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 144 of 322
Found at i:47182755 original size:22 final size:22
Alignment explanation
Indices: 47182638--47182752 Score: 96
Period size: 18 Copynumber: 5.8 Consensus size: 22
47182628 ATAATCTTCA
47182638 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
47182657 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
47182676 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
47182694 ATGAT-TGCAATC---GTAGAT
1 ATGATATGCAATCTTAGAAGAT
47182712 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
47182734 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
47182753 GATTTAATTT
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
18 34 0.40
19 31 0.36
22 9 0.10
23 12 0.14
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:47183044 original size:18 final size:17
Alignment explanation
Indices: 47183021--47183054 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47183011 TTTCCCAGAC
*
47183021 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
47183039 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
47183055 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:47192927 original size:27 final size:27
Alignment explanation
Indices: 47192897--47193020 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
47192887 TAAATTGTAC
*
47192897 AGCACTAAGTGTGTGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47192924 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
*
47192952 AGCACTAAGTGTGCG-ATATGATTATGT
1 AGCACTAAGTGTGCGAAT-TGACTATGT
** * *
47192979 AGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47193006 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47193021 GACTTAATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.01
27 60 0.70
28 25 0.29
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47192961 original size:55 final size:54
Alignment explanation
Indices: 47192897--47193020 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 54
47192887 TAAATTGTAC
* * *
47192897 AGCACTAAGTGTGTGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGATA-TGACTATGTAGCACTAAGTGTGCGAG-CTGACTATAT
* *
47192952 AGCACTAAGTGTGCGATATGATTATGTAGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAGCTGACTATAT
*
47193006 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47193021 GACTTAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
54 21 0.34
55 40 0.65
56 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAGCTGACTATAT
Found at i:47193367 original size:43 final size:43
Alignment explanation
Indices: 47193301--47193385 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
47193291 GATGAGTATG
*
47193301 TGGATTGTGAATGCATAAATTGGTATGAAATTAAACCGATAGA
1 TGGAATGTGAATGCATAAATTGGTATGAAATTAAACCGATAGA
* * * *
47193344 TGGAATGTGAATGCATGATTTGGTATGAGATTGAACCGATAG
1 TGGAATGTGAATGCATAAATTGGTATGAAATTAAACCGATAG
47193386 GTCGGAGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (43 bp):
TGGAATGTGAATGCATAAATTGGTATGAAATTAAACCGATAGA
Found at i:47201195 original size:28 final size:27
Alignment explanation
Indices: 47201133--47201283 Score: 239
Period size: 27 Copynumber: 5.5 Consensus size: 27
47201123 TATTAAGTCT
* * *
47201133 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAACTC
*
47201160 GCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAGTC-AACTC
47201188 GCACACTTAGTGCTACATAGTCAACTC
1 GCACACTTAGTGCTACATAGTCAACTC
47201215 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTC-AACTC
*
47201243 GCACACTTAGTGCTACATAGTCAATTC
1 GCACACTTAGTGCTACATAGTCAACTC
47201270 GCACACTTAGTGCT
1 GCACACTTAGTGCT
47201284 GCACAATTTA
Statistics
Matches: 118, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAACTC
Found at i:47201217 original size:55 final size:55
Alignment explanation
Indices: 47201133--47201283 Score: 257
Period size: 55 Copynumber: 2.7 Consensus size: 55
47201123 TATTAAGTCT
* * *
47201133 GCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
*
47201188 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
*
47201243 GCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
47201284 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (55 bp):
GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
Found at i:47217915 original size:18 final size:18
Alignment explanation
Indices: 47217892--47217929 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
47217882 CACTCCATAA
47217892 AAACCTACCTTCATAACT
1 AAACCTACCTTCATAACT
47217910 AAACCTACCTTCATAACT
1 AAACCTACCTTCATAACT
47217928 AA
1 AA
47217930 CGCTTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (18 bp):
AAACCTACCTTCATAACT
Found at i:47221023 original size:118 final size:117
Alignment explanation
Indices: 47220844--47221073 Score: 343
Period size: 118 Copynumber: 2.0 Consensus size: 117
47220834 CACCCACTAA
* *
47220844 AAAGAATACAGAGATAAAATAAGGCATATAAAAATTCAAAACCAAACAAAAGTCATGACTAGATT
1 AAAGAACACAGAGATAAAATAAGGCATATAAAAATTCAAAACCAAACAAAAGACATGACTAGATT
*
47220909 TGAATCTAGAAATTTCTTTTTACAGCCTATATAGCCCAAGAATAACTGGCAG
66 TGAACCTAGAAATTTCTTTTTACAGCCTATATAGCCCAAGAATAACTGGCAG
* * * * *
47220961 AAAGAACACAGAGATAATAATGAGGCATATAAAAATTCAATACCATACATAAGACATTACTAGAT
1 AAAGAACACAGAGATAA-AATAAGGCATATAAAAATTCAAAACCAAACAAAAGACATGACTAGAT
* * * *
47221026 TTGAACCTTGAAATTTCTTTTTACAGGCTATCTAGTCCAAGAATAACT
65 TTGAACCTAGAAATTTCTTTTTACAGCCTATATAGCCCAAGAATAACT
47221074 AGAAGTGCAC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
117 16 0.16
118 84 0.84
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (117 bp):
AAAGAACACAGAGATAAAATAAGGCATATAAAAATTCAAAACCAAACAAAAGACATGACTAGATT
TGAACCTAGAAATTTCTTTTTACAGCCTATATAGCCCAAGAATAACTGGCAG
Found at i:47222526 original size:27 final size:27
Alignment explanation
Indices: 47222496--47222556 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
47222486 CAAATTGTAA
47222496 AATTACCAAAGGACCATCGATTTATAG
1 AATTACCAAAGGACCATCGATTTATAG
***** *
47222523 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGGACCATCGATTTATAG
47222550 AATTACC
1 AATTACC
47222557 GTTTTACCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGGACCATCGATTTATAG
Found at i:47222604 original size:81 final size:81
Alignment explanation
Indices: 47222514--47222663 Score: 246
Period size: 81 Copynumber: 1.9 Consensus size: 81
47222504 AAGGACCATC
* * * *
47222514 GATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAA
1 GATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAA
47222579 TTACCATTTTACCCTT
66 TTACCATTTTACCCTT
* *
47222595 GATTTATAGAATTACCGTTTTACCATTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAA
47222660 TTAC
66 TTAC
47222664 TAAAATACCC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (81 bp):
GATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAA
TTACCATTTTACCCTT
Found at i:47222664 original size:27 final size:27
Alignment explanation
Indices: 47222512--47222663 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
47222502 CAAAGGACCA
*
47222512 TCGATTTATAGAATTACCGTTTTACCC
1 TCGATTTATAAAATTACCGTTTTACCC
*
47222539 TCGATTTATAGAATTACCGTTTTACCC
1 TCGATTTATAAAATTACCGTTTTACCC
*
47222566 TCGATTTATAAAATTACCATTTTACCC
1 TCGATTTATAAAATTACCGTTTTACCC
* * *
47222593 TTGATTTATAGAATTACCGTTTTACCA
1 TCGATTTATAAAATTACCGTTTTACCC
* * *
47222620 TTGATTTACAAAATTACTGTTTTACCC
1 TCGATTTATAAAATTACCGTTTTACCC
*
47222647 TCGATTTACAAAATTAC
1 TCGATTTATAAAATTAC
47222664 TAAAATACCC
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (27 bp):
TCGATTTATAAAATTACCGTTTTACCC
Found at i:47222672 original size:27 final size:27
Alignment explanation
Indices: 47222642--47222916 Score: 225
Period size: 27 Copynumber: 10.2 Consensus size: 27
47222632 ATTACTGTTT
** *
47222642 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47222669 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* **
47222696 TACCCTCTATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * * *
47222723 TACCCTAG-TCTGTAAAAGTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
47222749 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
47222776 TACCCTCAATTTGTAAAATTATCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
47222803 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
47222830 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
**
47222857 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** * *
47222884 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
47222911 TACCCT
1 TACCCT
47222917 TGACTTTCTA
Statistics
Matches: 198, Mismatches: 43, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 25 0.13
27 172 0.87
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:47222673 original size:81 final size:81
Alignment explanation
Indices: 47222494--47222691 Score: 243
Period size: 81 Copynumber: 2.4 Consensus size: 81
47222484 CTCAAATTGT
** * * * * *
47222494 AAAATTACCAAAGGACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGT
*
47222559 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
*** * *
47222575 AAAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTTACCATTGATTTACAAAATTACTGT
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGT
47222640 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
47222656 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACC
47222692 AAAATACCCT
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCATCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:47222727 original size:81 final size:80
Alignment explanation
Indices: 47222642--47222918 Score: 299
Period size: 81 Copynumber: 3.4 Consensus size: 80
47222632 ATTACTGTTT
** * *
47222642 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCTATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCTATT
*
47222707 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * *
47222723 TA-CCCTAGTCTGTAAAAGTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCTATT
*
47222787 TGTAAAATTATCAAAA
65 TGTAAAATTACCAAAA
* ** * *
47222803 TACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCT-TAA
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCT-A
47222866 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* *
47222884 TACCCCTGATTTACAAAGTTACAAAAATACCCTTG
1 TACCCC-GATTTACAAAATTACTAAAATACCCTTG
47222919 ACTTTCTAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 65 0.39
81 96 0.58
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCTATTT
GTAAAATTACCAAAA
Found at i:47224802 original size:40 final size:40
Alignment explanation
Indices: 47224747--47224838 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
47224737 TAATTTCGGG
* *
47224747 CGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCC
*
47224787 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
47224827 CGAAGGCATTTG
1 CGAAGGCATTTG
47224839 AATGAGTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
Found at i:47226353 original size:27 final size:27
Alignment explanation
Indices: 47226330--47226413 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
47226320 TAGGTAAAAA
47226330 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
47226357 GACCGTAAAGTCCCTCTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
47226384 GACCGTAATA-CCGCTGTATGGTAAAGT
1 GACCGTAA-AGCCCCTGTAGGGTAAAGT
47226411 GAC
1 GAC
47226414 GAATATACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:47226428 original size:25 final size:27
Alignment explanation
Indices: 47226343--47226422 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
47226333 CGTAAAGCCC
*
47226343 CTGTAGGGTAAAGTGACCGTAAAGT-CC-
1 CTGTATGGTAAAGTGACCG-AAA-TACCG
* * *
47226370 CTCTAGGGTAAAGTGACCGTAATACCG
1 CTGTATGGTAAAGTGACCGAAATACCG
47226397 CTGTATGGTAAAGTGA-CGAATATACC
1 CTGTATGGTAAAGTGACCGAA-ATACC
47226423 CTTATGTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 37 0.82
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (27 bp):
CTGTATGGTAAAGTGACCGAAATACCG
Found at i:47227309 original size:25 final size:26
Alignment explanation
Indices: 47227190--47227334 Score: 222
Period size: 26 Copynumber: 5.7 Consensus size: 26
47227180 AAGTGCAAAT
*
47227190 GGGCTTATGCCCCAGTTTATTGAAAA
1 GGGCTTATGCCCCAGTTTACTGAAAA
* * *
47227216 GGGCTTATGGCCTAGTTTACCGAAAA
1 GGGCTTATGCCCCAGTTTACTGAAAA
*
47227242 GGGCTTATGCCCCAGTTTACGGAAAA
1 GGGCTTATGCCCCAGTTTACTGAAAA
*
47227268 GGGCTTATGCCCCAGTTTATTGAAAA
1 GGGCTTATGCCCCAGTTTACTGAAAA
47227294 GGGCTT-TGCCCCAGTTTACTGAAAA
1 GGGCTTATGCCCCAGTTTACTGAAAA
47227319 GGGCTT-TGCCCCAGTT
1 GGGCTTATGCCCCAGTT
47227335 ATTAAAGAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 34 0.31
26 75 0.69
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (26 bp):
GGGCTTATGCCCCAGTTTACTGAAAA
Found at i:47227559 original size:42 final size:42
Alignment explanation
Indices: 47227479--47227570 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
47227469 TAGTCTCCCC
* * ** * *
47227479 AAATAGGCTTGCATACATTCATTGGTATTTCATTTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
47227521 AAATGGGCTTGCATACATCCTTTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
47227563 AAATGGGC
1 AAATGGGC
47227571 CTAAGGGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:47227629 original size:31 final size:31
Alignment explanation
Indices: 47227594--47227703 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
47227584 CATTTACAGT
* *
47227594 AAAGGCTTTGCCCCAATGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
*
47227625 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
47227656 AAAGG-TTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTT-GGCCCAGTGATATGATTTATGA
*
47227687 AAAGGCTTCGGCCCAGT
1 AAAGGCTTTGGCCCAGT
47227704 AACCGTTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 2 0.03
31 68 0.94
32 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGATTTATGA
Found at i:47233805 original size:40 final size:40
Alignment explanation
Indices: 47233756--47233852 Score: 160
Period size: 40 Copynumber: 2.4 Consensus size: 40
47233746 TAAGTCGGTA
47233756 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATTCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAGCTATTCCAAC
* *
47233796 TCGCACACTTAGTGCCATTTGTAGCCGAAGCTATTCTAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTCCAAC
47233836 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
47233853 CGCATAGTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (40 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTCCAAC
Found at i:47238601 original size:40 final size:39
Alignment explanation
Indices: 47238503--47238765 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
47238493 TCCTCGTTCA
* * * *
47238503 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
47238542 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
47238581 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
47238621 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
47238661 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
47238701 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
47238742 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47238766 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:47238725 original size:120 final size:119
Alignment explanation
Indices: 47238503--47238765 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
47238493 TCCTCGTTCA
* * *
47238503 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
47238568 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
47238621 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
47238686 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
47238742 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47238766 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:47238774 original size:41 final size:41
Alignment explanation
Indices: 47238697--47238774 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
47238687 TTTGTATCTC
* * *
47238697 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
47238738 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
47238775 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:47242771 original size:41 final size:41
Alignment explanation
Indices: 47242695--47242777 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
47242685 GCATCACTAA
* * *
47242695 GAATTCGTAGTGACCATATCTCATTCGGAAGGCAGTTTTGG
1 GAATACGTAGTGACCATACCTCATTCGGAAAGCAGTTTTGG
* * *
47242736 GAATACGTAGTGACCGTACCTCGTTCTGAAAGCAGTTTTGG
1 GAATACGTAGTGACCATACCTCATTCGGAAAGCAGTTTTGG
47242777 G
1 G
47242778 TACGTCCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
GAATACGTAGTGACCATACCTCATTCGGAAAGCAGTTTTGG
Found at i:47246539 original size:40 final size:40
Alignment explanation
Indices: 47246448--47246670 Score: 206
Period size: 40 Copynumber: 5.6 Consensus size: 40
47246438 TCCTCGTTCA
* * * **
47246448 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-
1 AATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCACG
47246487 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
*
47246527 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* **
47246567 AATGCCTT-TGGATCTTAGTCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCACG
** * * * *
47246607 AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
47246647 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47246671 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.22
40 115 0.72
41 10 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47254787 original size:18 final size:18
Alignment explanation
Indices: 47254764--47254799 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47254754 AAATTCCATG
47254764 TTCATATATTACCATCTC
1 TTCATATATTACCATCTC
*
47254782 TTCATATATTATCATCTC
1 TTCATATATTACCATCTC
47254800 GTATTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCATATATTACCATCTC
Found at i:47256801 original size:16 final size:16
Alignment explanation
Indices: 47256782--47256812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47256772 TTATTTATTA
*
47256782 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
47256798 AATTAAATAATTTTC
1 AATTAAATAATTTTC
47256813 TTAACCAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:47257956 original size:20 final size:18
Alignment explanation
Indices: 47257809--47257957 Score: 68
Period size: 17 Copynumber: 8.5 Consensus size: 18
47257799 ACTATGATTA
47257809 AAATTAATCATTTTAATATT
1 AAATTAAT-A-TTTAATATT
47257829 AAATTAATA--TAATATT
1 AAATTAATATTTAATATT
* * * *
47257845 -TATCAAGA-TAAATATT
1 AAATTAATATTTAATATT
*
47257861 AGATTAA-ATTTAATATT
1 AAATTAATATTTAATATT
* *
47257878 AAATT-TTA-TTAA-AAT
1 AAATTAATATTTAATATT
* * *
47257893 -AATAGAATGTTTAAACATT
1 AAAT-TAATATTT-AATATT
47257912 AAATTAA-ATTTAATATT
1 AAATTAATATTTAATATT
47257929 AAGA-TAATCACTTTAATATT
1 AA-ATTAAT-A-TTTAATATT
47257949 AAATTAATA
1 AAATTAATA
47257958 AAATACTATT
Statistics
Matches: 97, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 3 0.03
15 7 0.07
16 19 0.20
17 28 0.29
18 6 0.06
19 8 0.08
20 26 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATTAATATTTAATATT
Found at i:47259009 original size:26 final size:26
Alignment explanation
Indices: 47258980--47259087 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
47258970 TGATACAAAT
*
47258980 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47259006 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47259032 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47259058 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47259084 TGAT
1 TGAT
47259088 GGGTATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47260805 original size:27 final size:27
Alignment explanation
Indices: 47260708--47260812 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
47260698 AGGAAGCGTC
*
47260708 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
47260735 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
47260762 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
47260789 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
47260813 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:47262323 original size:36 final size:36
Alignment explanation
Indices: 47262283--47262357 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
47262273 ATCACAGCAT
47262283 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
1 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
47262319 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
1 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
47262355 GAA
1 GAA
47262358 TTAATTAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (36 bp):
GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
Found at i:47262698 original size:16 final size:16
Alignment explanation
Indices: 47262677--47262707 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47262667 CTATACATAC
*
47262677 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
47262693 AAAATACAAAAGACA
1 AAAATACAAAAGACA
47262708 TAACAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:47264563 original size:40 final size:40
Alignment explanation
Indices: 47264386--47264566 Score: 294
Period size: 40 Copynumber: 4.5 Consensus size: 40
47264376 ACCCAAGTAT
* *
47264386 CTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACAAATGT
1 CTTCGGG-TCTTAGCCCGGTTATAGCAACTCGCACAAATGC
*
47264425 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
47264465 CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
* *
47264505 CTTCGGGCCTTAGCCCGGTTATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
47264545 CTTCGGGTCTTAGCCCGGTTAT
1 CTTCGGGTCTTAGCCCGGTTAT
47264567 CATCCGAATA
Statistics
Matches: 135, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.08
40 123 0.91
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
Found at i:47271716 original size:16 final size:16
Alignment explanation
Indices: 47271695--47271766 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
47271685 TATGATTAAC
*
47271695 TTAAATCACTTTAATA
1 TTAAATCAATTTAATA
* *
47271711 TTAAATTAATATAATA
1 TTAAATCAATTTAATA
*
47271727 TT-AATCAATATAAATA
1 TTAAATCAAT-TTAATA
* *
47271743 TTAGATTAAATTTAATA
1 TTA-AATCAATTTAATA
47271760 TTAAATC
1 TTAAATC
47271767 TTATTAAAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
15 6 0.14
16 23 0.55
17 8 0.19
18 5 0.12
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATCAATTTAATA
Found at i:47271845 original size:37 final size:35
Alignment explanation
Indices: 47271804--47271910 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 35
47271794 TAAGATGAAC
47271804 ATTAAATTTAATTTAATATTAAGATAATCACTTTAAT
1 ATTAAATTTAATTTAATATTAAGATAAT-A-TTTAAT
** *
47271841 ATTAAATTAATAAAATATTATTAAGATAAATATTTAAT
1 ATTAAATT--TAATTTAATATTAAGAT-AATATTTAAT
*
47271879 -TT-AATTTAATATTAAATTATTAAAATAATATT
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATATT
47271911 ATTTTTGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 11 0.19
37 18 0.32
38 6 0.11
39 15 0.26
40 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (35 bp):
ATTAAATTTAATTTAATATTAAGATAATATTTAAT
Found at i:47272109 original size:15 final size:15
Alignment explanation
Indices: 47272089--47272128 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
47272079 GCACCCTGAG
47272089 CCGGTTCGGTTGCTA
1 CCGGTTCGGTTGCTA
47272104 CCGGTTCGGTTGCTA
1 CCGGTTCGGTTGCTA
* *
47272119 TCGATTCGGT
1 CCGGTTCGGT
47272129 CCAAGTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.07, C:0.25, G:0.33, T:0.35
Consensus pattern (15 bp):
CCGGTTCGGTTGCTA
Found at i:47273556 original size:16 final size:16
Alignment explanation
Indices: 47273535--47273568 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47273525 CTATGCATGC
*
47273535 AAAATATAAAAGATAT
1 AAAATACAAAAGATAT
47273551 AAAATACAAAAGATAT
1 AAAATACAAAAGATAT
47273567 AA
1 AA
47273569 CAGTGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATACAAAAGATAT
Found at i:47274484 original size:16 final size:16
Alignment explanation
Indices: 47274463--47274493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47274453 TGTATTTAAA
*
47274463 TAAATTAATTAATTTC
1 TAAATTAAATAATTTC
47274479 TAAATTAAATAATTT
1 TAAATTAAATAATTT
47274494 TCTCCATCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTAAATAATTTC
Found at i:47277238 original size:103 final size:103
Alignment explanation
Indices: 47277059--47277364 Score: 393
Period size: 103 Copynumber: 3.0 Consensus size: 103
47277049 AATTATTAAG
* * * * **
47277059 GTTAGAAGAGTTAAGCGCGCAAC-TCCAAGACAGCTAGCGGACCTATGGTCCCAGTTGATTATTA
1 GTTAGAAGAGTTAAGCTCGCAACTTCCAA-ACAGCTAGTGGACCTATGCTCCTAACTGATTATTA
*
47277123 AGGTTAGAAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
65 AGGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
* * * *
47277162 GTTAGAAGAGTTAAGCTCGTAACTTCTAAACAACTAGTGGACCTACGCTCCTAACTGATTATTAA
1 GTTAGAAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATTAA
*
47277227 GGTTAGTAGAGTTAAGCTTGCAACCTCT-AGCCTTTTGA
66 GGTTAGTAGAGTTAAGCTTGCAACCTCTGA-TCTTTTGA
* * * *
47277265 GTTAGCAA-AGTTAAGCTTGCAACTCCCAGACAGCTAGTGAACCTATGCTCCTAACTGATTATTA
1 GTTAG-AAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATT-
* *
47277329 AAGGTTAGTAGAGTTAAGCTCGCAACCTCCGATCTT
64 AAGGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTT
47277365 ATTTACAAAC
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
102 1 0.01
103 136 0.78
104 37 0.21
105 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (103 bp):
GTTAGAAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATTAA
GGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
Found at i:47291141 original size:12 final size:12
Alignment explanation
Indices: 47291124--47291148 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47291114 AACTCTGTAA
47291124 CTAGTTTAAATT
1 CTAGTTTAAATT
47291136 CTAGTTTAAATT
1 CTAGTTTAAATT
47291148 C
1 C
47291149 AATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (12 bp):
CTAGTTTAAATT
Found at i:47291189 original size:23 final size:23
Alignment explanation
Indices: 47291158--47291232 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
47291148 CAATTTTTAA
*
47291158 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
47291181 ATTTAGAATTATTTAGTGATGAT
1 ATTTAGAATTATTTAGTGATAAT
* *
47291204 ATTTAAAATTATTTGGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
47291227 ATTTAG
1 ATTTAG
47291233 GAAAAATCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:47293977 original size:22 final size:24
Alignment explanation
Indices: 47293951--47294004 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
47293941 TTATAAATTC
* *
47293951 AATTTAAAGGATA-TAAT-ATAAT
1 AATTTAAAGCATATTAATAACAAT
*
47293973 AATTTCAAGCATATTTAATAACAAT
1 AATTTAAAGCATA-TTAATAACAAT
47293998 AATTTAA
1 AATTTAA
47294005 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 11 0.44
24 4 0.16
25 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AATTTAAAGCATATTAATAACAAT
Found at i:47299130 original size:22 final size:21
Alignment explanation
Indices: 47299095--47299153 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
47299085 AATTATTTTC
*
47299095 AATAATTTATTAATTTATTAA
1 AATAATTAATTAATTTATTAA
*
47299116 TATAATTAATATAATTTATTAA
1 AATAATTAAT-TAATTTATTAA
*
47299138 AATAATAAATT-ATTTA
1 AATAATTAATTAATTTA
47299154 ATATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.15
21 9 0.27
22 19 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTAATTAATTTATTAA
Found at i:47305156 original size:8 final size:8
Alignment explanation
Indices: 47305140--47305195 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
47305130 TTTTAATTTC
47305140 TTTTAAAT
1 TTTTAAAT
*
47305148 TTTTGAAT
1 TTTTAAAT
47305156 TTTCTATATAT
1 TTT-TA-A-AT
47305167 TTTTAAAT
1 TTTTAAAT
47305175 TTTTATAA-
1 TTTTA-AAT
47305183 TTTTATAAT
1 TTTTA-AAT
47305192 TTTT
1 TTTT
47305196 TCAATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 25 0.61
9 8 0.20
10 3 0.07
11 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTAAAT
Found at i:47305168 original size:19 final size:17
Alignment explanation
Indices: 47305140--47305195 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
47305130 TTTTAATTTC
*
47305140 TTTTA-AATTTTTGAAT
1 TTTTATAATTTTTAAAT
47305156 TTTCTATATATTTTTAAAT
1 TTT-TATA-ATTTTTAAAT
47305175 TTTTATAA-TTTTATAAT
1 TTTTATAATTTTTA-AAT
47305192 TTTT
1 TTTT
47305196 TCAATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 8 0.23
17 10 0.29
18 5 0.14
19 12 0.34
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTATAATTTTTAAAT
Found at i:47305169 original size:18 final size:17
Alignment explanation
Indices: 47305148--47305222 Score: 55
Period size: 19 Copynumber: 4.2 Consensus size: 17
47305138 TCTTTTAAAT
47305148 TTTTGAATTTTCTATATA
1 TTTTGAATTTT-TATATA
*
47305166 TTTTTAAATTTTTATA-A
1 -TTTTGAATTTTTATATA
*
47305183 TTTTATAATTTTT-TCAATA
1 TTTT-GAATTTTTAT--ATA
**
47305202 TTTTGAGCTTTTATATA
1 TTTTGAATTTTTATATA
47305219 TTTT
1 TTTT
47305223 CTTGAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 5 0.11
17 15 0.33
18 10 0.22
19 16 0.35
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTGAATTTTTATATA
Found at i:47305175 original size:27 final size:26
Alignment explanation
Indices: 47305140--47305222 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
47305130 TTTTAATTTC
47305140 TTTTAAATTTTTGAATTTTCTATATAT
1 TTTTAAATTTTTGAATTTT-TATATAT
*
47305167 TTTTAAATTTTT-ATAATTTTATA-ATT
1 TTTTAAATTTTTGA-ATTTTTATATA-T
* **
47305193 TTTTCAATATTTTGAGCTTTTATATAT
1 TTTTAAAT-TTTTGAATTTTTATATAT
47305220 TTT
1 TTT
47305223 CTTGAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 13 0.28
27 31 0.66
28 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTAAATTTTTGAATTTTTATATAT
Found at i:47305196 original size:19 final size:17
Alignment explanation
Indices: 47305128--47305196 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 17
47305118 ATCATATACC
47305128 ATTTTTAATTTCTTT-TAA
1 ATTTTTAATTT-TTTAT-A
*
47305146 ATTTTTGAATTTTCTATA
1 ATTTTT-AATTTTTTATA
*
47305164 TATTTTTAAATTTTTATA
1 -ATTTTTAATTTTTTATA
47305182 ATTTTATAATTTTTT
1 ATTTT-TAATTTTTT
47305197 CAATATTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 26 0.60
19 12 0.28
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTTTAATTTTTTATA
Found at i:47305497 original size:32 final size:32
Alignment explanation
Indices: 47305456--47305524 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
47305446 TATTAAAAGC
*
47305456 TGGATCTAGCATTCTTTTGATGTTATTTAACA
1 TGGATCTAGCATTCTTTTGATGATATTTAACA
47305488 TGGATCTAGCATTCTTTTGATGATATTTAACA
1 TGGATCTAGCATTCTTTTGATGATATTTAACA
47305520 TGGAT
1 TGGAT
47305525 TTTTATGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (32 bp):
TGGATCTAGCATTCTTTTGATGATATTTAACA
Found at i:47311126 original size:10 final size:10
Alignment explanation
Indices: 47311108--47311139 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
47311098 AACTTTAAAC
*
47311108 AGTCAAAAAT
1 AGTCCAAAAT
47311118 AGTCCAAAAT
1 AGTCCAAAAT
47311128 AGTCCAAAAT
1 AGTCCAAAAT
47311138 AG
1 AG
47311140 AATAAACCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (10 bp):
AGTCCAAAAT
Found at i:47317497 original size:13 final size:13
Alignment explanation
Indices: 47317461--47317497 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
47317451 TAAAACACAC
*
47317461 GCCCGTGTGACTA
1 GCCCGTGTGCCTA
*
47317474 GCCCGTCTGCCTA
1 GCCCGTGTGCCTA
47317487 GCCCGTGTGCC
1 GCCCGTGTGCC
47317498 AAGCTGTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.41, G:0.30, T:0.22
Consensus pattern (13 bp):
GCCCGTGTGCCTA
Found at i:47321059 original size:26 final size:26
Alignment explanation
Indices: 47321022--47321176 Score: 283
Period size: 26 Copynumber: 6.0 Consensus size: 26
47321012 GTACAAATTA
47321022 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
47321048 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
47321074 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
47321100 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
47321126 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
47321152 ATAATGGTTTAGGTAAATGTTCCAT
1 ATAATGGGTTAGGTAAATGTTCCAT
47321177 AATGGNNNNN
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 124 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:47327830 original size:26 final size:26
Alignment explanation
Indices: 47327801--47327908 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
47327791 TGGTACAAAT
47327801 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
47327827 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47327853 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47327879 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47327905 TGAT
1 TGAT
47327909 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47338512 original size:47 final size:48
Alignment explanation
Indices: 47338361--47338571 Score: 191
Period size: 48 Copynumber: 4.4 Consensus size: 48
47338351 GGGTGTTACA
* * * * **
47338361 ATGGCCCGAAGCCAACTC-AA-TAAATCTCGTACCCAAAGTGCTAATATC
1 ATGGCCCGAAGCCAAATCAAAGT-AA-CTAGCACCCGAAGTGCCGATATC
* * * * *
47338409 ATGGCCCGTAGCCAAATC--AGTGAAGCTCGCAGCTGAAGTGTCGATATC
1 ATGGCCCGAAGCCAAATCAAAGT-AA-CTAGCACCCGAAGTGCCGATATC
* *
47338457 ATTGCCCGAAGCAAAATCAAAGTAACTAGCACCCGAAGTG-CGATATC
1 ATGGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
* *
47338504 -TAGGCCCGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCGATATC
1 AT-GGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
*
47338552 ATGGCCAGAAGCCAAATCAA
1 ATGGCCCGAAGCCAAATCAA
47338572 TATATCCCCT
Statistics
Matches: 135, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
46 1 0.01
47 42 0.31
48 86 0.64
49 3 0.02
50 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (48 bp):
ATGGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
Found at i:47342994 original size:26 final size:26
Alignment explanation
Indices: 47342965--47343020 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
47342955 TGGTACAAAT
47342965 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47342991 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47343017 TGAT
1 TGAT
47343021 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47351560 original size:45 final size:45
Alignment explanation
Indices: 47351511--47351600 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
47351501 ATTAATAGGT
47351511 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
1 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
* *
47351556 ATAAACATACAATTCAAACTTAATTATAGAATATAGTAAGTTCCA
1 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
47351601 TATGACTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (45 bp):
ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
Found at i:47354180 original size:51 final size:50
Alignment explanation
Indices: 47354094--47354192 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 50
47354084 CTACCTCATA
* * * *
47354094 ACATGTATACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTT
1 ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
* *
47354144 ACATGAATCACATCCATTATGAATTCAGACCACTCAACGAGCTCGGATG
1 ACATGAAT-ACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
47354193 CTCGCATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (50 bp):
ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
Found at i:47354223 original size:43 final size:43
Alignment explanation
Indices: 47354151--47354319 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
47354141 GTTACATGAA
* * * * *
47354151 TCACATCCATTATGAATTCAGACCACTCAACGAGCTCGGATGC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * * * *
47354194 TCGCATCCATAATGAACTCGGACCTCTCAATGAGTTCAGATGC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * * *
47354237 -CACATAGATCATGAACTTGAACCACTCAACGAGTTCAGATTC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * *
47354279 TCACATATATCACGAACTCGGACCGCTCAACGAGCTTAGAT
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGAT
47354320 TTTTAAATTC
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 33 0.33
43 68 0.67
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
Found at i:47355474 original size:16 final size:16
Alignment explanation
Indices: 47355453--47355503 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
47355443 CCTTTTGTTT
47355453 TAATATTTTTAACATA
1 TAATATTTTTAACATA
* * *
47355469 TAATATTATTAATTAAA
1 TAATATTTTTAA-CATA
*
47355486 TAA-AATTTTAACATA
1 TAATATTTTTAACATA
47355501 TAA
1 TAA
47355504 AATCTTTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTTTTAACATA
Found at i:47364394 original size:130 final size:130
Alignment explanation
Indices: 47364207--47364578 Score: 440
Period size: 130 Copynumber: 2.9 Consensus size: 130
47364197 AAAATTCTTC
* * *
47364207 AAAACGAAGACGAAATTTGATGTTCGGCGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
47364272 TTTCGTATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * *
47364337 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * ** * * *
47364402 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * * *
47364467 AAAACAAAGGTGATATGTGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * ** * *
47364532 TTTCCCGA-TTGTTTAAAATAATTAAATACCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTC
47364579 GGCTCTTCTA
Statistics
Matches: 205, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
130 204 1.00
131 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (130 bp):
AAAACGAAGATGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:47376105 original size:44 final size:44
Alignment explanation
Indices: 47376042--47376442 Score: 500
Period size: 44 Copynumber: 9.1 Consensus size: 44
47376032 TGAATCCTGT
* * *
47376042 AGATTTGGCGTCTCTGTATTGGCAAAGAGCAGATCAAAGACAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
*
47376086 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
** * * *
47376130 AGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCGAGGATAGA
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
*
47376174 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
* * * * * *
47376218 AGATCTAGCATCTCTGTATTGACGGAGAGCAGATCGAGGATAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
* * *
47376262 AGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
* * * *
47376306 AGATCTGGCATCTTTGTATTGACGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
* ** * *
47376350 AGATCTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGA-CGAT
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAG-C
* *
47376394 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAA-ATAAC
1 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AAAGATAGC
47376438 AGATT
1 AGATT
47376443 GGTGTTCCCG
Statistics
Matches: 307, Mismatches: 47, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
43 1 0.00
44 304 0.99
45 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
Found at i:47379343 original size:130 final size:130
Alignment explanation
Indices: 47379094--47379461 Score: 364
Period size: 130 Copynumber: 2.8 Consensus size: 130
47379084 AAAATTCTTC
* * *
47379094 AAAACGAAGACGAAATTTGATGTTCGGCGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGAAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
47379159 TTTCGTATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTCTTTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAAATATCACTTCAAAATTTCTCTCATATCTTTTAAAATCCCT
* * * * *
47379224 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGAAATTGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGAAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * * *
47379289 TTTTGCATTTGTTCAAAATAATCTAATATCATTTTAAAATTT-TGCTCGTGTCTTTTAAAATCTC
66 TTTCGCATTTGCTCAAAATAATCAAATATCACTTCAAAATTTCT-CTCATATCTTTTAAAATCCC
47379353 T
130 T
* * * * * ** * *
47379354 AAAACGAAGGCGATATGTGATATTTGGCAATTCGTGGGATCGTGCCCTAACAT-TGTGGGTAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGAAATCGTGCCCTAACGTGT-TGGGTTGCA
* * * * * *
47379418 ATTTCCCGA-TTGTTTAAAATAATTAAATACCCCTTCAAAATTTC
65 ATTTCGC-ATTTGCTCAAAATAATCAAATATCACTTCAAAATTTC
47379462 ACTCGGCTCT
Statistics
Matches: 191, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
129 2 0.01
130 188 0.98
131 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (130 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGAAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCAAATATCACTTCAAAATTTCTCTCATATCTTTTAAAATCCCT
Found at i:47380793 original size:47 final size:47
Alignment explanation
Indices: 47380652--47385817 Score: 9551
Period size: 47 Copynumber: 109.4 Consensus size: 47
47380642 TTGCCCTTCG
*
47380652 GGCCTTATTTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * **
47380699 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* * * * * *
47380750 GACATTATCACACATACGCATGTTCACATCCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * * * *
47380797 GGTCTTATCACACATACGCATGTTCACATTCATCACACTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
47380844 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47380891 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47380938 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47380985 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381032 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381079 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381126 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381173 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381220 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381267 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381314 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381361 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381408 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381455 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381502 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381549 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381596 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381643 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381690 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381737 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381784 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381831 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381878 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381925 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47381972 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382019 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382066 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382113 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382160 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382207 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382254 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382301 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382348 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382395 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382442 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382489 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382536 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382583 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382630 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382677 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382724 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382771 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382818 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382865 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382912 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47382959 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383006 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383053 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383100 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383147 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383194 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383241 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383288 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383335 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383382 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383429 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383476 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383523 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383570 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383617 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383664 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383711 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383758 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383805 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383852 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383899 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383946 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47383993 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384040 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384087 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384134 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384181 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384228 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384275 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384322 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384369 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384416 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384463 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384510 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384557 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384604 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384651 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384698 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384745 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384792 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384839 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384886 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384933 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47384980 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385027 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385074 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385121 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385168 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385215 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
47385262 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
47385309 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * * *
47385356 GACCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* * * * *
47385407 GGCATTATCACACATACGCATGTTCACATCCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
47385454 GGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
47385501 GGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
* * **
47385548 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* * **
47385599 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* * **
47385650 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* * **
47385701 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTC
1 GGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTC
* ** *
47385752 GGCCTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTC
1 GGCCTTAT--CTCATATATGCA-TGTTCACATTCATCACATTGGCCATTC
* *
47385801 GGCCCTATCACATATAT
1 GGCCTTATCTCATATAT
47385818 ATACTTGTAC
Statistics
Matches: 5054, Mismatches: 52, Indels: 26
0.98 0.01 0.01
Matches are distributed among these distances:
47 4728 0.94
49 51 0.01
51 275 0.05
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (47 bp):
GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTC
Found at i:47380832 original size:25 final size:25
Alignment explanation
Indices: 47380803--47380880 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
47380793 ATTCGGTCTT
47380803 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
* * *
47380828 ATCACAC-T-GGCCA--TTCGGCCTT-
1 ATCACACATACG-CATGTTC-ACATTC
47380850 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
47380875 ATCACA
1 ATCACA
47380881 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 10 0.25
23 7 0.17
24 7 0.17
25 16 0.40
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.27
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:47388730 original size:16 final size:18
Alignment explanation
Indices: 47388709--47388742 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
47388699 TGAGGTGTAT
47388709 AAGAAG-AAGGA-AAGAC
1 AAGAAGTAAGGATAAGAC
47388725 AAGAAGTAAGGATAAGAC
1 AAGAAGTAAGGATAAGAC
47388743 TTGTTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (18 bp):
AAGAAGTAAGGATAAGAC
Found at i:47395842 original size:24 final size:24
Alignment explanation
Indices: 47395805--47395860 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
47395795 TATATATACC
47395805 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
*
47395829 AATTC-ATCACATATTAAATCAATC
1 AATTCAATCA-ATATTAAATCAATA
*
47395853 ATTTCAAT
1 AATTCAAT
47395861 TGAAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 17 0.63
25 6 0.22
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:47396492 original size:15 final size:16
Alignment explanation
Indices: 47396472--47396507 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
47396462 AACCCTAACT
47396472 TTTCTCTTTTT-TTTC
1 TTTCTCTTTTTCTTTC
47396487 TTTCTCTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
47396503 TTTCT
1 TTTCT
47396508 TTTCCCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTC
Found at i:47396497 original size:16 final size:15
Alignment explanation
Indices: 47396472--47396507 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
47396462 AACCCTAACT
*
47396472 TTTCTCTTTTTTTTC
1 TTTCTCTTTTCTTTC
47396487 TTTCTCTTTTTCTTTC
1 TTTCTC-TTTTCTTTC
47396503 TTTCT
1 TTTCT
47396508 TTTCCCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTTTCTTTC
Found at i:47401483 original size:24 final size:24
Alignment explanation
Indices: 47401446--47401492 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47401436 TATATATACC
47401446 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
47401470 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
47401493 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:47402339 original size:19 final size:20
Alignment explanation
Indices: 47402296--47402334 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47402286 ATTAATAAGC
47402296 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
47402315 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
47402335 TTACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:47403633 original size:23 final size:23
Alignment explanation
Indices: 47403603--47403706 Score: 122
Period size: 22 Copynumber: 4.6 Consensus size: 23
47403593 CGATAAGATC
* *
47403603 TATTCTATAATGACTTTGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
* *
47403626 TATTCTATGATGCCTTCGTGGAA
1 TATTCTATAATGCCTTCGTGGCA
*
47403649 TATT-TGTAATGCCTTCGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
* *
47403671 TA-TCTATGATGCCTTTGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
*
47403693 TATTCTGTAATGCC
1 TATTCTATAATGCC
47403707 CTCGAGGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.01
22 34 0.51
23 32 0.48
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (23 bp):
TATTCTATAATGCCTTCGTGGCA
Found at i:47403663 original size:22 final size:22
Alignment explanation
Indices: 47403635--47403715 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
47403625 ATATTCTATG
47403635 ATGCCTTCGTGGAATATTTGTA
1 ATGCCTTCGTGGAATATTTGTA
* * * *
47403657 ATGCCTTCGTGGCATATCTATG
1 ATGCCTTCGTGGAATATTTGTA
* *
47403679 ATGCCTTTGTGGCATATTCTGTA
1 ATGCCTTCGTGGAATATT-TGTA
* *
47403702 ATGCCCTCGAGGAA
1 ATGCCTTCGTGGAA
47403716 AAATCTGGTT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 34 0.74
23 12 0.26
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (22 bp):
ATGCCTTCGTGGAATATTTGTA
Found at i:47406386 original size:28 final size:29
Alignment explanation
Indices: 47406355--47406411 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
47406345 ATCCGAAATA
47406355 CTGATAT-CATGGCCTGAAGCCAAATCAG
1 CTGATATGCATGGCCTGAAGCCAAATCAG
*
47406383 CTGATATGCATGGCTTGAAGCCAAATCAG
1 CTGATATGCATGGCCTGAAGCCAAATCAG
47406412 TTTATCTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (29 bp):
CTGATATGCATGGCCTGAAGCCAAATCAG
Found at i:47409117 original size:209 final size:209
Alignment explanation
Indices: 47408756--47409157 Score: 741
Period size: 209 Copynumber: 1.9 Consensus size: 209
47408746 GTTTACAAGC
47408756 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
1 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
*
47408821 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTGATGATGCCTCC
66 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
* *
47408886 GACGATCTCCAACTCTGAGCTAACCTGACAAGCTAAAAGAAATGGAAATGAGGGAGTAAGCTTAT
131 GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTTAT
47408951 AACTCAATATAAGT
196 AACTCAATATAAGT
* * *
47408965 CAATACATTTGGCCAAAGCATAATAACATATGTCATAAAACTAGATCTCTATACATGCTACTCAC
1 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
47409030 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
66 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
*
47409095 GATGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTT
131 GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTT
47409158 CATGGTTAGT
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 186 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (209 bp):
CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTTAT
AACTCAATATAAGT
Found at i:47411526 original size:70 final size:70
Alignment explanation
Indices: 47411452--47411590 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
47411442 CCGATCAATC
*
47411452 TAACATATACAGGTATATAATACATACCTGAACAACTTAATGCATTGAACAATTTCAATGGTGGT
1 TAACATATACAGGTATATAATACATACCTAAACAACTTAATGCATTGAACAATTTCAATGGTGGT
47411517 TTCCG
66 TTCCG
*
47411522 TAACATATACGGGTATATAATACATACCTAAACAACTTAATGCATTGAACAATTTCAATGGTGGT
1 TAACATATACAGGTATATAATACATACCTAAACAACTTAATGCATTGAACAATTTCAATGGTGGT
47411587 TTCC
66 TTCC
47411591 TCCGAACATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (70 bp):
TAACATATACAGGTATATAATACATACCTAAACAACTTAATGCATTGAACAATTTCAATGGTGGT
TTCCG
Found at i:47411990 original size:203 final size:204
Alignment explanation
Indices: 47411641--47412051 Score: 806
Period size: 203 Copynumber: 2.0 Consensus size: 204
47411631 ATTAAGCCTG
47411641 TTAGGTTTTTTTAAAACCCGTTTCCAATTTATAGCACAAAGCCTGCGGGATTTAACCCGGATATC
1 TTAGGTTTTTTTAAAACCCGTTTCCAATTTATAGCACAAAGCCTGCGGGATTTAACCCGGATATC
47411706 TATTACCAGCACTAGGCCTGCGGACTATAAGTCCGGGTATAATACCGGCATTAAGCCTGCGGGAT
66 TATTACCAGCACTAGGCCTGCGGACTATAAGTCCGGGTATAATACCGGCATTAAGCCTGCGGGAT
*
47411771 TTAACCCTGATATAATACCACATAAATTTTGCCTATTTAATTATATACTCACACATCCCATTCAA
131 TTAACCCGGATATAATACCACATAAATTTTGCCTATTTAATTATATACTCACACATCCCATTCAA
47411836 CTTACTAC-
196 CTTACTACA
47411844 TTAGGTTTTTTTAAAACCCGTTTCCAATTTATAGCACAAAGCCTGCGGGATTTAACCCGGATATC
1 TTAGGTTTTTTTAAAACCCGTTTCCAATTTATAGCACAAAGCCTGCGGGATTTAACCCGGATATC
47411909 TATTACCAGCACTAGGCCTGCGGACTATAAGTCCGGGTATAATACCGGCATTAAGCCTGCGGGAT
66 TATTACCAGCACTAGGCCTGCGGACTATAAGTCCGGGTATAATACCGGCATTAAGCCTGCGGGAT
47411974 TTAACCCGGATATAATACCACATAAATTTTGCCTATTTAATTATATACTCACACATCCCATTCAA
131 TTAACCCGGATATAATACCACATAAATTTTGCCTATTTAATTATATACTCACACATCCCATTCAA
47412039 CTTACTACA
196 CTTACTACA
47412048 TTAG
1 TTAG
47412052 CAGTCATTTA
Statistics
Matches: 206, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
203 202 0.98
204 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (204 bp):
TTAGGTTTTTTTAAAACCCGTTTCCAATTTATAGCACAAAGCCTGCGGGATTTAACCCGGATATC
TATTACCAGCACTAGGCCTGCGGACTATAAGTCCGGGTATAATACCGGCATTAAGCCTGCGGGAT
TTAACCCGGATATAATACCACATAAATTTTGCCTATTTAATTATATACTCACACATCCCATTCAA
CTTACTACA
Found at i:47414837 original size:40 final size:39
Alignment explanation
Indices: 47414785--47414902 Score: 134
Period size: 39 Copynumber: 3.0 Consensus size: 39
47414775 TCCAATTTCT
* *
47414785 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATAT-TAATACC
* * *
47414825 AGCACTAGGCCTGC-GGACTATAAGTCCGGATA-TAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATTAATACC
*
47414864 AGCATTAAGCCTGCGGGATTTAACCCGGATA-TAATACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATTAATACC
47414902 A
1 A
47414903 CATAAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
38 15 0.23
39 25 0.38
40 19 0.29
41 7 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (39 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATTAATACC
Found at i:47415972 original size:49 final size:48
Alignment explanation
Indices: 47415908--47416080 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 48
47415898 CACATCAAAG
*
47415908 GTGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-
1 GTGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGT
* * *
47415956 GCTGATGCCCTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGT
1 G-TGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
* * * *
47416005 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACACACAT-CA--AGT
1 GT-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
* *
47416051 -TGACGCCATGTCCTAGACAGGTCTTACACT
1 GTGATGCCATGTCCCAGACAGGTCTTACACT
47416081 AGCTTGTATA
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
44 26 0.24
45 1 0.01
46 3 0.03
48 5 0.05
49 74 0.68
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GTGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
Found at i:47416198 original size:48 final size:47
Alignment explanation
Indices: 47415910--47416222 Score: 191
Period size: 49 Copynumber: 6.6 Consensus size: 47
47415900 CATCAAAGGT
* * * *
47415910 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATA-AT-GTGGCC
* * *
47415959 GATGCCCTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGT-GTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-TAAT--GTGGCC
* * * * *
47416008 GATGCCATGTCCCAAACAGGTCTTACACTGACACACATCAA-GT---T
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-AATGTGGCC
* * * * * *
47416052 GACGCCATGTCCTAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATA-AT-GTGGCC
* * * *
47416101 GATG-CATGTCCCAAACATGTCTTACACTAGCTCCCGTC-TCAA--T-ACC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCT--C-TCAT-AATGTGGCC
*
47416147 GATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATAATGTGGCC
* *
47416195 GATG-CATGTTCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
47416223 AGCACACATA
Statistics
Matches: 201, Mismatches: 42, Indels: 45
0.70 0.15 0.16
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 4 0.02
46 20 0.10
47 25 0.12
48 44 0.22
49 73 0.36
50 3 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:47416203 original size:142 final size:143
Alignment explanation
Indices: 47415866--47416225 Score: 344
Period size: 142 Copynumber: 2.5 Consensus size: 143
47415856 GATGCCGACA
* * *
47415866 CCATGTCCCAGACATGGTCTTACATTGGCTAGCACATCAA-AGGTGATGCCATGTCCCAGACAGG
1 CCATGTCCCAGACATGGTCTTACAATGGCT--CACATCAAGTGGCGATG-CATGT-CCAGACAGG
* * * *
47415930 TCTTACACT-GACTTTCATATATCGAGGCTGATGCCCTGTCCCAGACAGGTCTTACACTGGCTCT
62 TCTTACACTAG-CTTTCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCT
** * **
47415994 CATTTATCAGTGTCGATG
126 CACGTATCAATACCGATG
* * * * * *
47416012 CCATGTCCCAAACA-GGTCTTACACTGACACACATCAAGTTGACG--CCATGTCCTAGACAGGTC
1 CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAAG-TGGCGATGCATGTCC-AGACAGGTC
* *
47416074 TTACACTAGCTTGT-ATATCTCGAGGCCGATG-CATGTCCCAAACATGTCTTACACTAGCTC-C-
64 TTACACTAGCTT-TCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCTCA
*
47416135 CGTCTCAATACCGATG
128 CGTATCAATACCGATG
* *
47416151 CCATGTCCCAGACATGGTCTTACAATGGCTCTCAT-AATGTGGCCGATGCATGTTCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAA-GTGG-CGATGCATG-TCCAGACAGGT
47416215 CTTACACTAGC
63 CTTACACTAGC
47416226 ACACATATCA
Statistics
Matches: 175, Mismatches: 28, Indels: 26
0.76 0.12 0.11
Matches are distributed among these distances:
139 27 0.15
140 20 0.11
141 27 0.15
142 61 0.35
143 13 0.07
145 14 0.08
146 13 0.07
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (143 bp):
CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAAGTGGCGATGCATGTCCAGACAGGTCTT
ACACTAGCTTTCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCTCACGT
ATCAATACCGATG
Found at i:47416905 original size:20 final size:18
Alignment explanation
Indices: 47416868--47416918 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
47416858 CCATAGCAAC
47416868 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
47416885 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
47416905 TTACAACTTTACAA
1 TCACAA-TTTACAA
47416919 AATTACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:47423796 original size:45 final size:45
Alignment explanation
Indices: 47423691--47423917 Score: 225
Period size: 45 Copynumber: 5.1 Consensus size: 45
47423681 ATGCTATCTC
* * * *
47423691 ATATCGATGCCATTGTCCCAGACAG-GTTCTTAC-ACAAATCA-A-
1 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACTAAAAAACACAT
* * * ** * *
47423733 GTA-CGATGCCGATGTCCCAGACATGGTCTTAC-ATGTAACCATAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTA-AAAAACACAT
47423777 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
*
47423822 ATATCGATGCCAACGTCCCAGACGTGGTCTTACTCAAAAAA-ACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACT-AAAAAACACAT
* * * **
47423867 ATATCGATGCCAACGTCCCAGATGTGGTCTTAATCGAAAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
47423912 ATATCG
1 ATATCG
47423918 GAATCCTACT
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
41 25 0.16
42 6 0.04
43 1 0.01
44 6 0.04
45 112 0.71
46 7 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
Found at i:47428481 original size:84 final size:82
Alignment explanation
Indices: 47428367--47428568 Score: 237
Period size: 84 Copynumber: 2.4 Consensus size: 82
47428357 CAAGTTGGAT
* * * * *
47428367 AGCTTTAAGGTTGAATTAAAAATAAGAGAGTCGATTAACTTGAAATTT-TTA-CCTTTAAAGAGG
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTTATTATCCTTTAAAGAGG
* *
47428430 AACTGAAGTGTTATAATTTAG
65 AACTCAA--GTTACAA-TTAG
* * *
47428451 AGTTTTAAGGTTGCATTGAAACTAAAAGAGTCAATTAAATGGAAATTTAATTATCCTTTAATGAG
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTT-ATTATCCTTTAAAGAG
47428516 GAACTCAAGTTACAATTAG
64 GAACTCAAGTTACAATTAG
47428535 AGCTTTAAGGTTGATTTGAAACTAAGAGAGTCAA
1 AGCTTTAAGGTTGA-TTGAAACTAAGAGAGTCAA
47428569 ATTGAAAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
83 1 0.01
84 74 0.73
85 6 0.06
86 3 0.03
87 17 0.17
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (82 bp):
AGCTTTAAGGTTGATTGAAACTAAGAGAGTCAATTAAATGGAAATTTATTATCCTTTAAAGAGGA
ACTCAAGTTACAATTAG
Found at i:47428738 original size:82 final size:83
Alignment explanation
Indices: 47428637--47428817 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 83
47428627 CTTAAAGAGT
47428637 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTA-AGTTGAAAATTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACA-TTGAAAATTT
*
47428701 TA-CCTTTAATGAGGAACC
65 TATCCTATAATGAGGAACC
* * * * * *
47428719 GAAGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAGATTGAATTACATTTAAAGTTTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
*
47428784 ATCCTATAATGAGGAACT
66 ATCCTATAATGAGGAACC
*
47428802 GAAGCTAGAATTTAGA
1 GAAGTTAGAATTTAGA
47428818 AGTTTCAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
82 58 0.66
83 30 0.34
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.33
Consensus pattern (83 bp):
GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
ATCCTATAATGAGGAACC
Found at i:47428920 original size:121 final size:121
Alignment explanation
Indices: 47428721--47428938 Score: 296
Period size: 121 Copynumber: 1.8 Consensus size: 121
47428711 GAGGAACCGA
* * * * * *
47428721 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAGATTGAATTACATTTAAAGTTTTAT
1 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAATTGAATGACAATGAAAATTTTAA
**
47428786 CCTATAATGAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
66 CCTATAACAAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
* *
47428842 AGTTAGAATTTGGAGCTTTAATGTTGAATTGAAACTTAAAAACTTG-ATCGA-AATGAAAATTTT
1 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAA-TTGAAT-GACAATGAAAATTTT
* *
47428905 AACCTTTAACAAGGAACTGAAGTTAGAATTTAGA
64 AACCTATAACAAGGAACTGAAGCTAGAATTTAGA
47428939 GCTTTGAGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 79 0.95
122 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (121 bp):
AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAATTGAATGACAATGAAAATTTTAA
CCTATAACAAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
Found at i:47430619 original size:17 final size:17
Alignment explanation
Indices: 47430587--47430634 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
47430577 TGTTAATAAG
*
47430587 ATAATTAAATATAAAATT
1 ATAATAAAATA-AAAATT
*
47430605 TTAATAAAATAAAAATT
1 ATAATAAAATAAAAATT
*
47430622 ATAA-AACATAAAA
1 ATAATAAAATAAAA
47430635 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 8 0.31
17 9 0.35
18 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATAAAAATT
Found at i:47430636 original size:15 final size:15
Alignment explanation
Indices: 47430597--47430656 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
47430587 ATAATTAAAT
*
47430597 ATAAAATTTTAATAAA
1 ATAAAATTATAA-AAA
*
47430613 ATAAAAATTATAAAAC
1 AT-AAAATTATAAAAA
47430629 ATAAAATTA-AAAATA
1 ATAAAATTATAAAA-A
47430644 ATATAAATATATA
1 ATA-AAAT-TATA
47430657 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.11
15 10 0.28
16 10 0.28
17 11 0.31
18 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATTATAAAAA
Found at i:47433949 original size:641 final size:641
Alignment explanation
Indices: 47432723--47434004 Score: 2546
Period size: 641 Copynumber: 2.0 Consensus size: 641
47432713 GATTTGCGCC
47432723 CAACATGGATATATTCAGTCTTCTAAAGTTTTTTTTCCTTTTCTTTTTTCTACTAATGTATTTAG
1 CAACATGGATATATTCAGTCTTCTAAAGTTTTTTTTCCTTTTCTTTTTTCTACTAATGTATTTAG
47432788 TGGGTTCTTGGAGGATCTTATTGTTACATCCATGTTTAGAGAAGAGTTGGATAGTGGAAAGAGGT
66 TGGGTTCTTGGAGGATCTTATTGTTACATCCATGTTTAGAGAAGAGTTGGATAGTGGAAAGAGGT
47432853 GTTGGTAGTAGAATTTATAGAAAAATGAAGAGTCAGAGCAATATACCTAACCAAGGTGGTTTTTC
131 GTTGGTAGTAGAATTTATAGAAAAATGAAGAGTCAGAGCAATATACCTAACCAAGGTGGTTTTTC
47432918 ATCCCATATGTAACATGTTCTCAATCTAATGCAATCCTAAAATTGATGGAACACCCTGTTTGTTT
196 ATCCCATATGTAACATGTTCTCAATCTAATGCAATCCTAAAATTGATGGAACACCCTGTTTGTTT
47432983 TTAGATGAAATATTGAAGTACAGAAAATTCATGCCTATTAAAAAATGCCTAAAGAAAAAGAATGG
261 TTAGATGAAATATTGAAGTACAGAAAATTCATGCCTATTAAAAAATGCCTAAAGAAAAAGAATGG
47433048 AGGAAGCAAAAGAAAAGAAGAGATAGTAACAAAGCCAAAGCAAATTCGCGCACTTGAATGGGGTG
326 AGGAAGCAAAAGAAAAGAAGAGATAGTAACAAAGCCAAAGCAAATTCGCGCACTTGAATGGGGTG
47433113 ATAGCCTTTGCAAGTTAAAATGCATGGGTGGGCAGTCTTAGATTGGGGAAAGATTTTGCCAATCG
391 ATAGCCTTTGCAAGTTAAAATGCATGGGTGGGCAGTCTTAGATTGGGGAAAGATTTTGCCAATCG
47433178 GTATGCCTATGGTGAATCTGGATTTTCAATTTTCTGTTTAACCTTTCATTGCTGCTAGGGGCAGA
456 GTATGCCTATGGTGAATCTGGATTTTCAATTTTCTGTTTAACCTTTCATTGCTGCTAGGGGCAGA
47433243 GTTTTTAATCTGCAACAAATCTAATGTTTCAATAAATTTTTGTCTTATGCTATTTCGGCTATGGG
521 GTTTTTAATCTGCAACAAATCTAATGTTTCAATAAATTTTTGTCTTATGCTATTTCGGCTATGGG
47433308 TTATTTGCCGGCCGTGAGTATTTTTGCTTGAAGTTTAAATTTTTGAAAATTTGGTT
586 TTATTTGCCGGCCGTGAGTATTTTTGCTTGAAGTTTAAATTTTTGAAAATTTGGTT
47433364 CAACATGGATATATTCAGTCTTCTAAAGTTTTTTTTCCTTTTCTTTTTTCTACTAATGTATTTAG
1 CAACATGGATATATTCAGTCTTCTAAAGTTTTTTTTCCTTTTCTTTTTTCTACTAATGTATTTAG
47433429 TGGGTTCTTGGAGGATCTTATTGTTACATCCATGTTTAGAGAAGAGTTGGATAGTGGAAAGAGGT
66 TGGGTTCTTGGAGGATCTTATTGTTACATCCATGTTTAGAGAAGAGTTGGATAGTGGAAAGAGGT
47433494 GTTGGTAGTAGAATTTATAGAAAAATGAAGAGTCAGAGCAATATACCTAACCAAGGTGGTTTTTC
131 GTTGGTAGTAGAATTTATAGAAAAATGAAGAGTCAGAGCAATATACCTAACCAAGGTGGTTTTTC
47433559 ATCCCATATGTAACATGTTCTCAATCTAATGCAATCCTAAAATTGATGGAACACCCTGTTTGTTT
196 ATCCCATATGTAACATGTTCTCAATCTAATGCAATCCTAAAATTGATGGAACACCCTGTTTGTTT
47433624 TTAGATGAAATATTGAAGTACAGAAAATTCATGCCTATTAAAAAATGCCTAAAGAAAAAGAATGG
261 TTAGATGAAATATTGAAGTACAGAAAATTCATGCCTATTAAAAAATGCCTAAAGAAAAAGAATGG
47433689 AGGAAGCAAAAGAAAAGAAGAGATAGTAACAAAGCCAAAGCAAATTCGCGCACTTGAATGGGGTG
326 AGGAAGCAAAAGAAAAGAAGAGATAGTAACAAAGCCAAAGCAAATTCGCGCACTTGAATGGGGTG
47433754 ATAGCCTTTGCAAGTTAAAATGCATGGGTGGGCAGTCTTAGATTGGGGAAAGATTTTGCCAATCG
391 ATAGCCTTTGCAAGTTAAAATGCATGGGTGGGCAGTCTTAGATTGGGGAAAGATTTTGCCAATCG
47433819 GTATGCCTATGGTGAATCTGGATTTTCAATTTTCTGTTTAACCTTTCATTGCTGCTAGGGGCAGA
456 GTATGCCTATGGTGAATCTGGATTTTCAATTTTCTGTTTAACCTTTCATTGCTGCTAGGGGCAGA
*
47433884 GTTTTTAATCTGCAACAAATCTAATGTTTCAATAAATTTTTGTCTTATGCTATTTCGGGTATGGG
521 GTTTTTAATCTGCAACAAATCTAATGTTTCAATAAATTTTTGTCTTATGCTATTTCGGCTATGGG
*
47433949 TTATTTGCTGGCCGTGAGTATTTTTGCTTGAAGTTTAAATTTTTGAAAATTTGGTT
586 TTATTTGCCGGCCGTGAGTATTTTTGCTTGAAGTTTAAATTTTTGAAAATTTGGTT
47434005 GGGGTTCTCT
Statistics
Matches: 639, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
641 639 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (641 bp):
CAACATGGATATATTCAGTCTTCTAAAGTTTTTTTTCCTTTTCTTTTTTCTACTAATGTATTTAG
TGGGTTCTTGGAGGATCTTATTGTTACATCCATGTTTAGAGAAGAGTTGGATAGTGGAAAGAGGT
GTTGGTAGTAGAATTTATAGAAAAATGAAGAGTCAGAGCAATATACCTAACCAAGGTGGTTTTTC
ATCCCATATGTAACATGTTCTCAATCTAATGCAATCCTAAAATTGATGGAACACCCTGTTTGTTT
TTAGATGAAATATTGAAGTACAGAAAATTCATGCCTATTAAAAAATGCCTAAAGAAAAAGAATGG
AGGAAGCAAAAGAAAAGAAGAGATAGTAACAAAGCCAAAGCAAATTCGCGCACTTGAATGGGGTG
ATAGCCTTTGCAAGTTAAAATGCATGGGTGGGCAGTCTTAGATTGGGGAAAGATTTTGCCAATCG
GTATGCCTATGGTGAATCTGGATTTTCAATTTTCTGTTTAACCTTTCATTGCTGCTAGGGGCAGA
GTTTTTAATCTGCAACAAATCTAATGTTTCAATAAATTTTTGTCTTATGCTATTTCGGCTATGGG
TTATTTGCCGGCCGTGAGTATTTTTGCTTGAAGTTTAAATTTTTGAAAATTTGGTT
Found at i:47437484 original size:48 final size:48
Alignment explanation
Indices: 47437420--47437567 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
47437410 TTGATGTACA
*
47437420 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47437468 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** *
47437516 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47437564 AGAT
1 AGAT
47437568 GTGTATATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47440726 original size:43 final size:43
Alignment explanation
Indices: 47440665--47440820 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 43
47440655 CCAGCATCAT
* * * *
47440665 AGCCTGCTAGGCATGAAGGCCTGAATACACATCACCGACACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
**
47440708 AGCCTGCTAGGTGCGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
47440751 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
** *
47440794 AGCCTATTAGGCACGAAGGCCCAAATA
1 AGCCTGCTAGGCACGAAGGCCCGAATA
47440821 TAATACCAGC
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
Found at i:47445133 original size:50 final size:50
Alignment explanation
Indices: 47445074--47445177 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
47445064 TTTGACTCAA
47445074 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
1 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
*
47445124 ATATAGGTACTAAAGGTCAATAAGTAAGGTTGGCTTTTTGGCTCTATGTT
1 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
47445174 -TATA
1 ATATA
47445178 CCAGATCACT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (50 bp):
ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
Found at i:47448938 original size:34 final size:34
Alignment explanation
Indices: 47448900--47448970 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
47448890 ATCCACAGAG
* *
47448900 AAAGTCCAC-AGGGACAGTAGACTCAAAATAGAAA
1 AAAGTCCACTA-GGACAGTAAACACAAAATAGAAA
* * *
47448934 AAAGTTCACTAGGATAGTAAACACAAAATAGAGA
1 AAAGTCCACTAGGACAGTAAACACAAAATAGAAA
47448968 AAA
1 AAA
47448971 CCCATTGGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (34 bp):
AAAGTCCACTAGGACAGTAAACACAAAATAGAAA
Found at i:47450553 original size:22 final size:24
Alignment explanation
Indices: 47450528--47450582 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
47450518 TAGTATGTTT
47450528 TAAATGCTTTAATATAATT-TG-A
1 TAAATGCTTTAATATAATTATGAA
*
47450550 TAAATGCTTTATTATAATTATGAA
1 TAAATGCTTTAATATAATTATGAA
*
47450574 TATATGCTT
1 TAAATGCTT
47450583 ATTGATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 18 0.62
23 2 0.07
24 9 0.31
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (24 bp):
TAAATGCTTTAATATAATTATGAA
Found at i:47450801 original size:42 final size:43
Alignment explanation
Indices: 47450739--47450859 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 43
47450729 AACTAAGGAG
* * * **
47450739 TCCGAACTCGTTGAGTGGTCTGAGTTCATGA-GATATG-TGGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATG-GATGCAAGCA
*
47450781 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCAAGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATGCAAGCA
* * *
47450824 TACGAGCTCGTTGAGA-GTCTGGGTTCATGGTGGATG
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATG
47450860 TGATTCATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 48 0.72
43 19 0.28
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATGCAAGCA
Found at i:47452331 original size:20 final size:20
Alignment explanation
Indices: 47452306--47452352 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47452296 CGGGTAAGGG
*
47452306 ACACGGGAATGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
**
47452326 ACACGGCCGTGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
47452346 ACACGGC
1 ACACGGC
47452353 GTGTGCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.36, G:0.26, T:0.09
Consensus pattern (20 bp):
ACACGGCAATGTCCCAAAGC
Found at i:47454299 original size:20 final size:20
Alignment explanation
Indices: 47454274--47454320 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47454264 CGGGTAAGGG
*
47454274 ACACGGGAATGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
**
47454294 ACACGGCCGTGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
47454314 ACACGGC
1 ACACGGC
47454321 GTGTGCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.36, G:0.26, T:0.09
Consensus pattern (20 bp):
ACACGGCAATGTCCCAAAGC
Found at i:47455974 original size:55 final size:57
Alignment explanation
Indices: 47455851--47455979 Score: 156
Period size: 55 Copynumber: 2.3 Consensus size: 57
47455841 CAAATAGACA
* * * * *
47455851 AAAATGAAAAATGAAAATGGAGAAATGAAAACATTTGGACATGATTTTTATTTCTTCC
1 AAAAT-AAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCTTCC
* *
47455909 AAAATGAAAATGAAAATGGAG-AATG-GAACATTTAGAAATGAATGTGATTT-TCTCC
1 AAAATAAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCT-TCC
47455964 AAAATAAAAATGAAAA
1 AAAATAAAAATGAAAA
47455980 GGACTTGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
54 1 0.02
55 37 0.60
56 4 0.06
57 15 0.24
58 5 0.08
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (57 bp):
AAAATAAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCTTCC
Found at i:47460698 original size:46 final size:45
Alignment explanation
Indices: 47460566--47460784 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
47460556 CATATCTTTT
* * * *
47460566 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTAGTAT
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTG-AG
47460612 CCGATGCATGTCCCAGACATGTCTTACACT-G-ACTTACGTCTTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTTGA-G
* * * *
47460658 CCGAGGCATGTCCCAAACATTTCTTACACTAGCACTCGTCTTAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGA-G
* * * * **
47460704 CCGATGCTGTGTCCCAGACATGGTCTTACACTTGCTCTCATAATGTAG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTG-AG
*
47460752 CCGATGCATGTCCTAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
47460785 TCACAATAAC
Statistics
Matches: 143, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 13 0.09
45 15 0.10
46 64 0.45
47 24 0.17
48 26 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGAG
Found at i:47468366 original size:46 final size:44
Alignment explanation
Indices: 47468241--47468449 Score: 174
Period size: 46 Copynumber: 4.6 Consensus size: 44
47468231 GTACCGATGC
* *
47468241 CATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACACGTCTTG-AGCTGAGG
* *
47468286 CATGTCCTAGACAT-GTCTTACACTGACTTACGTCTCGAGGCTGAGG
1 CATGTCCCAGACATGGTCTTACACTGAC--ACGTCTTGA-GCTGAGG
* * * *
47468332 CATGTCCCAGACAT-GTCTTACACTAGCACCCGTCTTAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACT-G-ACACGTCTTGA-GCTGA-GG
* * * *
47468379 CATGTCCCAGACATGGTCTTACACTGACTC-TCATAATGTGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACACGTC-T--TGAGCT-GAGG
47468426 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
47468450 AGCTCACAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
44 13 0.10
45 16 0.12
46 59 0.44
47 32 0.24
48 15 0.11
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGGTCTTACACTGACACGTCTTGAGCTGAGG
Found at i:47468429 original size:94 final size:91
Alignment explanation
Indices: 47468235--47468457 Score: 240
Period size: 94 Copynumber: 2.4 Consensus size: 91
47468225 ATATCTGTAC
* * *
47468235 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTAGCTGATGCATGTCCTAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAGAC
* *
47468298 ATGTCTTACACTGACTTACGTCTCGAGG
64 ATGTCTTACACTGACTTACATATCGAGG
* * *
47468326 CTGAGGCATGTCCCAGACATGTCTTACACTAGCACCCGTCTTA-ATGCCGATGCCATGTCCCAGA
1 C-GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATA-GCCGATG-CATGTCCCAGA
*
47468390 CATGGTCTTACACTGACTCT-CATAAT-GTGG
63 CAT-GTCTTACACTGACT-TACAT-ATCGAGG
*
47468420 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCACACA
47468458 ATAACCCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
90 10 0.09
91 17 0.15
92 16 0.15
93 13 0.12
94 51 0.46
95 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTTACATATCGAGG
Found at i:47469581 original size:53 final size:52
Alignment explanation
Indices: 47469501--47469605 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 52
47469491 GAGGAAGATA
47469501 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTTATCATTGACC
1 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCA-TTTTATCATTGACC
47469554 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
1 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
47469606 GCCTTTTTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 14 0.27
53 38 0.73
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (52 bp):
AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
Found at i:47503777 original size:46 final size:44
Alignment explanation
Indices: 47503563--47503778 Score: 165
Period size: 46 Copynumber: 4.7 Consensus size: 44
47503553 ATTTGTGTGC
* *
47503563 CAGTGTAAGACATGTCTCGGACATGCATTGGCCACATTATGAGA---GT
1 CAGTGTAAGACATGTCTGGGACATGCA-T--CGAC--TATGAGACGTGT
* * *
47503609 CAGTGTAACACCATGTCTGGGACATGGCGTCGAC-ATTGAGACGAGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-TGAGACGTGT
* * * *
47503655 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGACGTAAGC
1 -C-AGTGTAAGACATGTCTGGGACATGCATC-GACTATGAGACGT--GT
47503703 CAGTGTAAGACATGTCTGGGACATGCATCGACTATGAG-CTGTGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGACTATGAGAC-GTGT
47503747 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCG
47503779 GCACAAATAT
Statistics
Matches: 139, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 11 0.08
45 21 0.15
46 59 0.42
47 31 0.22
48 11 0.08
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACTATGAGACGTGT
Found at i:47507069 original size:10 final size:10
Alignment explanation
Indices: 47507054--47507098 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
47507044 TAATTTTAGG
47507054 ATTTAT-TTT
1 ATTTATCTTT
47507063 CATTTATCTTT
1 -ATTTATCTTT
47507074 ATTTATCTTT
1 ATTTATCTTT
* *
47507084 AATTATATTT
1 ATTTATCTTT
47507094 ATTTA
1 ATTTA
47507099 GGTGGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 28 0.90
11 3 0.10
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:47507861 original size:17 final size:18
Alignment explanation
Indices: 47507829--47507862 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47507819 TTTTCCTCAT
*
47507829 TTTAATTTCTGCAATTTA
1 TTTAACTTCTGCAATTTA
47507847 TTTAACTTC-GCAATTT
1 TTTAACTTCTGCAATTT
47507863 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAACTTCTGCAATTTA
Found at i:47509982 original size:16 final size:16
Alignment explanation
Indices: 47509949--47509983 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47509939 ATGTATCGAC
* *
47509949 AAAAGTCGAAGTGTCG
1 AAAAGTCGAAATGCCG
47509965 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
47509981 AAA
1 AAA
47509984 TACCGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.26, T:0.14
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:47510260 original size:29 final size:29
Alignment explanation
Indices: 47510220--47510285 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
47510210 AATGTGACTA
* * *
47510220 GGCCTAACGGGCCATATAAATGTCATTTG
1 GGCCTAATGGGCCATATAAAGGTAATTTG
*
47510249 GGCCTAATGGGCCATATACAGGTAATTTG
1 GGCCTAATGGGCCATATAAAGGTAATTTG
47510278 GGCCTAAT
1 GGCCTAAT
47510286 AGTGGGCCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTAATTTG
Found at i:47519165 original size:85 final size:85
Alignment explanation
Indices: 47519036--47519214 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
47519026 TATTTTATTG
47519036 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47519101 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
47519121 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47519186 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47519206 CCCATGCTC
1 CCCATGCTC
47519215 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:47525649 original size:79 final size:81
Alignment explanation
Indices: 47525540--47525722 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
47525530 TACTCGTTCA
* *
47525540 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
47525603 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
47525620 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
47525683 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
47525699 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47525723 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:47525722 original size:40 final size:40
Alignment explanation
Indices: 47525519--47525722 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
47525509 CGGAATTTAA
** *
47525519 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47525559 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47525599 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47525638 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47525678 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47525718 CCGGA
1 CCGGA
47525723 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47526918 original size:56 final size:56
Alignment explanation
Indices: 47526851--47526970 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
47526841 TATTAGTTTA
47526851 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
47526907 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47526963 TTGCCCAT
1 TTGCCCAT
47526971 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:47527608 original size:43 final size:43
Alignment explanation
Indices: 47527547--47527632 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
47527537 ATATCGTTTC
47527547 TCTTCCAATTCAATTGTGTTCTTCATATGATTTCTTTAATTGG
1 TCTTCCAATTCAATTGTGTTCTTCATATGATTTCTTTAATTGG
*
47527590 TCTTCCGATTCAATTGTGTTCTTCATATGATTTCTTTAATTGG
1 TCTTCCAATTCAATTGTGTTCTTCATATGATTTCTTTAATTGG
47527633 AATTGAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (43 bp):
TCTTCCAATTCAATTGTGTTCTTCATATGATTTCTTTAATTGG
Found at i:47534900 original size:34 final size:34
Alignment explanation
Indices: 47534862--47534927 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
47534852 GTTTTCATAA
47534862 TTTAGTTTATTTGTTTCTTCAAGAGATCTGATAG
1 TTTAGTTTATTTGTTTCTTCAAGAGATCTGATAG
*
47534896 TTTAGTTTATTTGTTTTTTCAAGAGATCTGAT
1 TTTAGTTTATTTGTTTCTTCAAGAGATCTGAT
47534928 TGTAAAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.23, C:0.08, G:0.17, T:0.53
Consensus pattern (34 bp):
TTTAGTTTATTTGTTTCTTCAAGAGATCTGATAG
Found at i:47535478 original size:21 final size:20
Alignment explanation
Indices: 47535436--47535493 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
47535426 ATTCAGTCTA
*
47535436 TTTATATTTATCTTTTGCAAT
1 TTTA-ATTTATTTTTTGCAAT
*
47535457 TTTAATTTATTTTTATGTAAT
1 TTTAATTTATTTTT-TGCAAT
47535478 TTTAATTTATTATTTT
1 TTTAATTTATT-TTTT
47535494 ATAGACCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTAATTTATTTTTTGCAAT
Found at i:47545073 original size:43 final size:43
Alignment explanation
Indices: 47545025--47545136 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
47545015 CAACTGTTCA
* * * *
47545025 GTGAAAC-GAACAAATATTATATATGTTTGCTCAGCACTGATTG
1 GTGAAACTG-ACAAATATTATACATGTGTGCCCAGCACTGATCG
*
47545068 GTGAAACTGACAAATATTATACATGTGTGCCCAGCACTGGTCG
1 GTGAAACTGACAAATATTATACATGTGTGCCCAGCACTGATCG
* *
47545111 GTGAAACCT-ATAAATATTTTACATGT
1 GTGAAA-CTGACAAATATTATACATGT
47545137 CCTATAACAC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 57 0.95
44 3 0.05
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (43 bp):
GTGAAACTGACAAATATTATACATGTGTGCCCAGCACTGATCG
Found at i:47547396 original size:27 final size:27
Alignment explanation
Indices: 47547365--47547542 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
47547355 TAAATTGTAC
*
47547365 AGCACTAAGTGTGCGATTTGACTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47547392 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47547418 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47547446 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47547474 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47547501 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47547528 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47547543 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47547481 original size:82 final size:81
Alignment explanation
Indices: 47547366--47547521 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
47547356 AAATTGTACA
* *
47547366 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47547430 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
47547447 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47547512 TGCGAGTTGA
65 TGCGAATTGA
47547522 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47547533 original size:82 final size:81
Alignment explanation
Indices: 47547362--47547542 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
47547352 GATTAAATTG
* *
47547362 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47547427 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
47547443 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47547507 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47547525 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47547543 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47552552 original size:47 final size:47
Alignment explanation
Indices: 47552489--47552843 Score: 575
Period size: 47 Copynumber: 7.4 Consensus size: 47
47552479 CCCTTCGGGA
* * * *
47552489 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552536 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552583 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552630 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552677 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552726 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47552775 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47552824 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
47552844 GTACATCAAT
Statistics
Matches: 297, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 156 0.53
49 141 0.47
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.