Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 119 of 322
Found at i:38811929 original size:106 final size:106
Alignment explanation
Indices: 38811744--38811942 Score: 310
Period size: 106 Copynumber: 1.9 Consensus size: 106
38811734 TCACCGGCAC
* * * * *
38811744 ACAGCCTGCTAGGCACATTGCTTGAATAATCATCGGCACACAGCTTACTAGGCACATAGCCCGAA
1 ACAGCCTGCTAGGCACATAGCTCGAATAATCATCGACACACAACCTACTAGGCACATAGCCCGAA
38811809 TAATCACCAGCATACAGCCTGCTAGGCACATAGCCCGAATA
66 TAATCACCAGCATACAGCCTGCTAGGCACATAGCCCGAATA
* * *
38811850 ACAGCTTGCTAGGTACATAGCTCGAATAATCA-CTGACACACAACCTGCTAGGCACATAGCCCGA
1 ACAGCCTGCTAGGCACATAGCTCGAATAATCATC-GACACACAACCTACTAGGCACATAGCCCGA
38811914 ATAATCACCAGCATACAGCCTGCTAGGCA
65 ATAATCACCAGCATACAGCCTGCTAGGCA
38811943 TATAATCTGA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 1 0.01
106 83 0.99
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (106 bp):
ACAGCCTGCTAGGCACATAGCTCGAATAATCATCGACACACAACCTACTAGGCACATAGCCCGAA
TAATCACCAGCATACAGCCTGCTAGGCACATAGCCCGAATA
Found at i:38814173 original size:61 final size:61
Alignment explanation
Indices: 38814053--38814173 Score: 147
Period size: 61 Copynumber: 2.0 Consensus size: 61
38814043 ATTTGGTCCT
* * ** *
38814053 AAATATAAAAAAAATTAATAAATTTAGCCCTCAATGTTTATAAAATTTATCATTTTAATTC
1 AAATATAAAAAAAATTAATAAATTTAGCCCTCAATATTTACAAAATTTAAAATTATAATTC
* *
38814114 AAATTTAAAAAATAA-TAATAAATTTAGTCCTCAATATTTACAAAA-TTAGAAATTATAATT
1 AAATATAAAAAA-AATTAATAAATTTAGCCCTCAATATTTACAAAATTTA-AAATTATAATT
38814174 TTTAATAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
60 3 0.06
61 46 0.90
62 2 0.04
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (61 bp):
AAATATAAAAAAAATTAATAAATTTAGCCCTCAATATTTACAAAATTTAAAATTATAATTC
Found at i:38816922 original size:20 final size:21
Alignment explanation
Indices: 38816851--38816922 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
38816841 ATTTAGTCAT
* *
38816851 ATAATA-AA-TTAATAATATA
1 ATAATATAATTTAATATTTTA
*
38816870 ATAAGTATAATTTATTATTTTA
1 ATAA-TATAATTTAATATTTTA
*
38816892 ATAA-ATTATTTAATATTTTA
1 ATAATATAATTTAATATTTTA
38816912 ATAATA-AATTT
1 ATAATATAATTT
38816923 TAAAAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 4 0.09
20 24 0.56
21 3 0.07
22 12 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
ATAATATAATTTAATATTTTA
Found at i:38816924 original size:13 final size:14
Alignment explanation
Indices: 38816906--38816947 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
38816896 ATTATTTAAT
38816906 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
38816919 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
38816934 ATTTTAAATAATAT
1 ATTTT-AATAATAT
38816948 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:38816932 original size:16 final size:16
Alignment explanation
Indices: 38816910--38816946 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38816900 TTTAATATTT
38816910 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
38816927 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
38816942 TAATA
1 TAATA
38816947 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:38818627 original size:22 final size:22
Alignment explanation
Indices: 38818586--38818628 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38818576 TATCTAAATA
*
38818586 ATAATAACAAAATAGTAACAAC
1 ATAATAACAAAATAGCAACAAC
* *
38818608 ATAATAATAAAATGGCAACAA
1 ATAATAACAAAATAGCAACAA
38818629 AACAATGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAATAGCAACAAC
Found at i:38819946 original size:27 final size:27
Alignment explanation
Indices: 38819915--38820019 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
38819905 CTGCCAGAAT
* **
38819915 AGATAATGTGACAGAGTTACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
38819942 AGATAATCGTGGTAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
38819969 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
38819996 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
38820020 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 50 0.76
28 15 0.23
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:38827036 original size:27 final size:26
Alignment explanation
Indices: 38827005--38827090 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
38826995 CTGCCAGAAT
*
38827005 AGATAATATGACAGAGTCACCAGATAC
1 AGATAATATGGCAGAG-CACCAGATAC
*
38827032 AGATAATCGTGGCAGAGCAACCAGA-AC
1 AGATAAT-ATGGCAGAGC-ACCAGATAC
38827059 AGA-AATATGTGGCAGAGCCACCAGAT-C
1 AGATAATA--TGGCAGAG-CACCAGATAC
38827086 AGATA
1 AGATA
38827091 GTTGTCACCA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
26 3 0.06
27 31 0.63
28 15 0.31
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (26 bp):
AGATAATATGGCAGAGCACCAGATAC
Found at i:38827529 original size:8 final size:8
Alignment explanation
Indices: 38827518--38827546 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
38827508 AAAATACCAA
38827518 CTTTTCGG
1 CTTTTCGG
38827526 CTTTTCGG
1 CTTTTCGG
38827534 CTTTTCGG
1 CTTTTCGG
38827542 CTTTT
1 CTTTT
38827547 ACCGATCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.55
Consensus pattern (8 bp):
CTTTTCGG
Found at i:38828465 original size:24 final size:24
Alignment explanation
Indices: 38828438--38828512 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
38828428 CTAGATTTCC
**
38828438 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
38828462 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
38828486 CCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
38828510 TCC
1 TCC
38828513 TGACAGACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.40, G:0.01, T:0.33
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:38843837 original size:19 final size:19
Alignment explanation
Indices: 38843813--38843857 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38843803 TTAAATTTAA
*
38843813 TTTAATT-TTATATTAATTT
1 TTTAATTATT-TATTAACTT
38843832 TTTAATTATTTATTAACTT
1 TTTAATTATTTATTAACTT
*
38843851 ATTAATT
1 TTTAATT
38843858 GATTCATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATTATTTATTAACTT
Found at i:38845776 original size:21 final size:21
Alignment explanation
Indices: 38845751--38845800 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
38845741 TGTAATTGAT
*
38845751 TATTTTTACA-TTATTTTTATA
1 TATTTTTA-ATTTACTTTTATA
38845772 TATTTTTTAATTTACTTTTATA
1 TA-TTTTTAATTTACTTTTATA
38845794 -ATTTTTA
1 TATTTTTA
38845801 TAATATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 16 0.62
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTAATTTACTTTTATA
Found at i:38850364 original size:26 final size:26
Alignment explanation
Indices: 38850310--38850366 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
38850300 TCAACTCTCA
*
38850310 TTTTTAATTAAATTTGTATTAAGGGT
1 TTTTTAATTAAATTTGTATTAAGAGT
* *
38850336 TTTTTAATT-AATATTGTATTATGATT
1 TTTTTAATTAAAT-TTGTATTAAGAGT
38850362 TTTTT
1 TTTTT
38850367 GTATTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (26 bp):
TTTTTAATTAAATTTGTATTAAGAGT
Found at i:38851346 original size:52 final size:52
Alignment explanation
Indices: 38851265--38851368 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
38851255 ATAGTTTGAG
* *
38851265 TTATTTGAGTTATTCAGATTAACTTGAATAAAAAAATCAAACTTTTCGGTTT
1 TTATTTAAGTTATTCAGATTAACTCGAATAAAAAAATCAAACTTTTCGGTTT
38851317 TTATTTAAGTTATTCAGATTAACTCGAATAAAAAAATCAAACTTTTCGGTTT
1 TTATTTAAGTTATTCAGATTAACTCGAATAAAAAAATCAAACTTTTCGGTTT
38851369 AACTCGAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (52 bp):
TTATTTAAGTTATTCAGATTAACTCGAATAAAAAAATCAAACTTTTCGGTTT
Found at i:38851500 original size:70 final size:70
Alignment explanation
Indices: 38851426--38851593 Score: 293
Period size: 70 Copynumber: 2.4 Consensus size: 70
38851416 AAAAAAAGGT
*
38851426 AAAACTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAGTCAAAACC-ATTAAGTTA
1 AAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTC-AAACCTATTAAGTTA
38851490 AAAGAC
65 AAAGAC
38851496 AAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATTAAGTTAA
1 AAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATTAAGTTAA
*
38851561 AAGGC
66 AAGAC
*
38851566 AAAACTACGTCATTTTGATAAATGTTTA
1 AAAACTACGTCGTTTTGATAAATGTTTA
38851594 ATCATTAAGT
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
69 5 0.05
70 89 0.95
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (70 bp):
AAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATTAAGTTAA
AAGAC
Found at i:38855995 original size:39 final size:39
Alignment explanation
Indices: 38855952--38856027 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
38855942 CAGACTTATT
38855952 GTTACAAAATTTTGACATAAAATAGCCATTTTCTATGTG
1 GTTACAAAATTTTGACATAAAATAGCCATTTTCTATGTG
38855991 GTTACAAAATTTTGACATAAAATAGCCATTTTCTATG
1 GTTACAAAATTTTGACATAAAATAGCCATTTTCTATG
38856028 AAAACTCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (39 bp):
GTTACAAAATTTTGACATAAAATAGCCATTTTCTATGTG
Found at i:38856285 original size:26 final size:27
Alignment explanation
Indices: 38856247--38856307 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
38856237 AAAAACTAAT
*
38856247 AGGAAAATGAAATATTACCTTAGTTGA
1 AGGAGAATGAAATATTACCTTAGTTGA
38856274 AGGAGAAT-AAATATTACCTTAGTTGA
1 AGGAGAATGAAATATTACCTTAGTTGA
38856300 AGGAGAAT
1 AGGAGAAT
38856308 CAAACATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (27 bp):
AGGAGAATGAAATATTACCTTAGTTGA
Found at i:38856977 original size:87 final size:87
Alignment explanation
Indices: 38856876--38857048 Score: 265
Period size: 87 Copynumber: 2.0 Consensus size: 87
38856866 AAACTTCTAA
* * *
38856876 GTCAAATTATAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTTAGAGAATTTTC
1 GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
38856941 TCTCTACAACTTTCTCTTGAAG
66 TCTCTACAACTTTCTCTTGAAG
* * * **
38856963 GTCAAGTTAAAAATAAGAAAAGTATTTCTAGAAATTTTTTAAAATAATTTCTTCAAAGAATTTTC
1 GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
*
38857028 TCTCTATAACTTTCTCTTGAA
66 TCTCTACAACTTTCTCTTGAA
38857049 TTCAAGTGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (87 bp):
GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
TCTCTACAACTTTCTCTTGAAG
Found at i:38857172 original size:32 final size:32
Alignment explanation
Indices: 38857136--38857256 Score: 84
Period size: 32 Copynumber: 3.6 Consensus size: 32
38857126 TAATCACTTG
38857136 AATATTAAATTAATATAATACTTATCAAGATA
1 AATATTAAATTAATATAATACTTATCAAGATA
* * * * *
38857168 AATATTAGATTAAATTTAATA-TTAAGACAATCACTTT
1 AATATTAAATT-AATATAATACTT-A-TCAA-GA--TA
* *
38857205 AATATTAAATTAAAAAAATAC-TATCAAGATA
1 AATATTAAATTAATATAATACTTATCAAGATA
* *
38857236 AGTATTAAATTTAATTTAATA
1 AATATTAAA-TTAATATAATA
38857257 TTAAAACTAT
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
31 9 0.14
32 20 0.31
33 10 0.15
34 6 0.09
35 2 0.03
36 7 0.11
37 11 0.17
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (32 bp):
AATATTAAATTAATATAATACTTATCAAGATA
Found at i:38857258 original size:68 final size:69
Alignment explanation
Indices: 38857127--38857260 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 69
38857117 AATTAAACTT
* * *
38857127 AATCACTTGAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTA
1 AATCACTTGAATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTA
38857192 AGAC
66 AGAC
* * *
38857196 AATCACTTTAATATTAAATTAAAAAAATAC-TATCAAGATAAGTATTAAATTTAATTTAATATTA
1 AATCACTTGAATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTA
38857260 A
66 A
38857261 AACTATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
68 32 0.54
69 27 0.46
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (69 bp):
AATCACTTGAATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTA
AGAC
Found at i:38857276 original size:68 final size:69
Alignment explanation
Indices: 38857136--38857279 Score: 182
Period size: 68 Copynumber: 2.1 Consensus size: 69
38857126 TAATCACTTG
* * * *
38857136 AATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAGACAATCA
1 AATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATCA
***
38857201 CTTT
66 AAAT
* * * *
38857205 AATATTAAATTAAAAAAATAC-TATCAAGATAAGTATTAAATTTAATTTAATATTAAAACTATTA
1 AATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATCA
38857269 AAAT
66 AAAT
38857273 AATATTA
1 AATATTA
38857280 TTTTTGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
68 45 0.70
69 19 0.30
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (69 bp):
AATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATCA
AAAT
Found at i:38868785 original size:19 final size:20
Alignment explanation
Indices: 38868763--38868800 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38868753 AAAAAAAACT
38868763 AAACTC-CAAAAACCCTTAC
1 AAACTCTCAAAAACCCTTAC
*
38868782 AAACTCTTAAAAACCCTTA
1 AAACTCTCAAAAACCCTTA
38868801 AACTCTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACTCTCAAAAACCCTTAC
Found at i:38868805 original size:18 final size:19
Alignment explanation
Indices: 38868770--38868806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38868760 ACTAAACTCC
38868770 AAAAACCCTTACAAACTCTT
1 AAAAACCCTTA-AAACTCTT
38868790 AAAAACCCTT-AAACTCT
1 AAAAACCCTTAAAACTCT
38868807 AACCCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAACCCTTAAAACTCTT
Found at i:38869838 original size:13 final size:14
Alignment explanation
Indices: 38869807--38869839 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38869797 AATGCTTTTG
38869807 TAAAATTATAAACA
1 TAAAATTATAAACA
*
38869821 TAAAATTA-AAATA
1 TAAAATTATAAACA
38869834 TAAAAT
1 TAAAAT
38869840 AAGATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATTATAAACA
Found at i:38869862 original size:6 final size:6
Alignment explanation
Indices: 38869848--38869880 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
38869838 ATAAGATTGA
*
38869848 ATAAGT ATAAAT ATAAAT ATAAAT ATAAAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATA
38869881 TTAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:38888869 original size:295 final size:295
Alignment explanation
Indices: 38888339--38890113 Score: 3550
Period size: 295 Copynumber: 6.0 Consensus size: 295
38888329 TTCATAATAT
38888339 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38888404 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38888469 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38888534 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38888599 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38888634 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38888699 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38888764 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38888829 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38888894 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38888929 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38888994 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38889059 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38889124 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38889189 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38889224 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38889289 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38889354 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38889419 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38889484 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38889519 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38889584 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38889649 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38889714 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38889779 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38889814 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
1 TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
38889879 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
66 GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
38889944 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
131 GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
38890009 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
196 TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
38890074 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
261 TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
38890109 TTCTT
1 TTCTT
38890114 ATGGCCTCTT
Statistics
Matches: 1480, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 1480 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (295 bp):
TTCTTCAAATGGAGAGCATTCCATGTTCGTGGTAGAATAGGGGGCCCCATTTTTGCTAGTTTGTA
GGCTCCATAATCTATCTTTTCTATTACATTGTAGGGTCTTTCCTAGTTTGAAACCATCTTTCCTT
GTTGCGACGCGTGAAGGATAGATTTAGCATTCCTAAGAACAAGATCACCCACCTGAAACCACTTT
TTTTTAACTTTAGAATTATCATAACGAGCCACTTGTTGATTTCGTGCAATAACTTTAACTTCTAT
TGTTTCCCTAACTTCATCAATAAGATCCAAGTTGA
Found at i:38898638 original size:37 final size:37
Alignment explanation
Indices: 38898588--38898666 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38898578 TTATTACGAA
* * *
38898588 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38898625 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38898662 GTCTT
1 GTCTT
38898667 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38898872 original size:47 final size:47
Alignment explanation
Indices: 38898796--38899166 Score: 634
Period size: 47 Copynumber: 7.9 Consensus size: 47
38898786 TTATCAATTT
* * * * * * *
38898796 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
38898843 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
38898890 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
38898937 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
38898984 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
38899031 TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
* *
38899080 TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
38899127 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
38899167 CTATTCAGCA
Statistics
Matches: 312, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 265 0.85
49 47 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:38902467 original size:40 final size:40
Alignment explanation
Indices: 38902422--38902657 Score: 212
Period size: 40 Copynumber: 5.9 Consensus size: 40
38902412 CGAATACACG
* * * *
38902422 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
38902462 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
38902502 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
38902542 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
38902582 GTAACTC-GCACCAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
38902623 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
38902658 CATCATTCGA
Statistics
Matches: 160, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.02
40 139 0.87
41 18 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:38902643 original size:120 final size:120
Alignment explanation
Indices: 38902422--38902657 Score: 270
Period size: 120 Copynumber: 2.0 Consensus size: 120
38902412 CGAATACACG
* * *
38902422 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGGA
*
38902487 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
* * * *
38902542 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTC-
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACCAATGCTCTTCG
* *
38902603 GGATCTTAGTC-CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
63 GGAT-TTAG-CACGGATAT-ATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
38902658 CATCATTCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
119 3 0.03
120 65 0.66
121 18 0.18
122 9 0.09
123 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGGA
TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
Found at i:38903002 original size:29 final size:29
Alignment explanation
Indices: 38902963--38903041 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38902953 CTTAATAATC
*
38902963 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38902993 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38903022 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38903042 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38903084 original size:43 final size:43
Alignment explanation
Indices: 38903023--38903125 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
38903013 TGCATTTCAA
38903023 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38903066 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38903109 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38903126 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38905041 original size:37 final size:37
Alignment explanation
Indices: 38904991--38905069 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38904981 TTATTACGAA
* * *
38904991 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38905028 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38905065 GTCTT
1 GTCTT
38905070 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38905295 original size:49 final size:49
Alignment explanation
Indices: 38905190--38905318 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
38905180 CTTCGGGACT
* * * *
38905190 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
38905237 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
38905286 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
38905319 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:38917517 original size:23 final size:23
Alignment explanation
Indices: 38917474--38917517 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
38917464 CATCATAATA
*
38917474 TCATCTATTTCATATCACAAAAC
1 TCATCTATATCATATCACAAAAC
*
38917497 TCATC-ATATCATCATCTCAAA
1 TCATCTATATCAT-ATCACAAA
38917518 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (23 bp):
TCATCTATATCATATCACAAAAC
Found at i:38934186 original size:28 final size:29
Alignment explanation
Indices: 38934132--38934186 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
38934122 ACAGGGGTTT
* *
38934132 TCACACGGCCTTGCACACGCCCGTGTCCC
1 TCACACGGCCATGCACACGCCCATGTCCC
38934161 TCACACGGCCATG-ACACGCCCATGTC
1 TCACACGGCCATGCACACGCCCATGTC
38934187 TCAGTCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.16
Consensus pattern (29 bp):
TCACACGGCCATGCACACGCCCATGTCCC
Found at i:38935464 original size:48 final size:48
Alignment explanation
Indices: 38935390--38935757 Score: 389
Period size: 48 Copynumber: 7.7 Consensus size: 48
38935380 TAAATTTCCA
* * * * *
38935390 ATGCCATATCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * * * * *
38935438 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTTAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * *
38935486 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * *
38935534 ATGCCATATCCCAGACATGGTCTTACATTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * * * *
38935582 ATACCATGTCCCAGACATGGACTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * *
38935630 ATGCCATGTCCCAGGCATGGTCTTACACTAG-TACACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATGTCAAGGCCG
* * ** * *
38935678 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTTATAAT-ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCAAGGCCG
38935726 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
38935758 ACATATATCA
Statistics
Matches: 264, Mismatches: 53, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.00
48 260 0.98
49 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
Found at i:38935650 original size:144 final size:144
Alignment explanation
Indices: 38935390--38935757 Score: 492
Period size: 144 Copynumber: 2.6 Consensus size: 144
38935380 TAAATTTCCA
* *
38935390 ATGCCATATCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * *
38935455 TGGTTTTACACTAGCTCTCGTCTTAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT-
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TA
* * *
38935519 CACATGTCGA-GGTCG
130 CACATATCAACGCT-G
* *
38935534 ATGCCATATCCCAGACATGGTCTTACATTGGCTCACATGTCGAGGCCGATACCATGTCCCAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * *
38935599 TGGACTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGGCATGGTCTTACACTAGTAC
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGTAC
38935664 ACATATCAACGCTG
131 ACATATCAACGCTG
* * ** ** *
38935678 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTTATAAT--ATGGCCGATGCCATGTCCCAGA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACAT-GTCGA-GGCCGATGCCATGTCCCAGA
38935741 CATGGTCTTACACTAGC
64 CATGGTCTTACACTAGC
38935758 ACATATATCA
Statistics
Matches: 197, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
143 2 0.01
144 192 0.97
145 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (144 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGTAC
ACATATCAACGCTG
Found at i:38937444 original size:46 final size:43
Alignment explanation
Indices: 38937401--38937485 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
38937391 GTGGCGTTTA
38937401 TTGGGAAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
1 TTGGGAAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
** *
38937444 TTGGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 TTGGGAAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
38937486 CTTTTTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (43 bp):
TTGGGAAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
Found at i:38943557 original size:9 final size:9
Alignment explanation
Indices: 38943543--38943810 Score: 148
Period size: 9 Copynumber: 28.6 Consensus size: 9
38943533 TATTTAAGTA
38943543 TTATGTAAG
1 TTATGTAAG
38943552 TTATGTAAG
1 TTATGTAAG
*
38943561 TTATGATATG
1 TTATG-TAAG
* * *
38943571 ATATAT-AT
1 TTATGTAAG
*
38943579 TTATGTAAA
1 TTATGTAAG
* *
38943588 TTATAT-AT
1 TTATGTAAG
*
38943596 TTATCTAAG
1 TTATGTAAG
*
38943605 TTATATAAG
1 TTATGTAAG
38943614 TTATGTAAG
1 TTATGTAAG
*
38943623 TTATGTAAA
1 TTATGTAAG
*
38943632 TTATGATATAAAA
1 TTATG---T-AAG
*
38943645 TATATTTAAG
1 T-TATGTAAG
38943655 TATTATGTAAG
1 --TTATGTAAG
38943666 TTATGTAAG
1 TTATGTAAG
* *
38943675 TTATAT-AT
1 TTATGTAAG
*
38943683 TTATCTAAG
1 TTATGTAAG
*
38943692 TTATATAAG
1 TTATGTAAG
*
38943701 TTATGTACG
1 TTATGTAAG
*
38943710 TTTTGTAAG
1 TTATGTAAG
*
38943719 TTATGATATAAAA
1 TTATG---T-AAG
*
38943732 TATATTTAAG
1 T-TATGTAAG
38943742 TATTATGTAAG
1 --TTATGTAAG
38943753 TTATGTAAG
1 TTATGTAAG
* *
38943762 TTATAT-AT
1 TTATGTAAG
*
38943770 TTATCTAAG
1 TTATGTAAG
*
38943779 TTATATAAG
1 TTATGTAAG
38943788 TTATGTAAG
1 TTATGTAAG
*
38943797 TTATGTAAA
1 TTATGTAAG
38943806 TTATG
1 TTATG
38943811 ATATAAAATA
Statistics
Matches: 201, Mismatches: 39, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
8 22 0.11
9 136 0.68
10 10 0.05
11 16 0.08
12 4 0.02
13 7 0.03
14 6 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38943625 original size:71 final size:69
Alignment explanation
Indices: 38943543--38943705 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
38943533 TATTTAAGTA
* * * *
38943543 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
38943607 ATATAAG
64 ATAT-AG
* * *
38943614 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
38943679 ATAT
66 ATAG
* *
38943683 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
38943706 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:38943681 original size:87 final size:87
Alignment explanation
Indices: 38943579--38943839 Score: 463
Period size: 87 Copynumber: 3.0 Consensus size: 87
38943569 TGATATATAT
*
38943579 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
38943644 ATATATTTAAGTATTATGTAAG
66 ATATATTTAAGTATTATGTAAG
* * *
38943666 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
38943731 ATATATTTAAGTATTATGTAAG
66 ATATATTTAAGTATTATGTAAG
38943753 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
*
38943818 ATATA--TATGTATTATGTAAG
66 ATATATTTAAGTATTATGTAAG
38943838 TT
1 TT
38943840 TTTTATTTCA
Statistics
Matches: 166, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
85 16 0.10
87 150 0.90
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATTTAAGTATTATGTAAG
Found at i:38943933 original size:15 final size:15
Alignment explanation
Indices: 38943913--38943942 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38943903 AAGTAGCAGG
38943913 ATTAAATAATATTTA
1 ATTAAATAATATTTA
38943928 ATTAAATAATATTTA
1 ATTAAATAATATTTA
38943943 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:38944326 original size:71 final size:71
Alignment explanation
Indices: 38944242--38944591 Score: 691
Period size: 71 Copynumber: 4.9 Consensus size: 71
38944232 TTTAAATATT
*
38944242 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
38944307 AATAAA
66 AATAAA
38944313 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
38944378 AATAAA
66 AATAAA
38944384 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
38944449 AATAAA
66 AATAAA
38944455 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
38944520 AATAAA
66 AATAAA
38944526 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
38944591 A
66 A
38944592 GTTTAATTTT
Statistics
Matches: 278, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 278 1.00
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (71 bp):
AAAATCAAACATTATTAATATAAAAAAATAGTAATTTAAATATAATAATATAAAAAAAGAATCGT
AATAAA
Found at i:38945078 original size:15 final size:15
Alignment explanation
Indices: 38945058--38945086 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38945048 AGAATTTTGA
38945058 AATAAAACGTACCTT
1 AATAAAACGTACCTT
38945073 AATAAAACGTACCT
1 AATAAAACGTACCT
38945087 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:38945595 original size:183 final size:183
Alignment explanation
Indices: 38945287--38945655 Score: 693
Period size: 183 Copynumber: 2.0 Consensus size: 183
38945277 CCTAGAACAG
38945287 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
38945352 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
38945417 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
38945470 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
38945535 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
38945600 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
38945653 ATG
1 ATG
38945656 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:38948605 original size:15 final size:15
Alignment explanation
Indices: 38948585--38948633 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
38948575 GGTAAAAATT
38948585 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
38948600 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
38948611 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
38948626 TTGGGGGA
1 TTGGGGGA
38948634 AATCGGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 2 0.07
14 5 0.18
15 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.53, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:38948615 original size:26 final size:26
Alignment explanation
Indices: 38948584--38948636 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38948574 GGGTAAAAAT
38948584 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
38948610 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
38948636 T
1 T
38948637 CGGGGAAATT
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:0.30, C:0.00, G:0.49, T:0.21
Consensus pattern (26 bp):
TTTGGGGGAGAAGAAGTTGGGGGAAA
Found at i:38948946 original size:28 final size:27
Alignment explanation
Indices: 38948914--38948983 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
38948904 AATCAAAACT
*
38948914 CTATACCTTAAACCATTAAACTATATCC
1 CTATACCTTAAACC-CTAAACTATATCC
* *
38948942 CTATAACCTTAATCCCTAAAGTATATCC
1 CTAT-ACCTTAAACCCTAAACTATATCC
*
38948970 CTTAAACCTTAAAC
1 C-TATACCTTAAAC
38948984 TATATCCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.39, C:0.29, G:0.01, T:0.31
Consensus pattern (27 bp):
CTATACCTTAAACCCTAAACTATATCC
Found at i:38948972 original size:21 final size:21
Alignment explanation
Indices: 38948948--38948991 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38948938 ATCCCTATAA
* *
38948948 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
*
38948969 CCTTAAACCTTAAACTATATC
1 CCTTAAACCCTAAACTATATC
38948990 CC
1 CC
38948992 CTAACCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:38949002 original size:20 final size:21
Alignment explanation
Indices: 38948958--38949003 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38948948 CCTTAATCCC
* * *
38948958 TAAAGTATATCCCTTAAACCT
1 TAAACTATATCCCCTAAACCA
38948979 TAAACTATATCCCCT-AACCA
1 TAAACTATATCCCCTAAACCA
38948999 TAAAC
1 TAAAC
38949004 CACAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAACTATATCCCCTAAACCA
Found at i:38949224 original size:7 final size:7
Alignment explanation
Indices: 38949212--38949245 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
38949202 CCCTAAGTAT
38949212 TAACCCC
1 TAACCCC
38949219 TAACCCC
1 TAACCCC
38949226 TAACCCC
1 TAACCCC
*
38949233 TAACCCA
1 TAACCCC
38949240 TAACCC
1 TAACCC
38949246 TTAAATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:38949396 original size:41 final size:41
Alignment explanation
Indices: 38949351--38949816 Score: 691
Period size: 41 Copynumber: 11.4 Consensus size: 41
38949341 AACCCTAAAC
* *
38949351 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* * * *
38949392 TTTTTAGCGACGTTTTACCAAAAGCGCCCCTAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
38949433 TTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
38949474 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* * * *
38949515 TTTTTAGCGACGTTTTACCAAAAGCGCCCCTAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
38949556 TTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
38949597 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* * * *
38949638 TTTTTAGCGACGTTTTACCAAAAGCGCCCCTAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
38949679 TTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
38949720 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
38949761 TTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGCTCTG-
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
38949801 CTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
38949817 TGGTAAAACG
Statistics
Matches: 377, Mismatches: 48, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
40 14 0.04
41 363 0.96
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
Found at i:38949570 original size:123 final size:123
Alignment explanation
Indices: 38949351--38949788 Score: 876
Period size: 123 Copynumber: 3.6 Consensus size: 123
38949341 AACCCTAAAC
38949351 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
1 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
38949416 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
66 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
38949474 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
1 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
38949539 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
66 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
38949597 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
1 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
38949662 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
66 CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
38949720 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
1 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
38949785 CGCC
66 CGCC
38949789 GCTATTGCTC
Statistics
Matches: 315, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 315 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (123 bp):
TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGACGTTTTACCAAAAG
CGCCCCTAATACTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGA
Found at i:38949886 original size:12 final size:12
Alignment explanation
Indices: 38949871--38949896 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38949861 GTTTTTTGAG
38949871 AAAACGCCGCTA
1 AAAACGCCGCTA
38949883 AAAACGCCGCTA
1 AAAACGCCGCTA
38949895 AA
1 AA
38949897 TACCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:38950193 original size:22 final size:22
Alignment explanation
Indices: 38950160--38950202 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38950150 TATATTGTTC
38950160 AATTCTAATTTGAATTCTTGGT
1 AATTCTAATTTGAATTCTTGGT
*
38950182 AATT-TAAGTTTGATTTCTTGG
1 AATTCTAA-TTTGAATTCTTGG
38950203 ACATAACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (22 bp):
AATTCTAATTTGAATTCTTGGT
Found at i:38952697 original size:16 final size:16
Alignment explanation
Indices: 38952678--38952709 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38952668 AAGAAAATAT
38952678 TTTTTTTAAAATTTAA
1 TTTTTTTAAAATTTAA
*
38952694 TTTTTTTAAATTTTAA
1 TTTTTTTAAAATTTAA
38952710 AAATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTTTAAAATTTAA
Found at i:38953977 original size:29 final size:29
Alignment explanation
Indices: 38953945--38954029 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
38953935 ATGTTTAATA
*
38953945 TGGTACTTCTACTTTGAAAATGTCCAACG
1 TGGTACTTCTAATTTGAAAATGTCCAACG
* * *
38953974 TGGTACTTGTAATTTGGAAATGTCCAATG
1 TGGTACTTCTAATTTGAAAATGTCCAACG
*
38954003 TAGTA-TTCGTAATTT-AGAAATGTCCAA
1 TGGTACTTC-TAATTTGA-AAATGTCCAA
38954030 TGTGATAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (29 bp):
TGGTACTTCTAATTTGAAAATGTCCAACG
Found at i:38954030 original size:29 final size:29
Alignment explanation
Indices: 38953962--38954032 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
38953952 TCTACTTTGA
* * *
38953962 AAATGTCCAACGTGGTACTTGTAATTTGG
1 AAATGTCCAATGTAGTACTTGTAATTTAG
38953991 AAATGTCCAATGTAGTA-TTCGTAATTTAG
1 AAATGTCCAATGTAGTACTT-GTAATTTAG
38954020 AAATGTCCAATGT
1 AAATGTCCAATGT
38954033 GATAACTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (29 bp):
AAATGTCCAATGTAGTACTTGTAATTTAG
Found at i:38954370 original size:19 final size:19
Alignment explanation
Indices: 38954316--38954370 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
38954306 AAAAATAGAT
38954316 TTTTTATATATTTTAA-TAA
1 TTTTTATAT-TTTTAATTAA
* * **
38954335 TTTTAAAATTTAAAATTAA
1 TTTTTATATTTTTAATTAA
38954354 TTTTTATATTTTTAATT
1 TTTTTATATTTTTAATT
38954371 TTAAACATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATATTTTTAATTAA
Found at i:38971684 original size:69 final size:69
Alignment explanation
Indices: 38971573--38971710 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
38971563 CTTTCCCGGG
* *
38971573 TGATAGTCAATGACAAGCTCATAGTCTTTTAACAACTCGAGCCAACGTCTTTGTCACAAATTTAA
1 TGATAGTCAATGACAAGCTCATAATCTGTTAACAACTCGAGCCAACGTCTTTGTCACAAATTTAA
38971638 ATCT
66 ATCT
*
38971642 TGATAGTCAATGACAAGCTCATAATCTGTTAACAACTCGAGCCAACGTCTTTGTCGCAAATTTAA
1 TGATAGTCAATGACAAGCTCATAATCTGTTAACAACTCGAGCCAACGTCTTTGTCACAAATTTAA
38971707 ATCT
66 ATCT
38971711 CTTTGAGTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (69 bp):
TGATAGTCAATGACAAGCTCATAATCTGTTAACAACTCGAGCCAACGTCTTTGTCACAAATTTAA
ATCT
Found at i:38975755 original size:40 final size:40
Alignment explanation
Indices: 38975623--38975748 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 40
38975613 AACCCAAGTA
* * *
38975623 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
38975662 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
38975702 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
38975742 CCTTCGG
1 CCTTCGG
38975749 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 13 0.17
40 64 0.83
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:38977068 original size:13 final size:13
Alignment explanation
Indices: 38977045--38977078 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
38977035 TTATTTTATT
38977045 ATTTCTAACACAAA
1 ATTT-TAACACAAA
38977059 ATTTTAACACAAA
1 ATTTTAACACAAA
38977072 ATGTTTA
1 AT-TTTA
38977079 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:38983887 original size:40 final size:40
Alignment explanation
Indices: 38983595--38983880 Score: 486
Period size: 40 Copynumber: 7.2 Consensus size: 40
38983585 AACCCAAGTA
* * * *
38983595 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATC-ACTAGCACAAATG
38983634 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
38983674 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
38983714 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
38983754 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
38983794 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
* * *
38983834 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
38983874 CCTTCGG
1 CCTTCGG
38983881 ATCTTAGTCC
Statistics
Matches: 238, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.05
40 223 0.94
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
Found at i:38984557 original size:13 final size:13
Alignment explanation
Indices: 38984534--38984567 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
38984524 TTATTTTATT
38984534 ATTTCTAACACAAA
1 ATTT-TAACACAAA
38984548 ATTTTAACACAAA
1 ATTTTAACACAAA
38984561 ATGTTTA
1 AT-TTTA
38984568 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:38987332 original size:93 final size:93
Alignment explanation
Indices: 38987225--38987583 Score: 666
Period size: 93 Copynumber: 3.9 Consensus size: 93
38987215 CGCCCATAAG
* *
38987225 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGA-CGCTCGCATCCATAAGTGAACTCGGACTCAACTC
38987289 AACAAGCTCGGATGCCTAGTTACATCTCA
65 AACAAGCTCGGATGCCTAGTTACATCTCA
38987318 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
38987383 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
38987411 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
38987476 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
38987504 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
38987569 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
38987584 CAAATATCCC
Statistics
Matches: 261, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
93 259 0.99
94 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:38987337 original size:47 final size:47
Alignment explanation
Indices: 38987272--38987533 Score: 288
Period size: 47 Copynumber: 5.6 Consensus size: 47
38987262 ATCCATAAGT
38987272 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
38987319 GAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT-C-TCA-C
38987365 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
38987412 GAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT-C-TCA-C
38987458 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
* *
38987505 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACAAGCTCGGA
38987534 CGCTCGCATC
Statistics
Matches: 175, Mismatches: 26, Indels: 28
0.76 0.11 0.12
Matches are distributed among these distances:
43 6 0.03
44 2 0.01
45 4 0.02
46 62 0.35
47 89 0.51
48 4 0.02
49 2 0.01
50 6 0.03
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
Found at i:38987574 original size:46 final size:46
Alignment explanation
Indices: 38987218--38987579 Score: 348
Period size: 46 Copynumber: 7.8 Consensus size: 46
38987208 TGTAACCCGC
*
38987218 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCAT
* * * *
38987264 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
38987314 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
38987357 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
38987407 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
38987450 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
38987500 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
38987543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
38987580 TGCCCAAATA
Statistics
Matches: 257, Mismatches: 37, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
43 9 0.04
44 3 0.01
45 6 0.02
46 127 0.49
47 94 0.37
48 6 0.02
49 3 0.01
50 9 0.04
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:38989955 original size:15 final size:14
Alignment explanation
Indices: 38989930--38989999 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 14
38989920 GTATCGTATC
*
38989930 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
38989944 TATGGATTTCTTTAT
1 T-TGGATTTCTTTAT
38989959 TCTAGG-TTT-TTCTAT
1 T-T-GGATTTCTT-TAT
38989974 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
* *
38989989 TCGGTTTTCTT
1 TTGGATTTCTT
38990000 GTTATCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
14 14 0.30
15 27 0.59
16 5 0.11
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.61
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:38990360 original size:14 final size:14
Alignment explanation
Indices: 38990341--38990368 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38990331 TAACTAGAAG
38990341 AAAGGATTATTTTT
1 AAAGGATTATTTTT
38990355 AAAGGATTATTTTT
1 AAAGGATTATTTTT
38990369 GAGGTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
AAAGGATTATTTTT
Found at i:38997239 original size:18 final size:17
Alignment explanation
Indices: 38997216--38997262 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
38997206 TCAAAATGAC
38997216 AACTTATAAAAGTTCTA
1 AACTTATAAAAGTTCTA
* *
38997233 GAACTTATAAAAATTTTA
1 -AACTTATAAAAGTTCTA
*
38997251 AACTTTTAAAAG
1 AACTTATAAAAG
38997263 GCTACACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AACTTATAAAAGTTCTA
Found at i:38997538 original size:64 final size:64
Alignment explanation
Indices: 38997437--38997564 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
38997427 ATATTTTAGT
* * *
38997437 AGGTTAGTAGGCCTTTGGAAGGCCCAAACTTAAGTTAAATCCGTGGTAGTCTTCGGAATTTTAA
1 AGGTTAGTAGGCCTTTGGAAGGCCCAAACTTAAGTTAAAACCATGGTAGTCCTCGGAATTTTAA
* *
38997501 AGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCCTCGGAATTTTAA
1 AGGTTAGTAGGCCTTTGGAAGGCCCAAACTTAAGTTAAAACCATGGTAGTCCTCGGAATTTTAA
38997565 TTTTATGAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
AGGTTAGTAGGCCTTTGGAAGGCCCAAACTTAAGTTAAAACCATGGTAGTCCTCGGAATTTTAA
Found at i:39005072 original size:71 final size:71
Alignment explanation
Indices: 39004956--39005103 Score: 287
Period size: 71 Copynumber: 2.1 Consensus size: 71
39004946 TAAAATATAT
39004956 ATTTTAGTAGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCCTCGGA
1 ATTTTAGTAGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCCTCGGA
39005021 ATTTTA
66 ATTTTA
*
39005027 ATTTTAGTAGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCTTCGGA
1 ATTTTAGTAGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCCTCGGA
39005092 ATTTTA
66 ATTTTA
39005098 ATTTTA
1 ATTTTA
39005104 TGAACAGGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTAGTAGGTTAGTGGGCCTTTGGAAGGCCTAAACTTAAGTTAAAACCATGGTAGTCCTCGGA
ATTTTA
Found at i:39006519 original size:26 final size:27
Alignment explanation
Indices: 39006489--39006548 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
39006479 CCACATATAT
*
39006489 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
39006515 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
39006542 ATATCTG
1 ATATCTG
39006549 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:39017392 original size:47 final size:47
Alignment explanation
Indices: 39017339--39017492 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
39017329 ACAAGATATG
*
39017339 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
39017386 TATATGTGATAAGGCCGAATGGAAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
39017433 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
39017480 TATATGTGATAAG
1 TATATGTGATAAG
39017493 TCCCGAAGGA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:39021422 original size:38 final size:38
Alignment explanation
Indices: 39021338--39021528 Score: 238
Period size: 38 Copynumber: 4.9 Consensus size: 38
39021328 GAATCCAGTC
* * * * *
39021338 ACCAGCACAAAGCTTGCGGAACTTTAAGCCCGAATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
*
39021378 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
39021416 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* **
39021454 ACCAGCACGAAACCTGCGGGATTTAACCCAAATATATGTT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA--TT
** *
39021494 ACCAGCACGAAGCCTGCGAAACTTAACCCGGATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
39021529 GTATCAAGTG
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 80 0.60
39 5 0.04
40 49 0.37
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:39021527 original size:78 final size:76
Alignment explanation
Indices: 39021338--39021528 Score: 247
Period size: 78 Copynumber: 2.5 Consensus size: 76
39021328 GAATCCAGTC
* * * * *
39021338 ACCAGCACAAAGCTTGCGGAACTTTAAGCCCGAATATAGTACCAGCACTAAGCCTGCGGGATTTA
1 ACCAGCACGAAGCCTGCGGAAC-TTAA-CCCGGATATAGTACCAGCACGAAACCTGCGGGATTTA
**
39021403 ACCCGGATATATT
64 ACCCAAATATATT
* * *
39021416 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAACCTGCGGGATTTAAC
1 ACCAGCACGAAGCCTGCGGAACTTAACCCGGATATAGTACCAGCACGAAACCTGCGGGATTTAAC
39021481 CCAAATATATGTT
66 CCAAATATA--TT
*
39021494 ACCAGCACGAAGCCTGCGAAACTTAACCCGGATAT
1 ACCAGCACGAAGCCTGCGGAACTTAACCCGGATAT
39021529 GTATCAAGTG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
76 42 0.43
77 4 0.04
78 52 0.53
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (76 bp):
ACCAGCACGAAGCCTGCGGAACTTAACCCGGATATAGTACCAGCACGAAACCTGCGGGATTTAAC
CCAAATATATT
Found at i:39029086 original size:38 final size:38
Alignment explanation
Indices: 39029034--39029191 Score: 253
Period size: 38 Copynumber: 4.1 Consensus size: 38
39029024 TTAAGCTTGT
* * *
39029034 ATATAGTACTAGCACTAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
39029072 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
39029110 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
39029148 ATATATGTTACCAGCACGAAGCCTGCGGGACTTAACCCGG
1 ATATA--TTACCAGCACGAAGCCTGCGGGATTTAACCCAG
39029188 ATAT
1 ATAT
39029192 GTATCAAGTG
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 78 0.69
40 35 0.31
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:39030117 original size:86 final size:86
Alignment explanation
Indices: 39030007--39030178 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
39029997 TATACATCAA
*
39030007 CTATCAAAAATTCCCACTCTTTAGCCATTGTCGAATGCTTATATAAGTCTTGAGTCATCTTTAAC
1 CTATCAAAAATTCCCACTCCTTAGCCATTGTCGAATGCTTATATAAGTCTTGAGTCATCTTTAAC
39030072 ACATTTATCAATCTCCCAATT
66 ACATTTATCAATCTCCCAATT
* *
39030093 CTATCAAAAATTCCCACTCCTTAGCTATTTTCGAATGCTTATATAAGTCTTGAGTCATCTTTAAC
1 CTATCAAAAATTCCCACTCCTTAGCCATTGTCGAATGCTTATATAAGTCTTGAGTCATCTTTAAC
39030158 ACATTTATCAATCTCCCAATT
66 ACATTTATCAATCTCCCAATT
39030179 TAACTTAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (86 bp):
CTATCAAAAATTCCCACTCCTTAGCCATTGTCGAATGCTTATATAAGTCTTGAGTCATCTTTAAC
ACATTTATCAATCTCCCAATT
Found at i:39031594 original size:43 final size:43
Alignment explanation
Indices: 39031546--39032044 Score: 944
Period size: 43 Copynumber: 11.6 Consensus size: 43
39031536 CCGGCATTAC
*
39031546 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGGACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
39031589 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
39031632 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
39031675 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031718 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031761 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031804 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031847 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031890 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39031933 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
39031976 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39032019 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
39032045 TAATACCAGC
Statistics
Matches: 451, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 451 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:39032090 original size:38 final size:38
Alignment explanation
Indices: 39032037--39032160 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
39032027 GGCACGAAGG
* * * *
39032037 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* *
39032075 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
** * *
39032113 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA
39032152 GCCCGGATA
1 -CCCGGATA
39032161 CACATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 61 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:39042898 original size:18 final size:18
Alignment explanation
Indices: 39042875--39042914 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
39042865 GTCAGTCAAT
39042875 AGTAATAATCGA-TTAATC
1 AGTAATAATC-ATTTAATC
*
39042893 AGTAATATTCATTTAATC
1 AGTAATAATCATTTAATC
39042911 AGTA
1 AGTA
39042915 TCAGTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (18 bp):
AGTAATAATCATTTAATC
Found at i:39043469 original size:3 final size:3
Alignment explanation
Indices: 39043461--39043487 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39043451 ATTCAATACC
39043461 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
39043488 CTTATCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39051628 original size:13 final size:14
Alignment explanation
Indices: 39051593--39051628 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
39051583 TGACTTTCAT
39051593 ATGCTCTTTTGTAC
1 ATGCTCTTTTGTAC
39051607 ATGCTCTTTTGTAC
1 ATGCTCTTTTGTAC
39051621 AT-CTCTTT
1 ATGCTCTTT
39051629 CAAAAACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.53
Consensus pattern (14 bp):
ATGCTCTTTTGTAC
Found at i:39061866 original size:79 final size:79
Alignment explanation
Indices: 39061734--39061889 Score: 285
Period size: 79 Copynumber: 2.0 Consensus size: 79
39061724 ATGCATTTGA
39061734 TCACGGGTACCTTTTCTATTCACGATATAACTATTCCCGCTTTAATTGACCCGAGATCTAGCCAC
1 TCACGGGTACCTTTTCTATTCACGATATAACTATTCCCGCTTTAATTGACCCGAGATCTAGCCAC
39061799 TCTTCTATATGTCC
66 TCTTCTATATGTCC
* * *
39061813 TCACGGGTACCTTTTCTATTCACGATATAACTATTCTCGCTTTAATTGGCCCGAGATCTAGTCAC
1 TCACGGGTACCTTTTCTATTCACGATATAACTATTCCCGCTTTAATTGACCCGAGATCTAGCCAC
39061878 TCTTCTATATGT
66 TCTTCTATATGT
39061890 ATGCATTTGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (79 bp):
TCACGGGTACCTTTTCTATTCACGATATAACTATTCCCGCTTTAATTGACCCGAGATCTAGCCAC
TCTTCTATATGTCC
Found at i:39066587 original size:44 final size:43
Alignment explanation
Indices: 39066396--39066709 Score: 353
Period size: 45 Copynumber: 7.0 Consensus size: 43
39066386 GGATGAATAC
* *
39066396 AGAGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGACAT
1 AGAGATAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT
39066439 AGAGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGAGATAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
*
39066484 AGAGATAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 AGAGATAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
* *
39066529 AGAGATAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-T
1 AGAGATAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT
* * * *
39066571 AAGAGTTGTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCAT
1 -AGAGAT-AGCCAGTGTAAGACATGTCTGGGACATGCATC-G---GCAT
* *
39066620 ATAGGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAC
1 AGA-GA-TAGCCAGTGTAAGACATGTCTGGGACATGCATCGG---C-AT
* *
39066668 AGAGATAGCCAGTGTAAGACGTGTCTGGGACATGCATTGGCA
1 AGAGATAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCA
39066710 ATATATCCCA
Statistics
Matches: 235, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.00
43 33 0.14
44 53 0.23
45 73 0.31
46 1 0.00
47 35 0.15
48 36 0.15
49 2 0.01
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.21
Consensus pattern (43 bp):
AGAGATAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT
Found at i:39067850 original size:11 final size:10
Alignment explanation
Indices: 39067825--39067851 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39067815 TACATTAGAA
39067825 TAAAAATTAG
1 TAAAAATTAG
39067835 TAAAAATTAG
1 TAAAAATTAG
39067845 TAAAAAT
1 TAAAAAT
39067852 GGCTAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
TAAAAATTAG
Found at i:39086091 original size:42 final size:42
Alignment explanation
Indices: 39085982--39086148 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
39085972 CGATATGTGT
* * *
39085982 TTTCGTGTAAGACCACGT-TCAGGACGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTCT-GGGACATTGGCATCGTA-TT-TGA
*
39086025 TTTACGTGTAAGACCATGTATGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
* * * * *
39086068 TTTTGTGTAAGACCTTGTCTGGGAAAGTGGCTTCGATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGA
* * * * *
39086111 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
39086149 GAGCTTACTG
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 29 0.29
45 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
Found at i:39107981 original size:21 final size:21
Alignment explanation
Indices: 39107957--39107996 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39107947 TTTCTGAATC
* *
39107957 GAGTCAAGTGAAATGAAATTT
1 GAGTCAAGTCAAATCAAATTT
*
39107978 GAGTCGAGTCAAATCAAAT
1 GAGTCAAGTCAAATCAAAT
39107997 CAAGAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (21 bp):
GAGTCAAGTCAAATCAAATTT
Found at i:39110128 original size:24 final size:24
Alignment explanation
Indices: 39110072--39110214 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
39110062 GAGGAAGTGC
39110072 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39110096 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39110119 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39110143 AAAAGGGCTTATGCCACAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
39110167 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39110191 AAAAGAGG-TTAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39110215 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.71
25 9 0.08
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39113385 original size:21 final size:21
Alignment explanation
Indices: 39113359--39113405 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
39113349 CGACAAAGGT
*
39113359 ACATGGTCGTGTGGCTGAGAG
1 ACATGGTCGTGTGGCTAAGAG
*
39113380 ACATGGTCGTGTGGCTAAGAT
1 ACATGGTCGTGTGGCTAAGAG
39113401 ACATG
1 ACATG
39113406 TACGAATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (21 bp):
ACATGGTCGTGTGGCTAAGAG
Found at i:39114224 original size:20 final size:18
Alignment explanation
Indices: 39114177--39114283 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 18
39114167 CAAGATAAAC
39114177 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
39114194 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
39114214 ATTAAATTAATTAAATACT
1 ATTAAATTAA-TATTTAAT
*
39114233 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
*
39114252 -TTAATTTAATATTTAATT
1 ATTAAATTAATATTTAA-T
*
39114270 ATTAAAATAATATT
1 ATTAAATTAATATT
39114284 ATATTTGGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
17 14 0.21
18 9 0.13
19 28 0.41
20 16 0.24
21 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:39119120 original size:176 final size:176
Alignment explanation
Indices: 39118820--39119164 Score: 681
Period size: 176 Copynumber: 2.0 Consensus size: 176
39118810 AGCATTTCAT
39118820 ACTTACCAAGTTGTTCACATAATTTGCATATTACCAAATAATAATTCACAAAACATAATATTTCA
1 ACTTACCAAGTTGTTCACATAATTTGCATATTACCAAATAATAATTCACAAAACATAATATTTCA
39118885 TGATAATAAGTATCATATCATATAAATATCATTAAATCAATTAATATAAAAATTATGTTACCTTA
66 TGATAATAAGTATCATATCATATAAATATCATTAAATCAATTAATATAAAAATTATGTTACCTTA
39118950 TTTACACATACCTAGATACGAAATTTTAGCAATCGAGCCATCTCAC
131 TTTACACATACCTAGATACGAAATTTTAGCAATCGAGCCATCTCAC
*
39118996 ACTTATCAAGTTGTTCACATAATTTGCATATTACCAAATAATAATTCACAAAACATAATATTTCA
1 ACTTACCAAGTTGTTCACATAATTTGCATATTACCAAATAATAATTCACAAAACATAATATTTCA
39119061 TGATAATAAGTATCATATCATATAAATATCATTAAATCAATTAATATAAAAATTATGTTACCTTA
66 TGATAATAAGTATCATATCATATAAATATCATTAAATCAATTAATATAAAAATTATGTTACCTTA
39119126 TTTACACATACCTAGATACGAAATTTTAGCAATCGAGCC
131 TTTACACATACCTAGATACGAAATTTTAGCAATCGAGCC
39119165 TATTCCCCAT
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 168 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.34
Consensus pattern (176 bp):
ACTTACCAAGTTGTTCACATAATTTGCATATTACCAAATAATAATTCACAAAACATAATATTTCA
TGATAATAAGTATCATATCATATAAATATCATTAAATCAATTAATATAAAAATTATGTTACCTTA
TTTACACATACCTAGATACGAAATTTTAGCAATCGAGCCATCTCAC
Found at i:39147536 original size:35 final size:35
Alignment explanation
Indices: 39147490--39147700 Score: 305
Period size: 35 Copynumber: 6.0 Consensus size: 35
39147480 TACTCTCTTT
* * *
39147490 TTGGCGTGTTTCGATTGGAATAGCTCTTATGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
*
39147525 TTGGCATGTTTCGGTTGGACTAGCTCTTATTAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
39147560 TTGGCATGTTTCGATTGGACTAGCTCTTTTGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
* * *
39147595 TTGGCGTATTTTGGTTGGACTAGCTCTTATGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
39147630 TTGGCATGTTTTGGTTGGACTAGCTCTTGTGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
39147665 TTGGCATGTTTCGGTTGGACTAGCTTTTGTGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
39147700 T
1 T
39147701 CTGGTGTGTT
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 159 1.00
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (35 bp):
TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:39147620 original size:105 final size:105
Alignment explanation
Indices: 39147490--39147714 Score: 344
Period size: 105 Copynumber: 2.1 Consensus size: 105
39147480 TACTCTCTTT
* *
39147490 TTGGCGTGTTTCGATTGGAATAGCTCTTATGAGCATTGGCATGTTTCGGTTGGACTAGCTCTTAT
1 TTGGCGTGTTTTGGTTGGAATAGCTCTTATGAGCATTGGCATGTTTCGGTTGGACTAGCTCTTAT
*
39147555 TAGCATTGGCATGTTTCGATTGGACTAGCTCTTT-TGAGCA
66 GAGCATTGGCATGTTTCGATTGGACTAGCT-TTTGTGAGCA
* * * *
39147595 TTGGCGTATTTTGGTTGGACTAGCTCTTATGAGCATTGGCATGTTTTGGTTGGACTAGCTCTTGT
1 TTGGCGTGTTTTGGTTGGAATAGCTCTTATGAGCATTGGCATGTTTCGGTTGGACTAGCTCTTAT
*
39147660 GAGCATTGGCATGTTTCGGTTGGACTAGCTTTTGTGAGCA
66 GAGCATTGGCATGTTTCGATTGGACTAGCTTTTGTGAGCA
*
39147700 TCTGGTGTGTTTTGG
1 T-TGGCGTGTTTTGG
39147715 AGGGATTGGC
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
104 3 0.03
105 94 0.87
106 11 0.10
ACGTcount: A:0.16, C:0.15, G:0.29, T:0.40
Consensus pattern (105 bp):
TTGGCGTGTTTTGGTTGGAATAGCTCTTATGAGCATTGGCATGTTTCGGTTGGACTAGCTCTTAT
GAGCATTGGCATGTTTCGATTGGACTAGCTTTTGTGAGCA
Found at i:39147732 original size:36 final size:36
Alignment explanation
Indices: 39147692--39147782 Score: 146
Period size: 36 Copynumber: 2.5 Consensus size: 36
39147682 GACTAGCTTT
39147692 TGTGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCA
1 TGTGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCA
* * *
39147728 TGTGAGCATTTGGTGTGTTTTGGAGGGATTGGTTCG
1 TGTGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCA
*
39147764 TATGAGCATCTGGTGTGTT
1 TGTGAGCATCTGGTGTGTT
39147783 ATGGTTGGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.13, C:0.09, G:0.38, T:0.40
Consensus pattern (36 bp):
TGTGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCA
Found at i:39151839 original size:19 final size:19
Alignment explanation
Indices: 39151803--39151841 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
39151793 TTAAAAGCCC
39151803 CATGGTATCGATATTTTTA
1 CATGGTATCGATATTTTTA
*
39151822 CATGAGTATTGATATTTTTA
1 CATG-GTATCGATATTTTTA
39151842 TAAAAGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (19 bp):
CATGGTATCGATATTTTTA
Found at i:39151849 original size:20 final size:20
Alignment explanation
Indices: 39151807--39151860 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
39151797 AAGCCCCATG
**
39151807 GTATCGATATTTTTACATGA
1 GTATCGATATTTTTACAAAA
* *
39151827 GTATTGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
*
39151847 GTATCGGTATTTTT
1 GTATCGATATTTTT
39151861 CAGTTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:39153618 original size:59 final size:59
Alignment explanation
Indices: 39153526--39153646 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
39153516 ACAAGTGTAG
39153526 CCTTATTCCTCACTATGCTACCATTCTCATCTAGTTTGTTCCTAAAAACTCATTTAGTA
1 CCTTATTCCTCACTATGCTACCATTCTCATCTAGTTTGTTCCTAAAAACTCATTTAGTA
*
39153585 CCTTATTCCTCACTATGTTACCATTCTCATCTAGTTTGTTCCTAAAAACTCATTTAGTA
1 CCTTATTCCTCACTATGCTACCATTCTCATCTAGTTTGTTCCTAAAAACTCATTTAGTA
39153644 CCT
1 CCT
39153647 ATAGTAGATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.07, T:0.41
Consensus pattern (59 bp):
CCTTATTCCTCACTATGCTACCATTCTCATCTAGTTTGTTCCTAAAAACTCATTTAGTA
Found at i:39154413 original size:12 final size:12
Alignment explanation
Indices: 39154396--39154425 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39154386 AGCCACACGC
39154396 CCGTGTGCTAGA
1 CCGTGTGCTAGA
*
39154408 CCGTGTGCTAGG
1 CCGTGTGCTAGA
39154420 CCGTGT
1 CCGTGT
39154426 AACAACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGA
Found at i:39156131 original size:26 final size:26
Alignment explanation
Indices: 39156095--39156148 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
39156085 CACTTAGTGC
39156095 ATTAATGATTAGCCAAAGATGTTACA
1 ATTAATGATTAGCCAAAGATGTTACA
*
39156121 ATTAATGATTAGCCAAAGCTGTTACA
1 ATTAATGATTAGCCAAAGATGTTACA
39156147 AT
1 AT
39156149 CTCGCACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (26 bp):
ATTAATGATTAGCCAAAGATGTTACA
Found at i:39157661 original size:30 final size:30
Alignment explanation
Indices: 39157625--39157792 Score: 126
Period size: 30 Copynumber: 5.6 Consensus size: 30
39157615 GTTTGATACC
* *
39157625 ATCCCTTTCCATAATTCGATAGCCAAAGCT
1 ATCCCTTTCCATAATTTGATAGCCGAAGCT
**
39157655 ATCCCTTTCCA-AGATTCAATAGCCGAAGCT
1 ATCCCTTTCCATA-ATTTGATAGCCGAAGCT
* * **** *
39157685 ATCCTTTTTCC-TAATTTTGATGGTTTTCA-CC
1 ATCC-CTTTCCATAA-TTTGATAG-CCGAAGCT
* * *
39157716 ATCCCTTTTCATAATTTGATTGCCGGAGCT
1 ATCCCTTTCCATAATTTGATAGCCGAAGCT
* *
39157746 ATCCCTTTTCATGATTTGATAGCCGAAGCT
1 ATCCCTTTCCATAATTTGATAGCCGAAGCT
*
39157776 ATCCCTTTTCATAATTT
1 ATCCCTTTCCATAATTT
39157793 TCATGGTCAT
Statistics
Matches: 108, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
29 2 0.02
30 86 0.80
31 19 0.18
32 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
ATCCCTTTCCATAATTTGATAGCCGAAGCT
Found at i:39157825 original size:91 final size:91
Alignment explanation
Indices: 39157622--39157878 Score: 275
Period size: 91 Copynumber: 2.8 Consensus size: 91
39157612 GATGTTTGAT
* * * * **
39157622 ACCATCCCTTTCCATAATTCGATAGCCAAAGCTATCCCTTTCCAAGATTCAATAGCCGAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGATTTGATAGCCGAAGCTAT
* * **
39157687 CCTTTTTCCTAATTTTGATGGTTTTC
66 CCTTTTTCATAATTTTCATGGTCATC
* * *
39157713 ACCATCCCTTTTCATAATTTGATTGCCGGAGCTATCCCTTTTCATGATTTGATAGCCGAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGATTTGATAGCCGAAGCTAT
*
39157778 CCCTTTTCATAATTTTCATGGTCATC
66 CCTTTTTCATAATTTTCATGGTCATC
** * * * * * **
39157804 ACCATCCCTTTCCATTGTTTGATGGTCGTCA-CCATCCCTTTTCAT-AGTTTGATAGTCGAAATT
1 ACCATCCCTTTCCATAATTTGATAGCCG-AAGCTATCCCTTTTCATGA-TTTGATAGCCGAAGCT
39157867 ATCCTTTTTCAT
64 ATCCTTTTTCAT
39157879 TAGTCAATGA
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
90 1 0.01
91 137 0.99
92 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (91 bp):
ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGATTTGATAGCCGAAGCTAT
CCTTTTTCATAATTTTCATGGTCATC
Found at i:39157836 original size:30 final size:30
Alignment explanation
Indices: 39157776--39157861 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
39157766 AGCCGAAGCT
* * * *
39157776 ATCCCTTTTCATAATTTTCATGGTCATCACC
1 ATCCCTTTCCAT-AGTTTGATGGTCGTCACC
*
39157807 ATCCCTTTCCATTGTTTGATGGTCGTCACC
1 ATCCCTTTCCATAGTTTGATGGTCGTCACC
* *
39157837 ATCCCTTTTCATAGTTTGATAGTCG
1 ATCCCTTTCCATAGTTTGATGGTCG
39157862 AAATTATCCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 36 0.77
31 11 0.23
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.42
Consensus pattern (30 bp):
ATCCCTTTCCATAGTTTGATGGTCGTCACC
Found at i:39160338 original size:24 final size:24
Alignment explanation
Indices: 39160311--39160356 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
39160301 TTTATATTTG
*
39160311 AATTATT-AATTATATATTTTATCC
1 AATTATTAAATT-TAAATTTTATCC
39160335 AATTATTAAATTTAAATTTTAT
1 AATTATTAAATTTAAATTTTAT
39160357 AAATTTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTATTAAATTTAAATTTTATCC
Found at i:39160845 original size:23 final size:22
Alignment explanation
Indices: 39160814--39160866 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 22
39160804 CTAAGCTAAA
*
39160814 TAACTTAATTCAACTCAAACAAAT
1 TAAC-TAATTCAACTC-AACAAAC
39160838 TAACTAATTCAACTCAACAAAC
1 TAACTAATTCAACTCAACAAAC
39160860 TAACTAA
1 TAACTAA
39160867 CTAGCCCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 13 0.46
23 11 0.39
24 4 0.14
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (22 bp):
TAACTAATTCAACTCAACAAAC
Found at i:39163426 original size:40 final size:39
Alignment explanation
Indices: 39163341--39163426 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
39163331 TAACAACTTA
**
39163341 TCGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAACT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACT
* * * * *
39163380 TTGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAACT
39163420 TCGGCTA
1 TCGGCTA
39163427 TATATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACT
Found at i:39168314 original size:47 final size:47
Alignment explanation
Indices: 39168248--39170474 Score: 4247
Period size: 47 Copynumber: 47.1 Consensus size: 47
39168238 GAAATGATAG
39168248 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168295 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168342 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168389 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168436 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168483 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168530 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39168577 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168624 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39168671 CAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168718 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168765 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168812 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168859 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168906 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39168953 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169000 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169047 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169094 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169141 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169188 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169235 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169282 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169329 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169378 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169427 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169476 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169525 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169574 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169623 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169670 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
39169719 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169766 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169813 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169860 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169907 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39169954 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170001 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170048 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170095 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170142 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170189 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170236 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170283 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170330 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170377 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
39170424 CAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39170471 TAAG
1 TAAG
39170475 TCCCGAAGGG
Statistics
Matches: 2164, Mismatches: 12, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
47 1825 0.84
49 339 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39170649 original size:37 final size:37
Alignment explanation
Indices: 39170593--39170671 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39170583 CCGAGCTCTA
* * *
39170593 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39170630 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39170667 AAGAC
1 AAGAC
39170672 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39172585 original size:43 final size:43
Alignment explanation
Indices: 39172537--39172639 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
39172527 TTGGTTTTCA
39172537 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
39172580 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
39172623 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
39172640 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:39172656 original size:29 final size:29
Alignment explanation
Indices: 39172621--39172694 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39172611 GTTGTGAGAT
* *
39172621 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39172650 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39172679 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39172695 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39173130 original size:40 final size:40
Alignment explanation
Indices: 39173007--39173282 Score: 353
Period size: 40 Copynumber: 6.9 Consensus size: 40
39172997 TCGAATGATG
** *
39173007 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
39173047 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
39173087 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
39173127 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
39173167 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39173207 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39173247 TCCGTGCTAAGTCCCGAAGAGCATTCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39173283 CGTGTATTCG
Statistics
Matches: 210, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.00
40 190 0.90
41 19 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:39176651 original size:47 final size:47
Alignment explanation
Indices: 39176582--39176993 Score: 734
Period size: 47 Copynumber: 8.8 Consensus size: 47
39176572 NNNNNNNGCT
39176582 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176629 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176676 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176723 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176770 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176817 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
39176864 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * ***
39176911 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGGGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * * *
39176958 AACGTGGTGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39176994 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 353 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:39177168 original size:37 final size:37
Alignment explanation
Indices: 39177112--39177190 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39177102 CCGAGCTCTA
* * *
39177112 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39177149 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39177186 AAGAC
1 AAGAC
39177191 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39181262 original size:31 final size:31
Alignment explanation
Indices: 39181218--39181286 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
39181208 TTTTAAGAAT
* * * * *
39181218 GCCACACGGCCACAGTCTGTCACACGGCTTA
1 GCCACACGACCACAATCTATCACACAGCCTA
* *
39181249 GCCACACTACCACAATCTATCACATAGCCTA
1 GCCACACGACCACAATCTATCACACAGCCTA
39181280 GCCACAC
1 GCCACAC
39181287 AGTTGTGTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.41, G:0.14, T:0.16
Consensus pattern (31 bp):
GCCACACGACCACAATCTATCACACAGCCTA
Found at i:39184795 original size:6 final size:6
Alignment explanation
Indices: 39184784--39184819 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
39184774 AAAATTATAA
39184784 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
39184820 GAAATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:39186967 original size:20 final size:20
Alignment explanation
Indices: 39186916--39186967 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
39186906 TTATGCCACA
39186916 TCAGTATTTTTATCCTGAATT
1 TCAGTA-TTTTATCCTGAATT
* *
39186937 TCAGGAGTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
39186957 TCAGTATTTTA
1 TCAGTATTTTA
39186968 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:39196383 original size:20 final size:21
Alignment explanation
Indices: 39196360--39196400 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
39196350 AATTGATTAT
39196360 TATTGAA-TGGTATT-GAATGA
1 TATTGAATTGG-ATTGGAATGA
39196380 TATTGAATTGGATTGGAATGA
1 TATTGAATTGGATTGGAATGA
39196401 AAAAGGAAAT
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:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (21 bp):
TATTGAATTGGATTGGAATGA
Found at i:39205673 original size:63 final size:63
Alignment explanation
Indices: 39205565--39205701 Score: 157
Period size: 63 Copynumber: 2.2 Consensus size: 63
39205555 CCAGGCCGTA
* * * * ** *
39205565 TAACTCACTGACTTTGTATTAGAGTCACACAAGCATGACACACGGGCGTGTGTTTAAGTCATG
1 TAACTCACTGACTTCGTATTAGAGTCACACAAGCAAGACAAACGGGCGTATGTCCAAGCCATG
*** * * *
39205628 TAACTCACTGACTTCGTATTAGAGTCACATGGGTAAGACAAACGGGCTTATGTCCAAGCCGTG
1 TAACTCACTGACTTCGTATTAGAGTCACACAAGCAAGACAAACGGGCGTATGTCCAAGCCATG
39205691 TAACTCACTGA
1 TAACTCACTGA
39205702 TTTTAGATTT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (63 bp):
TAACTCACTGACTTCGTATTAGAGTCACACAAGCAAGACAAACGGGCGTATGTCCAAGCCATG
Found at i:39209928 original size:39 final size:39
Alignment explanation
Indices: 39209871--39209977 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
39209861 CGGGACTTTA
* *
39209871 AGCCCGAATATAATACCAGCACGAATGCCTTCGGAGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGAGCTT
* *
39209910 AGCCCGGATATAACACCAGCACGAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGAGCTT
* * *
39209949 AGCCCAGATATAACACTAGCACAAATGCC
1 AGCCCGGATATAACACCAGCACGAATGCC
39209978 CGGATATAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGAGCTT
Done.