alignment explanation
Indices: 16615005--16615146 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
16614995 AATCATATCT
16615005 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
16615042 TCTAAGATTGTATCATATCTAAGATTGTAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
16615077 TCTAAGATTGTATCATATCTAAGATTGAAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
16615112 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
16615147 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
35 84 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:16616112 original size:12 final size:12
Alignment explanation
Indices: 16616095--16616119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16616085 CGAGGAGCTG
16616095 AAACTATTGGCT
1 AAACTATTGGCT
16616107 AAACTATTGGCT
1 AAACTATTGGCT
16616119 A
1 A
16616120 TTTAAATAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AAACTATTGGCT
Found at i:16619011 original size:37 final size:37
Alignment explanation
Indices: 16618969--16619043 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16618959 CACCTTTTAC
16618969 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
1 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
16619006 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
1 AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
16619043 A
1 A
16619044 CAAGGATCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (37 bp):
AATAGTAATGATACCGGGTAATGCCTTCTCCTTTGAA
Found at i:16622265 original size:6 final size:6
Alignment explanation
Indices: 16622256--16622284 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16622246 CTCCACCTCT
16622256 ATCTTG ATCTTG ATCTTG ATCTTG ATCTT
1 ATCTTG ATCTTG ATCTTG ATCTTG ATCTT
16622285 TACCTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (6 bp):
ATCTTG
Found at i:16622291 original size:18 final size:18
Alignment explanation
Indices: 16622256--16622291 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16622246 CTCCACCTCT
*
16622256 ATCTTGATCTTGATCTTG
1 ATCTTGATCTTGACCTTG
*
16622274 ATCTTGATCTTTACCTTG
1 ATCTTGATCTTGACCTTG
16622292 TTTTTTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (18 bp):
ATCTTGATCTTGACCTTG
Found at i:16630336 original size:45 final size:45
Alignment explanation
Indices: 16630264--16630430 Score: 158
Period size: 45 Copynumber: 3.7 Consensus size: 45
16630254 GTTTGATTTG
** * *
16630264 TGATGCCATAGTGTCTTTCA-ACTATGGTCTTTCTCAATAGAATTA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTTCTCAATAGAATCA
* * * * ***
16630309 TAATGCCATAATGTCTTTTATTCATGGTCTTAT-TGGCTAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTT-TCTCAATAGAATCA
* * * *
16630354 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCATTTAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTTCTCA-ATAGAATCA
16630400 TGATGCCATAACGTCTTTCAGTCATGGTCTT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTT
16630431 ACTTGTTTCT
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
45 60 0.61
46 39 0.39
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTTCTCAATAGAATCA
Found at i:16630409 original size:46 final size:46
Alignment explanation
Indices: 16630346--16630433 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
16630336 TCTTATTGGC
16630346 TAGAATCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCATT
1 TAGAATCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCATT
* *
16630392 TAGAATCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 TAGAATCATGATGCCATAACATCTTTCAGTCATGGTCTTACT
16630434 TGTTTCTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (46 bp):
TAGAATCATGATGCCATAACATCTTTCAGTCATGGTCTTACTCATT
Found at i:16632797 original size:12 final size:12
Alignment explanation
Indices: 16632780--16632804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16632770 GATGAGCAAG
16632780 TTATTATTTTAA
1 TTATTATTTTAA
16632792 TTATTATTTTAA
1 TTATTATTTTAA
16632804 T
1 T
16632805 GTCTTCAGGA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTTAA
Found at i:16635258 original size:42 final size:46
Alignment explanation
Indices: 16635197--16635449 Score: 269
Period size: 42 Copynumber: 5.6 Consensus size: 46
16635187 TCCTTTTCTT
** *
16635197 GATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACAT-ATC
*
16635239 GATGCCATAGCCCAGCTATGGTCTTACAC-AT--AT-TCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATATC
16635281 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATATC
16635330 GATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACA-AT-ACATATCACATATC
* *
16635378 GATGCCATAGCCCAGCTATGGTCTTACATGAATCACATATCTCACTA--
1 GATGCCATAGCCCAGCTATGGTCTTACA-CAAT-ACATATCACA-TATC
* *
16635425 -ATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
16635450 TACAGTAGCA
Statistics
Matches: 190, Mismatches: 9, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
41 2 0.01
42 63 0.33
45 2 0.01
46 23 0.12
47 1 0.01
48 59 0.31
49 40 0.21
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATATC
Found at i:16635344 original size:91 final size:92
Alignment explanation
Indices: 16635230--16635449 Score: 297
Period size: 97 Copynumber: 2.4 Consensus size: 92
16635220 TTACACATCT
*
16635230 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-AT-AT-TCATATATCGATGCCATAGC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAGC
16635292 CCAGCTATGGTCTTACACGTAATCACATA
65 CCAGCTATGGTCTTACACG-AATCACATA
16635321 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCACATATCGATGCCAT
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACA-AT--CATATCACATATCGATGCCAT
*
16635386 AGCCCAGCTATGGTCTTACATGAATCACATA
62 AGCCCAGCTATGGTCTTACACGAATCACATA
* * *
16635417 TCTCACTA--ATGCCATATCCCAGATATGGTCTTA
1 TCACA-TATGATGCCATAGCCCAGCTATGGTCTTA
16635450 TACAGTAGCA
Statistics
Matches: 116, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
90 2 0.02
91 35 0.30
93 2 0.02
94 23 0.20
96 15 0.13
97 39 0.34
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (92 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAGCC
CAGCTATGGTCTTACACGAATCACATA
Found at i:16635384 original size:48 final size:49
Alignment explanation
Indices: 16635265--16635570 Score: 286
Period size: 48 Copynumber: 6.2 Consensus size: 49
16635255 TATGGTCTTA
*
16635265 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAG-AAT
16635315 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAG-AT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGAAT
*
16635363 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACA-TGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGAAT
* * * * * *
16635411 CACATATCTCACTA---ATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACA-TATCGATGCCATAGCCCAGCTATGGTCTTACACAGAAT
* * * * * * * * *
16635458 CATATATCAC--ACCAATGCCATATCCCAGATATGATCTTATACGGAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGAAT
* * * * *
16635505 CACATAATTATATCTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACACAG-AAT
16635559 CACATATCACAT
1 CACATATCACAT
16635571 GCTGCCATGG
Statistics
Matches: 216, Mismatches: 26, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.00
46 24 0.11
47 45 0.21
48 60 0.28
49 39 0.18
50 7 0.03
51 1 0.00
53 32 0.15
54 7 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAGAAT
Found at i:16645291 original size:2 final size:2
Alignment explanation
Indices: 16645286--16645322 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
16645276 TATGTGAATG
*
16645286 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16645323 GGTATGATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16649618 original size:17 final size:18
Alignment explanation
Indices: 16649596--16649631 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
16649586 TCGAAACCGG
16649596 TCGGTTAACC-AAAAAAA
1 TCGGTTAACCGAAAAAAA
16649613 TCGGTTAACCGAAAAAAA
1 TCGGTTAACCGAAAAAAA
16649631 T
1 T
16649632 TAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAA
Found at i:16649821 original size:7 final size:6
Alignment explanation
Indices: 16649780--16649820 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
16649770 ATAATTTAAT
*
16649780 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
16649821 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:16649821 original size:20 final size:20
Alignment explanation
Indices: 16649783--16649822 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16649773 ATTTAATAAA
**
16649783 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
16649803 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
16649823 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:16649854 original size:9 final size:9
Alignment explanation
Indices: 16649840--16649930 Score: 121
Period size: 9 Copynumber: 10.2 Consensus size: 9
16649830 TTTATACAAA
*
16649840 TAATTCAGT
1 TAATTCGGT
16649849 TAATTCGGT
1 TAATTCGGT
*
16649858 TAA-TCAGT
1 TAATTCGGT
16649866 TAATTCGGT
1 TAATTCGGT
16649875 TAATTCGGT
1 TAATTCGGT
16649884 TAATTCGGT
1 TAATTCGGT
* *
16649893 TAATTTGGG
1 TAATTCGGT
*
16649902 TAATTCGGG
1 TAATTCGGT
*
16649911 TAATTCGAT
1 TAATTCGGT
16649920 TAATTCGGT
1 TAATTCGGT
16649929 TA
1 TA
16649931 GTTTTATACT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
8 7 0.10
9 65 0.90
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:16649866 original size:17 final size:17
Alignment explanation
Indices: 16649844--16649896 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
16649834 TACAAATAAT
16649844 TCAGTTAATTCGGTTAA
1 TCAGTTAATTCGGTTAA
16649861 TCAGTTAATTCGGTTAA
1 TCAGTTAATTCGGTTAA
*
16649878 TTCGGTTAATTCGGTTAA
1 -TCAGTTAATTCGGTTAA
16649896 T
1 T
16649897 TTGGGTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (17 bp):
TCAGTTAATTCGGTTAA
Found at i:16650067 original size:29 final size:29
Alignment explanation
Indices: 16650007--16650067 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
16649997 CGAATTAACC
* *** *
16650007 AAAAAAAATTTGGTTCAGTTAATTTTTTA
1 AAAAAAAATTCGGTTCAGTTAACGGTTAA
*
16650036 AAAAAAAATTCGGTTCGGTTAACGGTTAA
1 AAAAAAAATTCGGTTCAGTTAACGGTTAA
16650065 AAA
1 AAA
16650068 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (29 bp):
AAAAAAAATTCGGTTCAGTTAACGGTTAA
Found at i:16653179 original size:21 final size:21
Alignment explanation
Indices: 16653153--16653194 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16653143 GAACTTGAAT
16653153 ATTCGGTTATATGTGAAGTTA
1 ATTCGGTTATATGTGAAGTTA
16653174 ATTCGGTTATATGTGAAGTTA
1 ATTCGGTTATATGTGAAGTTA
16653195 TCTTATATGT
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:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (21 bp):
ATTCGGTTATATGTGAAGTTA
Found at i:16653202 original size:17 final size:20
Alignment explanation
Indices: 16653153--16653205 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
16653143 GAACTTGAAT
16653153 ATTCGGTTATATGTGAAGTTA
1 ATTC-GTTATATGTGAAGTTA
16653174 ATTCGGTTATATGTGAAGTT-
1 ATTC-GTTATATGTGAAGTTA
16653194 A-TC-TTATATGTG
1 ATTCGTTATATGTG
16653206 CATATTCGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.28
19 2 0.06
20 1 0.03
21 20 0.62
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (20 bp):
ATTCGTTATATGTGAAGTTA
Found at i:16661267 original size:22 final size:22
Alignment explanation
Indices: 16661239--16661283 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16661229 CATGGAGGGC
*
16661239 CCAGATGAGAGAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
16661261 CCAGATGAGAAAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
16661283 C
1 C
16661284 TCAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.20, G:0.20, T:0.04
Consensus pattern (22 bp):
CCAGATGAGAAAAAACAGACAA
Found at i:16666358 original size:79 final size:79
Alignment explanation
Indices: 16666227--16666383 Score: 251
Period size: 79 Copynumber: 2.0 Consensus size: 79
16666217 CTAAAATAAT
* * * *
16666227 CAATTAAGTTATTTCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
1 CAATTAAATTATTCCGTTAATAGAATTCGCGGTTGACCACATTGACCTTTAAAATAAATTAACAA
16666292 ACCAATCATATAGC
66 ACCAATCATATAGC
* *
16666306 CAATTAAATTATTCCGTTAATAGAATTCGCGGTTGACCACATTGACTTTTAAAATAAATTGACAA
1 CAATTAAATTATTCCGTTAATAGAATTCGCGGTTGACCACATTGACCTTTAAAATAAATTAACAA
*
16666371 ACTAATCATATAG
66 ACCAATCATATAG
16666384 TAACATGTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (79 bp):
CAATTAAATTATTCCGTTAATAGAATTCGCGGTTGACCACATTGACCTTTAAAATAAATTAACAA
ACCAATCATATAGC
Found at i:16666538 original size:28 final size:28
Alignment explanation
Indices: 16666481--16666542 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
16666471 AAGAATATTT
16666481 TAAAAAATAATAAAACTAATATAAACTTA
1 TAAAAAATAATAAAACT-ATATAAACTTA
*
16666510 TAAAAAA-AATAAAAACT-TATAAATGTTA
1 TAAAAAATAAT-AAAACTATATAAA-CTTA
16666538 TAAAA
1 TAAAA
16666543 CTATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.20
28 11 0.37
29 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAAAATAATAAAACTATATAAACTTA
Found at i:16666551 original size:18 final size:18
Alignment explanation
Indices: 16666521--16666579 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
16666511 AAAAAAAATA
*
16666521 AAAACT-TATAAATGTTAT
1 AAAACTATA-AAATATTAT
*
16666539 AAAACTATAAAATATTTT
1 AAAACTATAAAATATTAT
* *
16666557 AAAATTAATAAAATATTTT
1 AAAACT-ATAAAATATTAT
16666576 AAAA
1 AAAA
16666580 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.50
19 18 0.50
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAACTATAAAATATTAT
Found at i:16666569 original size:19 final size:19
Alignment explanation
Indices: 16666545--16666581 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16666535 TTATAAAACT
16666545 ATAAAATATTTTAAAATTA
1 ATAAAATATTTTAAAATTA
16666564 ATAAAATATTTTAAAATT
1 ATAAAATATTTTAAAATT
16666582 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAATATTTTAAAATTA
Found at i:16666598 original size:20 final size:20
Alignment explanation
Indices: 16666575--16666676 Score: 52
Period size: 19 Copynumber: 5.2 Consensus size: 20
16666565 TAAAATATTT
16666575 TAAAATTTTATAAAAATGTA
1 TAAAATTTTATAAAAATGTA
* **
16666595 TAAAAATTCT-TAAAAACATA
1 T-AAAATTTTATAAAAATGTA
**
16666615 TAAAATCATA-AAAAAT-TA
1 TAAAATTTTATAAAAATGTA
* * * *
16666633 TAAGAATATT-TGAAATTTTA
1 TAA-AATTTTATAAAAATGTA
* *
16666653 TAAAA-TTGATATAAATGTA
1 TAAAATTTTATAAAAATGTA
16666672 TAAAA
1 TAAAA
16666677 AAAAAATTAT
Statistics
Matches: 60, Mismatches: 16, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
18 6 0.10
19 32 0.53
20 15 0.25
21 7 0.12
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAATTTTATAAAAATGTA
Found at i:16666824 original size:16 final size:17
Alignment explanation
Indices: 16666800--16666841 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
16666790 AAAGTTGAAG
*
16666800 TAATTTTTTTTA-TTTT
1 TAATATTTTTTAGTTTT
16666816 TAATATTTTTTAGTTTT
1 TAATATTTTTTAGTTTT
*
16666833 TAATGTTTT
1 TAATATTTT
16666842 ATTTAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TAATATTTTTTAGTTTT
Found at i:16666826 original size:17 final size:17
Alignment explanation
Indices: 16666800--16666846 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
16666790 AAAGTTGAAG
16666800 TAATTTTTTTTA-TTTT
1 TAATTTTTTTTAGTTTT
*
16666816 TAATATTTTTTAGTTTT
1 TAATTTTTTTTAGTTTT
16666833 TAATGTTTTATTTA
1 TAAT-TTTT-TTTA
16666847 ATTGAACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 3 0.12
19 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
TAATTTTTTTTAGTTTT
Found at i:16666956 original size:10 final size:9
Alignment explanation
Indices: 16666919--16667009 Score: 71
Period size: 9 Copynumber: 9.8 Consensus size: 9
16666909 TCATTGATCC
16666919 AATTTTTAT
1 AATTTTTAT
*
16666928 AATATTTAT
1 AATTTTTAT
*
16666937 AACATTTTAT
1 AA-TTTTTAT
16666947 AATTTGTTAT
1 AATTT-TTAT
16666957 AATTTTTATT
1 AATTTTTA-T
*
16666967 AAGTTTATAT
1 AA-TTTTTAT
16666977 CAA-TTTT-T
1 -AATTTTTAT
16666985 AATTTTTGAT
1 AATTTTT-AT
16666995 -ATTTTTAT
1 AATTTTTAT
*
16667003 ACTTTTT
1 AATTTTT
16667010 TTTAGGTTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
7 2 0.03
8 7 0.11
9 29 0.44
10 21 0.32
11 7 0.11
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:16666963 original size:19 final size:18
Alignment explanation
Indices: 16666919--16666965 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
16666909 TCATTGATCC
16666919 AATTTTTATAATATTTAT
1 AATTTTTATAATATTTAT
* *
16666937 AACATTTTATAATTTGTTAT
1 AA-TTTTTATAATAT-TTAT
16666957 AATTTTTAT
1 AATTTTTAT
16666966 TAAGTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTTATAATATTTAT
Found at i:16666974 original size:38 final size:39
Alignment explanation
Indices: 16666919--16667002 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
16666909 TCATTGATCC
16666919 AATTTTTA-TAATATTTATAAC-ATTTTATAATTTGTT-AT
1 AATTTTTATTAATATTTATAACAATTTT-TAATTT-TTGAT
* *
16666957 AATTTTTATTAA-GTTTATATCAATTTTTAATTTTTGAT
1 AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
16666995 -ATTTTTAT
1 AATTTTTAT
16667003 ACTTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
37 10 0.24
38 23 0.56
39 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (39 bp):
AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
Found at i:16667991 original size:22 final size:24
Alignment explanation
Indices: 16667963--16668006 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
16667953 ATTTTGTTCA
16667963 ACTTTAACTT-TTAT-TCAAAAAT
1 ACTTTAACTTATTATATCAAAAAT
*
16667985 ACTTTAATTTATTATATCAAAA
1 ACTTTAACTTATTATATCAAAA
16668007 TATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (24 bp):
ACTTTAACTTATTATATCAAAAAT
Found at i:16668083 original size:20 final size:18
Alignment explanation
Indices: 16668040--16668214 Score: 58
Period size: 20 Copynumber: 9.4 Consensus size: 18
16668030 TTAACAAAGT
*
16668040 ATAATTTTTAT-TTTTTT
1 ATAATTTTTATATTTTTA
*
16668057 ATTATTTTTATAAGTTTTTA
1 ATAATTTTTAT-A-TTTTTA
16668077 ATAATTTTTATACATGTTTATA
1 ATAATTTTTAT--AT-TTT-TA
*
16668099 A-AATTTTAAATATATTTTA
1 ATAATTTT-TATAT-TTTTA
* ***
16668118 TTAA-TTTTATA-AAAT-
1 ATAATTTTTATATTTTTA
16668133 ATAATTTTTATATTTTT-
1 ATAATTTTTATATTTTTA
* *
16668150 ATAGTATTTATAAGTTTTTA
1 ATAATTTTTAT-A-TTTTTA
* * **
16668170 TTATTTTTTATAAATTTA
1 ATAATTTTTATATTTTTA
* *
16668188 TATCAATCTTAATATTTTTA
1 -AT-AATTTTTATATTTTTA
16668208 AT-ATTTT
1 ATAATTTT
16668215 CAATTATTAA
Statistics
Matches: 114, Mismatches: 29, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
15 3 0.03
16 8 0.07
17 24 0.21
18 8 0.07
19 14 0.12
20 42 0.37
21 10 0.09
22 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
ATAATTTTTATATTTTTA
Found at i:16668144 original size:9 final size:9
Alignment explanation
Indices: 16668039--16668182 Score: 82
Period size: 10 Copynumber: 15.6 Consensus size: 9
16668029 TTTAACAAAG
16668039 TATAATTTT
1 TATAATTTT
*
16668048 TAT-TTTTT
1 TATAATTTT
*
16668056 TATTATTTT
1 TATAATTTT
16668065 TATAAGTTTT
1 TATAA-TTTT
16668075 TAATAATTTT
1 T-ATAATTTT
*
16668085 TATACATGTT
1 TATA-ATTTT
*
16668095 TATAAAATTT
1 TAT-AATTTT
*
16668105 TAAATATATTT
1 TATA-AT-TTT
16668116 TATTAA-TTT
1 TA-TAATTTT
**
16668125 TATAA--AA
1 TATAATTTT
16668132 TATAATTTT
1 TATAATTTT
16668141 TAT-ATTTT
1 TATAATTTT
* *
16668149 TATAGTATT
1 TATAATTTT
16668158 TATAAGTTTT
1 TATAA-TTTT
*
16668168 TATTATTTTT
1 TA-TAATTTT
16668178 TATAA
1 TATAA
16668183 ATTTATATCA
Statistics
Matches: 103, Mismatches: 19, Indels: 26
0.70 0.13 0.18
Matches are distributed among these distances:
7 5 0.05
8 18 0.17
9 32 0.31
10 34 0.33
11 13 0.13
12 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:16668723 original size:75 final size:76
Alignment explanation
Indices: 16668594--16668738 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 76
16668584 ACTATTAAGG
* *
16668594 ACATTAAATTAATAATTAAATATAACGAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
16668659 AATATGTCAAA
66 AATATGTCAAA
* * *
16668670 ACATTAAACTAATAATTTAATATAA-AAAAGTTTTAAATTATTTCATTTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
16668734 AATAT
66 AATAT
16668739 CCAATTATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 41 0.64
76 23 0.36
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (76 bp):
ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
AATATGTCAAA
Found at i:16674851 original size:2 final size:2
Alignment explanation
Indices: 16674846--16674871 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16674836 AAGGAGGAAG
16674846 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
16674872 TTCTTCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16685953 original size:2 final size:2
Alignment explanation
Indices: 16685946--16685977 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16685936 TGACTTACGG
16685946 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
16685978 GGTGGCTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16687168 original size:39 final size:39
Alignment explanation
Indices: 16687113--16687242 Score: 224
Period size: 39 Copynumber: 3.3 Consensus size: 39
16687103 ATGATATTTA
**
16687113 GAAACATATCTGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
16687152 GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
*
16687191 GAAATATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
*
16687230 GAAATATATCCAG
1 GAAACATATCCAG
16687243 GCCTAAAGAC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
Found at i:16687268 original size:40 final size:39
Alignment explanation
Indices: 16687135--16687261 Score: 155
Period size: 39 Copynumber: 3.2 Consensus size: 39
16687125 GACTTGAGGT
* ** **
16687135 CCGCAGGCTACGTGCTGGAAACATATCCAGACTTGAGGT
1 CCGCAGGCTACGTGCTGGAAATATATCCAGACTAAAGAC
** **
16687174 CCGCAGGCTACGTGCTGGAAATATATCCAGACTTGAGGT
1 CCGCAGGCTACGTGCTGGAAATATATCCAGACTAAAGAC
*
16687213 CCGCAGGCTACGTGCTGGAAATATATCCAGGCCTAAAGAC
1 CCGCAGGCTACGTGCTGGAAATATATCCA-GACTAAAGAC
16687253 CCGCAGGCT
1 CCGCAGGCT
16687262 TTGTGCTAGT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 67 0.83
40 14 0.17
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.20
Consensus pattern (39 bp):
CCGCAGGCTACGTGCTGGAAATATATCCAGACTAAAGAC
Found at i:16689408 original size:15 final size:14
Alignment explanation
Indices: 16689382--16689411 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
16689372 ATACAAGTTA
16689382 ATAATAATTAATAT
1 ATAATAATTAATAT
16689396 ATAATATATTAATAT
1 ATAATA-ATTAATAT
16689411 A
1 A
16689412 CTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:16691560 original size:32 final size:32
Alignment explanation
Indices: 16691524--16691585 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
16691514 GGTAATTCCC
* *
16691524 AATTAGTTGTGACAATAATTGGTGCCGAGAAA
1 AATTAGGTCTGACAATAATTGGTGCCGAGAAA
16691556 AATTAGGTCTGACAATAATTGGTGCCGAGA
1 AATTAGGTCTGACAATAATTGGTGCCGAGA
16691586 TTCATCAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.27
Consensus pattern (32 bp):
AATTAGGTCTGACAATAATTGGTGCCGAGAAA
Found at i:16696149 original size:22 final size:22
Alignment explanation
Indices: 16696108--16696153 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
16696098 TGAGCCGATA
*
16696108 AACGGTAAGCTCAATTGAGCTG
1 AACGGTAAGCTCAATAGAGCTG
**
16696130 AACGGTAAGCTCTGTAGAGCTG
1 AACGGTAAGCTCAATAGAGCTG
16696152 AA
1 AA
16696154 ATGGTAAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (22 bp):
AACGGTAAGCTCAATAGAGCTG
Found at i:16702225 original size:33 final size:33
Alignment explanation
Indices: 16702188--16702250 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
16702178 ATACTTACTT
16702188 GTATACTTAATCGTATATGGTGGCTAGAGATCG
1 GTATACTTAATCGTATATGGTGGCTAGAGATCG
* *
16702221 GTATACTTACTCGTATCTGGTGGCTAGAGA
1 GTATACTTAATCGTATATGGTGGCTAGAGA
16702251 CAAACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (33 bp):
GTATACTTAATCGTATATGGTGGCTAGAGATCG
Found at i:16703929 original size:31 final size:30
Alignment explanation
Indices: 16703840--16703944 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 30
16703830 AGTGGAATGT
16703840 ATTAATAAAATATTATCAAGATAAATATTAA
1 ATTAATAAAATA-TATCAAGATAAATATTAA
** * * * * *
16703871 ATTAAATTTAACATCTC-ATATTAATATTGA
1 ATT-AATAAAATATATCAAGATAAATATTAA
16703901 ATTAATAAAATACTATCAAGATAAATATTAA
1 ATTAATAAAATA-TATCAAGATAAATATTAA
*
16703932 ATTTATTAAAATA
1 A-TTAATAAAATA
16703945 ATATTATTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
29 6 0.11
30 16 0.29
31 17 0.31
32 16 0.29
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (30 bp):
ATTAATAAAATATATCAAGATAAATATTAA
Found at i:16715657 original size:18 final size:16
Alignment explanation
Indices: 16715616--16715658 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
16715606 GATTATTAAA
*
16715616 TTATTTAATTAAAAGT
1 TTATTTAATTAAAAAT
16715632 TTATTTAATTAAAAAT
1 TTATTTAATTAAAAAT
16715648 TATGATTTAAT
1 T-T-ATTTAAT
16715659 AACTTATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTATTTAATTAAAAAT
Found at i:16723887 original size:33 final size:32
Alignment explanation
Indices: 16723829--16723892 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
16723819 GAATTGCCAA
16723829 AAACATATATTAGATCATAAAGTCATATTTTCG
1 AAACATATATTAGATCATAAAGTCAT-TTTTCG
*
16723862 AAACATAT-TTCAGATCGA-AATGTCATTTTTC
1 AAACATATATT-AGATC-ATAAAGTCATTTTTC
16723893 ATTATCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.25
33 20 0.71
34 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (32 bp):
AAACATATATTAGATCATAAAGTCATTTTTCG
Found at i:16728910 original size:16 final size:15
Alignment explanation
Indices: 16728886--16728924 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
16728876 TTTTAAGATG
*
16728886 TAAATTGAATTGAAT
1 TAAATTGAATCGAAT
16728901 TAAATATGAATCGAAT
1 TAAAT-TGAATCGAAT
16728917 TAAATTGA
1 TAAATTGA
16728925 GCTAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (15 bp):
TAAATTGAATCGAAT
Found at i:16742795 original size:26 final size:26
Alignment explanation
Indices: 16742759--16742868 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
16742749 TGATACAAAT
16742759 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16742785 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16742811 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16742837 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16742863 TGATAA
1 TGATAA
16742869 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16748948 original size:24 final size:24
Alignment explanation
Indices: 16748921--16748978 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
16748911 CCCTCTCGAG
* * *
16748921 CTTCCCATTATGTGGTTTAGCGAA
1 CTTCCCATTATATGGTTCAACGAA
*
16748945 CTTCCCGTTATATGGTTCAACGAA
1 CTTCCCATTATATGGTTCAACGAA
*
16748969 CTTTCCATTA
1 CTTCCCATTA
16748979 ATAGCTCTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (24 bp):
CTTCCCATTATATGGTTCAACGAA
Found at i:16751481 original size:18 final size:18
Alignment explanation
Indices: 16751460--16751526 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
16751450 AATCGGTTAA
*
16751460 TCAGTAACAATCATTTAT
1 TCAGTAACAGTCATTTAT
* * *
16751478 TCAGTATCAGTCGTTTTT
1 TCAGTAACAGTCATTTAT
*
16751496 TCAGTAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
*
16751514 TCAGTAGCAGTCA
1 TCAGTAACAGTCA
16751527 GTCTTTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Done.