Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold159
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: 552906
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:247765 original size:20 final size:20
Alignment explanation
Indices: 247742--247780 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
247732 TTTGAAAAAA
*
247742 TAGATTTGGATTAAAAAATT
1 TAGATTTAGATTAAAAAATT
*
247762 TAGATTTAGATTTAAAAAT
1 TAGATTTAGATTAAAAAAT
247781 CCAAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (20 bp):
TAGATTTAGATTAAAAAATT
Found at i:248208 original size:32 final size:31
Alignment explanation
Indices: 248167--248241 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
248157 GTTTTAAAAA
* * *
248167 TTATTAAATTTACGAATAATTATATTTAATAT
1 TTATCAAATTTACAAATAATTAT-GTTAATAT
*
248199 TTATCAAATTTATAAATAATTATGTTAATAT
1 TTATCAAATTTACAAATAATTATGTTAATAT
**
248230 CCATCAAATTTA
1 TTATCAAATTTA
248242 TAATCAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 17 0.46
32 20 0.54
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (31 bp):
TTATCAAATTTACAAATAATTATGTTAATAT
Found at i:248236 original size:31 final size:32
Alignment explanation
Indices: 248172--248244 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
248162 AAAAATTATT
** * **
248172 AAATTTACGAATAATTATATTTAATATTTATC
1 AAATTTATAAATAATTATAGTTAATATCCATC
248204 AAATTTATAAATAATTAT-GTTAATATCCATC
1 AAATTTATAAATAATTATAGTTAATATCCATC
248235 AAATTTATAA
1 AAATTTATAA
248245 TCAATATCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.44
Consensus pattern (32 bp):
AAATTTATAAATAATTATAGTTAATATCCATC
Found at i:248540 original size:7 final size:7
Alignment explanation
Indices: 248528--248593 Score: 62
Period size: 7 Copynumber: 9.1 Consensus size: 7
248518 TACGAATAAA
248528 AAATTTT
1 AAATTTT
248535 AAATTTAT
1 AAATTT-T
*
248543 AAATTTAA
1 AAATTT-T
*
248551 AAATTAT
1 AAATTTT
248558 AAATTTT
1 AAATTTT
*
248565 AAATATCT
1 AAAT-TTT
248573 AAATTTT
1 AAATTTT
248580 -AATTTT
1 AAATTTT
*
248586 AAAATTT
1 AAATTTT
248593 A
1 A
248594 GCCTAAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
6 6 0.12
7 24 0.49
8 19 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (7 bp):
AAATTTT
Found at i:248548 original size:15 final size:15
Alignment explanation
Indices: 248528--248592 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
248518 TACGAATAAA
248528 AAATTTTAAATTTAT
1 AAATTTTAAATTTAT
* *
248543 AAATTTAAAAATTAT
1 AAATTTTAAATTTAT
* *
248558 AAATTTTAAATATCT
1 AAATTTTAAATTTAT
*
248573 AAATTTTAATTTTA-
1 AAATTTTAAATTTAT
248587 AAATTT
1 AAATTT
248593 AGCCTAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
14 6 0.15
15 35 0.85
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTTTAAATTTAT
Found at i:251681 original size:13 final size:13
Alignment explanation
Indices: 251633--251682 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
251623 TAAACTTACC
251633 AAAAGCAATTCAT
1 AAAAGCAATTCAT
* *
251646 AAAAACAATTCTAGA
1 AAAAGCAATTC-A-T
251661 AAATAGCAATTCAT
1 AAA-AGCAATTCAT
251675 AAAAGCAA
1 AAAAGCAA
251683 GGCAACATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 15 0.50
14 4 0.13
15 4 0.13
16 7 0.23
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (13 bp):
AAAAGCAATTCAT
Found at i:252826 original size:23 final size:24
Alignment explanation
Indices: 252776--252831 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
252766 AATATAAAAA
*
252776 TAATATAA-TAAAATGATATATTT
1 TAATATAATTAAAATAATATATTT
* *
252799 AAATATAATTAATATAATAT-TTT
1 TAATATAATTAAAATAATATATTT
252822 TAATA-AATTA
1 TAATATAATTA
252832 TTTATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 14 0.50
24 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATATAATTAAAATAATATATTT
Found at i:252856 original size:17 final size:19
Alignment explanation
Indices: 252811--252877 Score: 77
Period size: 17 Copynumber: 3.7 Consensus size: 19
252801 ATATAATTAA
* *
252811 TATAATATTTTTAATAAAT
1 TATAATATATTTAATAATT
*
252830 TAT-TTATATTTAA-AATT
1 TATAATATATTTAATAATT
252847 T-TAATATATTTAATAATT
1 TATAATATATTTAATAATT
*
252865 TATATTATATTTA
1 TATAATATATTTA
252878 TACGTATACA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 13 0.32
18 13 0.32
19 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATATATTTAATAATT
Found at i:252901 original size:47 final size:47
Alignment explanation
Indices: 252848--252943 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
252838 TTTAAAATTT
252848 TAATATATTTAATAATTTATATTATATTTATACGTATACACCAAACA
1 TAATATATTTAATAATTTATATTATATTTATACGTATACACCAAACA
* *
252895 TAATATATTTAATAATTTATATTATATTTATATGTATACATCAAACA
1 TAATATATTTAATAATTTATATTATATTTATACGTATACACCAAACA
252942 TA
1 TA
252944 GAAGAAAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (47 bp):
TAATATATTTAATAATTTATATTATATTTATACGTATACACCAAACA
Found at i:256326 original size:21 final size:21
Alignment explanation
Indices: 256293--256337 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
256283 TTGTAAGATG
*
256293 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
256315 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
256335 AAA
1 AAA
256338 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:258155 original size:15 final size:15
Alignment explanation
Indices: 258135--258165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
258125 TAAAAATGTC
*
258135 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
258150 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
258165 C
1 C
258166 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:260266 original size:13 final size:13
Alignment explanation
Indices: 260248--260285 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
260238 CATTTTTCTT
260248 TGTATCGATACAA
1 TGTATCGATACAA
*
260261 TGTATCGATACAT
1 TGTATCGATACAA
260274 TGTATCGATACA
1 TGTATCGATACA
260286 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:262198 original size:13 final size:13
Alignment explanation
Indices: 262180--262205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
262170 TACAGCAAGT
262180 ATGTATCGATACA
1 ATGTATCGATACA
262193 ATGTATCGATACA
1 ATGTATCGATACA
262206 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:264090 original size:51 final size:50
Alignment explanation
Indices: 264026--264726 Score: 221
Period size: 51 Copynumber: 14.0 Consensus size: 50
264016 AGTAAAATTT
** *
264026 TTATACAAATGCCAACTAATATGGACTTGGATTCTATAAGGCTTGATCTCC
1 TTATACAGGTGCCAACTAATATGGACTTGG-TTCTATAAGGCTTGACCTCC
* * * *
264077 TTATACAAGTGCCAGCTAATGTGGACTTTAGGTTCTATAGGGCTTGACCT-C
1 TTATACAGGTGCCAACTAATATGGAC-TT-GGTTCTATAAGGCTTGACCTCC
* * * ** ** * * *
264128 TCTATACAGGTGCTAGCTAATGTGGACTTTAATTCT-GGACGCATGAGCTCC
1 T-TATACAGGTGCCAACTAATATGGAC-TTGGTTCTATAAGGCTTGACCTCC
* * * * * *
264179 CTATATAGGTGCCAAATAATATAGA----GCTCT-TCAAGGCTTGAGCT-C
1 TTATACAGGTGCCAACTAATATGGACTTGGTTCTAT-AAGGCTTGACCTCC
* ** * *
264224 TCTACACAGGTGCCAACTAATATGGACTTTGACTCTATAAGGCTTGACTTCT
1 T-TATACAGGTGCCAACTAATATGGAC-TTGGTTCTATAAGGCTTGACCTCC
264276 TTATACAGGTGCCAACTAATATGGACATTAGGTTCTAT-AGTGCTTGACCTCC
1 TTATACAGGTGCCAACTAATATGGAC-TT-GGTTCTATAAG-GCTTGACCTCC
** * * * *
264328 CCA-GCTAGTGTG--AACT--T-T-GAC-----TCTATAGGGCTTAACCTCA
1 TTATAC-AG-GTGCCAACTAATATGGACTTGGTTCTATAAGGCTTGACCTCC
* * * * ** * * * *
264368 TAATATAGGT-ACAAGTTAACGTGGACTTTGGTATTTAT-TGGACTTAACTTCC
1 TTATACAGGTGCCAA-CTAATATGGAC-TTGGT-TCTATAAGG-CTTGACCTCC
* * * * * * * *
264420 TTATATAGCTGACAGCTAGTGTGGACTTGGATTTTATAGGGCTTGACCT-C
1 TTATACAGGTGCCAACTAATATGGACTTGG-TTCTATAAGGCTTGACCTCC
* ** * * * * * * *
264470 TATATATAAATGCCAGCTAGTGTGGACTTGCATTCTATAGGGCTAGACCTCA
1 T-TATACAGGTGCCAACTAATATGGACTTG-GTTCTATAAGGCTTGACCTCC
* * * *
264522 TTATGCAGGTGCCAGCTAATATGGACTTTAGGTTCTACAGGGCTTGACCTCCC
1 TTATACAGGTGCCAACTAATATGGAC-TT-GGTTCTATAAGGCTTGACCT-CC
* * *** * * * * *
264575 TT-TATAGTTTTTAACTAGTGTGGACTTAGATTTTATAGGGCTTGACCT-C
1 TTATACAGGTGCCAACTAATATGGACTT-GGTTCTATAAGGCTTGACCTCC
* * * *
264624 TCTATAAAGGTGCCAACTAATATGAACTTTGGGTTTTATAGGGCTTGACCTCC
1 T-TATACAGGTGCCAACTAATATGGAC-TT-GGTTCTATAAGGCTTGACCTCC
* * *
264677 TTATACAAGTGCCAACTAGTGTGGACTTGGATTCTATAAGGCTTGACCTC
1 TTATACAGGTGCCAACTAATATGGACTTGG-TTCTATAAGGCTTGACCTC
264727 GCCATACAAG
Statistics
Matches: 488, Mismatches: 114, Indels: 96
0.70 0.16 0.14
Matches are distributed among these distances:
39 2 0.00
40 19 0.04
41 2 0.00
44 1 0.00
45 7 0.01
46 29 0.06
47 3 0.01
48 1 0.00
49 3 0.01
50 30 0.06
51 208 0.43
52 169 0.35
53 14 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (50 bp):
TTATACAGGTGCCAACTAATATGGACTTGGTTCTATAAGGCTTGACCTCC
Found at i:264638 original size:154 final size:154
Alignment explanation
Indices: 264435--264726 Score: 365
Period size: 154 Copynumber: 1.9 Consensus size: 154
264425 TAGCTGACAG
* * * * *
264435 CTAGTGTGGACTTGGATTTTATAGGGCTTGACCTCTATATATAAATGCCAGCTAGTGTGGAC-TT
1 CTAGTGTGGACTTAGATTTTATAGGGCTTGACCTCTATATATAAATGCCAACTAATATGAACTTT
* * * *
264499 GCATTCTATAGGGCTAGACCTCATTATGCAGGTGCCAGCTAATATGGACTTTAGG-TTCTACAGG
66 GCATTCTATAGGGCTAGACCTCATTATACAAGTGCCAACTAATATGGAC-TT-GGATTCTACAAG
264563 GCTTGACCTCCCTTTATAGTTTTTAA
129 GCTTGACCTCCCTTTATAGTTTTTAA
* *
264589 CTAGTGTGGACTTAGATTTTATAGGGCTTGACCTCTCTATA-AAGGTGCCAACTAATATGAACTT
1 CTAGTGTGGACTTAGATTTTATAGGGCTTGACCTCTATATATAA-ATGCCAACTAATATGAACTT
** * * * * * *
264653 TGGGTTTTATAGGGCTTGACCTCCTTATACAAGTGCCAACTAGTGTGGACTTGGATTCTATAAGG
65 TGCATTCTATAGGGCTAGACCTCATTATACAAGTGCCAACTAATATGGACTTGGATTCTACAAGG
264718 CTTGACCTC
130 CTTGACCTC
264727 GCCATACAAG
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
153 4 0.03
154 71 0.61
155 41 0.35
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (154 bp):
CTAGTGTGGACTTAGATTTTATAGGGCTTGACCTCTATATATAAATGCCAACTAATATGAACTTT
GCATTCTATAGGGCTAGACCTCATTATACAAGTGCCAACTAATATGGACTTGGATTCTACAAGGC
TTGACCTCCCTTTATAGTTTTTAA
Found at i:264734 original size:51 final size:50
Alignment explanation
Indices: 264435--264755 Score: 243
Period size: 51 Copynumber: 6.3 Consensus size: 50
264425 TAGCTGACAG
* * * * *
264435 CTAGTGTGGACTTGGATTTTATAGGGCTTGACCTCTATATATAAATGCCAG
1 CTAGTGTGGACTTGGATTCTATAGGGCTTGACCTC-CTATACAAGTGCCAA
* * * * * *
264486 CTAGTGTGGACTTGCATTCTATAGGGCTAGACCTCATTATGCAGGTGCCAG
1 CTAGTGTGGACTTGGATTCTATAGGGCTTGACCTC-CTATACAAGTGCCAA
* * * * * ***
264537 CTAATATGGACTTTAGG-TTCTACAGGGCTTGACCTCCCTTTA-TAGTTTTTAA
1 CTAGTGTGGAC-TT-GGATTCTATAGGGCTTGACCT-CCTATACAAG-TGCCAA
* *
264589 CTAGTGTGGACTTAGATTTTATAGGGCTTGACCTCTCTATA-AAGGTGCCAA
1 CTAGTGTGGACTTGGATTCTATAGGGCTTGACCTC-CTATACAA-GTGCCAA
* * * * *
264640 CTAATATGAACTTTGGGTTTTATAGGGCTTGACCTCCTTATACAAGTGCCAA
1 CTAGTGTGGAC-TTGGATTCTATAGGGCTTGACCTCC-TATACAAGTGCCAA
* * * *
264692 CTAGTGTGGACTTGGATTCTATAAGGCTTGACCTCGCCATACAAGTGCTAG
1 CTAGTGTGGACTTGGATTCTATAGGGCTTGACCTC-CTATACAAGTGCCAA
*
264743 CTAATGTGGACTT
1 CTAGTGTGGACTT
264756 TGGGTTTAAT
Statistics
Matches: 211, Mismatches: 48, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
50 2 0.01
51 131 0.62
52 74 0.35
53 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
CTAGTGTGGACTTGGATTCTATAGGGCTTGACCTCCTATACAAGTGCCAA
Found at i:264747 original size:103 final size:102
Alignment explanation
Indices: 264432--264768 Score: 340
Period size: 103 Copynumber: 3.3 Consensus size: 102
264422 ATATAGCTGA
* * * * *
264432 CAGCTAGTGTGGAC-TTGGATTTTATAGGGCTTGACCT-CTATATATAAATGCCAGCTAGTGTGG
1 CAGCTAATATGGACTTTGGGTTTTATAGGGCTTGACCTCCT-TATA-AAGTGCCAACTAGTGTGG
* * * * *
264495 ACTTGCATTCTATAGGGCTAGACCTCATTATGCAGGTGC
64 ACTTGGATTCTATAGGGCTTGACCTCACTATACAAGTGC
* * * * ***
264534 CAGCTAATATGGACTTTAGGTTCTACAGGGCTTGACCTCCCTT-TATAGTTTTTAACTAGTGTGG
1 CAGCTAATATGGACTTTGGGTTTTATAGGGCTTGACCT-CCTTATAAAG-TGCCAACTAGTGTGG
* * *
264598 ACTTAGATTTTATAGGGCTTGACCTCTCTATA-AAGGTGC
64 ACTTGGATTCTATAGGGCTTGACCTCACTATACAA-GTGC
* *
264637 CAACTAATATGAACTTTGGGTTTTATAGGGCTTGACCTCCTTATACAAGTGCCAACTAGTGTGGA
1 CAGCTAATATGGACTTTGGGTTTTATAGGGCTTGACCTCCTTATA-AAGTGCCAACTAGTGTGGA
* * *
264702 CTTGGATTCTATAAGGCTTGACCTCGCCATACAAGTGC
65 CTTGGATTCTATAGGGCTTGACCTCACTATACAAGTGC
* * *
264740 TAGCTAATGTGGACTTTGGGTTTAATAGG
1 CAGCTAATATGGACTTTGGGTTTTATAGG
264769 ACCTATTTAT
Statistics
Matches: 188, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
102 18 0.10
103 163 0.87
104 5 0.03
105 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (102 bp):
CAGCTAATATGGACTTTGGGTTTTATAGGGCTTGACCTCCTTATAAAGTGCCAACTAGTGTGGAC
TTGGATTCTATAGGGCTTGACCTCACTATACAAGTGC
Found at i:265856 original size:16 final size:16
Alignment explanation
Indices: 265817--265868 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
265807 TGAGTGCAAT
* *
265817 TGCACGTGAGTGTGGA
1 TGCACATGAGTGTGAA
*
265833 TGCCCATGAGTGTGAA
1 TGCACATGAGTGTGAA
* * *
265849 TGGACATGACTGGGAA
1 TGCACATGAGTGTGAA
265865 TGCA
1 TGCA
265869 TGAGCACAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.37, T:0.23
Consensus pattern (16 bp):
TGCACATGAGTGTGAA
Found at i:265936 original size:16 final size:16
Alignment explanation
Indices: 265876--265937 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
265866 GCATGAGCAC
*
265876 AAAA-GCATGTGAATG
1 AAAATGCATGTGATTG
* *
265891 AGAATGCATGTGAGTG
1 AAAATGCATGTGATTG
* *
265907 TAAATGCTTGTGATTG
1 AAAATGCATGTGATTG
*
265923 AAAATGCATATGATT
1 AAAATGCATGTGATT
265938 ACGAATGAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 3 0.08
16 34 0.92
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (16 bp):
AAAATGCATGTGATTG
Found at i:266057 original size:80 final size:79
Alignment explanation
Indices: 265941--266097 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
265931 TATGATTACG
* * *
265941 AATGAGATGAGTGTGATTGCACAACAGTATAGATGCTTGTAAGTGCAAATG-GACATAAATAGGA
1 AATGAGATAAGTGCGATTGCACAACAGTATAGATGCTTGTAAGTACAAATGAG-CATAAATAGGA
266005 ATGCACATGAGTGCA
65 ATGCACATGAGTGCA
** * * * *
266020 AATGTAGATAAGTGCGATTGCACATGAGTAT-GAATGCTTGTGAGTACGAATGAGCATGAATGGG
1 AATG-AGATAAGTGCGATTGCACAACAGTATAG-ATGCTTGTAAGTACAAATGAGCATAAATAGG
266084 AATGCACATGAGTG
64 AATGCACATGAGTG
266098 TGAAGGCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
79 5 0.08
80 60 0.91
81 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (79 bp):
AATGAGATAAGTGCGATTGCACAACAGTATAGATGCTTGTAAGTACAAATGAGCATAAATAGGAA
TGCACATGAGTGCA
Found at i:266093 original size:16 final size:16
Alignment explanation
Indices: 266074--266124 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
266064 TACGAATGAG
*
266074 CATGAATGGGAATGCA
1 CATGAATGAGAATGCA
* * *
266090 CATGAGTGTGAAGGCA
1 CATGAATGAGAATGCA
*
266106 CATAAATGAGAATGCA
1 CATGAATGAGAATGCA
266122 CAT
1 CAT
266125 CACTGTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (16 bp):
CATGAATGAGAATGCA
Found at i:266223 original size:10 final size:10
Alignment explanation
Indices: 266208--266237 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
266198 GGTTCGTGAG
266208 CATGAATGCA
1 CATGAATGCA
266218 CATGAATGCA
1 CATGAATGCA
*
266228 GATGAATGCA
1 CATGAATGCA
266238 TGTGAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (10 bp):
CATGAATGCA
Found at i:267144 original size:13 final size:13
Alignment explanation
Indices: 267126--267155 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
267116 GCTAAAACTC
267126 ACATTGTATCCAT
1 ACATTGTATCCAT
*
267139 ACATTGTATCGAT
1 ACATTGTATCCAT
267152 ACAT
1 ACAT
267156 GAAGGATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCCAT
Found at i:267166 original size:20 final size:20
Alignment explanation
Indices: 267141--267195 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
267131 GTATCCATAC
*
267141 ATTGTATCGATACATGAAGG
1 ATTGTATCGATACATGAAGA
**
267161 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGAAGA
*
267181 AATGTATCGATACAT
1 ATTGTATCGATACAT
267196 TGAGCCCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:271078 original size:32 final size:32
Alignment explanation
Indices: 271042--271106 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
271032 CATTTTTCAT
* *
271042 TGTTCATGTATTGATACATTACTGTTCATCAC
1 TGTTCATGTATCGATACATCACTGTTCATCAC
271074 TGTTCATGTATCGATACATCACTGTTCATCAC
1 TGTTCATGTATCGATACATCACTGTTCATCAC
271106 T
1 T
271107 ATACATTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (32 bp):
TGTTCATGTATCGATACATCACTGTTCATCAC
Found at i:271167 original size:20 final size:20
Alignment explanation
Indices: 271142--271194 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
271132 TTCAAATGCA
271142 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
*
271162 TGTATCGATACGTTATGAAT
1 TGTATCGATACATTATGAAT
* *
271182 TATATCAATACAT
1 TGTATCGATACAT
271195 AGGAGCGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:271629 original size:35 final size:36
Alignment explanation
Indices: 271559--271645 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
271549 CTAAGTGATT
**
271559 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
*
271595 GAGAGGTTCTATTTTAGCCCGTG-AAAAGATA-GG-
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
*
271628 GAG-GTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
271646 TTGAAAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 13 0.28
33 3 0.07
34 2 0.04
35 8 0.17
36 20 0.43
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
Found at i:274588 original size:20 final size:20
Alignment explanation
Indices: 274560--274622 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
274550 CTGCCCAGAT
*
274560 GTATTGATACTACGTTCTTA
1 GTATCGATACTACGTTCTTA
274580 GTATCGATAC-A-----TT-
1 GTATCGATACTACGTTCTTA
*
274593 GTATTGATACTACGTTCTTA
1 GTATCGATACTACGTTCTTA
274613 GTATCGATAC
1 GTATCGATAC
274623 AAGGGCACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
19 3 0.09
20 18 0.55
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
GTATCGATACTACGTTCTTA
Found at i:274601 original size:33 final size:33
Alignment explanation
Indices: 274559--274623 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
274549 ACTGCCCAGA
274559 TGTATTGATACTACGTTCTTAGTATCGATACAT
1 TGTATTGATACTACGTTCTTAGTATCGATACAT
274592 TGTATTGATACTACGTTCTTAGTATCGATACA
1 TGTATTGATACTACGTTCTTAGTATCGATACA
274624 AGGGCACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATTGATACTACGTTCTTAGTATCGATACAT
Found at i:277246 original size:13 final size:13
Alignment explanation
Indices: 277228--277252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
277218 ACATATTGCT
277228 TTGTATCGATACG
1 TTGTATCGATACG
277241 TTGTATCGATAC
1 TTGTATCGATAC
277253 ATGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:277251 original size:33 final size:32
Alignment explanation
Indices: 277209--277271 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
277199 CACACCCAAA
* *
277209 TGTATCGATACATATTGCTTTGTATCGATACGT
1 TGTATCGATACATATT-CATTGTATCAATACGT
*
277242 TGTATCGATACATGTTCATTGTATCAATAC
1 TGTATCGATACATATTCATTGTATCAATAC
277272 ACACTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCAATACGT
Found at i:277508 original size:58 final size:58
Alignment explanation
Indices: 277433--277551 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
277423 TTGTATCGAT
277433 ACATAGGAGCATGAATGCGTGGAAACAAGCTCTAGACAAGTCAACAATAGCTGCAAAC
1 ACATAGGAGCATGAATGCGTGGAAACAAGCTCTAGACAAGTCAACAATAGCTGCAAAC
277491 ACATAGGAGCATGAATGCGTGGAAACAAGCTCTAGACAAGTCAACAATAGCTGCAAAC
1 ACATAGGAGCATGAATGCGTGGAAACAAGCTCTAGACAAGTCAACAATAGCTGCAAAC
277549 ACA
1 ACA
277552 ATCATTCAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (58 bp):
ACATAGGAGCATGAATGCGTGGAAACAAGCTCTAGACAAGTCAACAATAGCTGCAAAC
Found at i:278944 original size:22 final size:24
Alignment explanation
Indices: 278904--278947 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
278894 TTTTGGTTCT
*
278904 TTTTTTTTTCTTAATTTTGCTTTA
1 TTTTTTTTTCTTAACTTTGCTTTA
278928 TTTTTTTTT-TT-ACTTTGCTT
1 TTTTTTTTTCTTAACTTTGCTT
278948 CCTTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTCTTAACTTTGCTTTA
Found at i:278953 original size:22 final size:24
Alignment explanation
Indices: 278890--278954 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
278880 CTTAGTCTCC
* *
278890 TAACTTTTGGTTCTTTTTTTTTTCT
1 TAAC-TTTGCTTCATTTTTTTTTCT
* *
278915 TAATTTTGCTTTATTTTTTTTT-T
1 TAACTTTGCTTCATTTTTTTTTCT
*
278938 T-ACTTTGCTTCCTTTTT
1 TAACTTTGCTTCATTTTT
278955 CATTTTGAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
24 15 0.45
25 3 0.09
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.72
Consensus pattern (24 bp):
TAACTTTGCTTCATTTTTTTTTCT
Found at i:281863 original size:13 final size:13
Alignment explanation
Indices: 281845--281869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281835 ACATTTGGTC
281845 ATGTATCGATACA
1 ATGTATCGATACA
281858 ATGTATCGATAC
1 ATGTATCGATAC
281870 TGTGCAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:281912 original size:20 final size:19
Alignment explanation
Indices: 281859--281913 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
281849 ATCGATACAA
**
281859 TGTATCGATACTGTGCAAAT
1 TGTATCGATACT-TTTAAAT
281879 TGTATCGATACTTTTAAAT
1 TGTATCGATACTTTTAAAT
281898 GTGTATCGATACTTTT
1 -TGTATCGATACTTTT
281914 CAGGGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACTTTTAAAT
Found at i:284053 original size:13 final size:13
Alignment explanation
Indices: 284035--284086 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
284025 GATACATGGC
284035 ACATTGTATCGAT
1 ACATTGTATCGAT
284048 ACATTGTATCGAT
1 ACATTGTATCGAT
284061 ACA-TG-AT-G--
1 ACATTGTATCGAT
284069 A-ATTGTATCGAT
1 ACATTGTATCGAT
284081 ACATTG
1 ACATTG
284087 CTTCAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:284055 original size:33 final size:32
Alignment explanation
Indices: 284018--284086 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
284008 CTACCACTGT
284018 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
284051 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
284084 TTG
1 TTG
284087 CTTCAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:291315 original size:25 final size:25
Alignment explanation
Indices: 291261--291316 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
291251 TTCATATGAA
* *
291261 AAAGAAAAGAGAAAAAGGGAGAAAGG
1 AAAG-AAAGAGAAAAAGGAAGAAAAG
*
291287 AAAGAAAGA-AAAAAGAGAAGAAAAT
1 AAAGAAAGAGAAAAAG-GAAGAAAAG
291312 AAAGA
1 AAAGA
291317 GAAAATTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (25 bp):
AAAGAAAGAGAAAAAGGAAGAAAAG
Found at i:296918 original size:20 final size:20
Alignment explanation
Indices: 296893--296991 Score: 73
Period size: 15 Copynumber: 5.7 Consensus size: 20
296883 GTTTGAAGCA
296893 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
296913 ATG--T--AT-CAATACAT-
1 ATGTATCGATACAATTCATC
296927 -TGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
296946 ATG--T--AT-CAATACAT-
1 ATGTATCGATACAATTCATC
296960 -TGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
296979 ATGTATCAATACA
1 ATGTATCGATACA
296992 TTGTATCGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 28
0.65 0.05 0.30
Matches are distributed among these distances:
13 4 0.07
15 16 0.27
16 4 0.07
17 4 0.07
18 16 0.27
20 16 0.27
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:296932 original size:13 final size:12
Alignment explanation
Indices: 296912--297004 Score: 58
Period size: 13 Copynumber: 8.2 Consensus size: 12
296902 TACAATTCAT
296912 CATGTATCAATA
1 CATGTATCAATA
*
296924 CATTGTATCGATA
1 CA-TGTATCAATA
*
296937 CA-AT-TC-AT-
1 CATGTATCAATA
296945 CATGTATCAATA
1 CATGTATCAATA
*
296957 CATTGTATCGATA
1 CA-TGTATCAATA
*
296970 CA-AT-TC-AT-
1 CATGTATCAATA
296978 CATGTATCAATA
1 CATGTATCAATA
*
296990 CATTGTATCGATA
1 CA-TGTATCAATA
297003 CA
1 CA
297005 ATGTGCCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
8 4 0.06
9 6 0.10
10 8 0.13
11 6 0.10
12 6 0.10
13 33 0.52
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (12 bp):
CATGTATCAATA
Found at i:296936 original size:33 final size:33
Alignment explanation
Indices: 296894--297006 Score: 226
Period size: 33 Copynumber: 3.4 Consensus size: 33
296884 TTTGAAGCAA
296894 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCATCATGTATCAATACAT
296927 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCATCATGTATCAATACAT
296960 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCATCATGTATCAATACAT
296993 TGTATCGATACAAT
1 TGTATCGATACAAT
297007 GTGCCATGTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATTCATCATGTATCAATACAT
Found at i:297015 original size:33 final size:32
Alignment explanation
Indices: 296894--297024 Score: 201
Period size: 33 Copynumber: 4.0 Consensus size: 32
296884 TTTGAAGCAA
296894 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCA-CATGTATCAATACAT
296927 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCA-CATGTATCAATACAT
296960 TGTATCGATACAATTCATCATGTATCAATACAT
1 TGTATCGATACAATTCA-CATGTATCAATACAT
*
296993 TGTATCGATACAATGTGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CACATGTATCAATACA
297025 AATAGTGGTA
Statistics
Matches: 95, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
33 93 0.98
34 1 0.01
35 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCAATACAT
Found at i:297098 original size:19 final size:19
Alignment explanation
Indices: 297054--297109 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
297044 CTGCCAGTTT
**
297054 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
297074 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
297093 CATGTATCGATATAATG
1 CATGTATCGATACAATG
297110 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:297275 original size:22 final size:22
Alignment explanation
Indices: 297226--297279 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
297216 GTATTTTTAC
**
297226 TTAAAAACATTTGATTTAAGGT
1 TTAAAAACATTTGATTTAAACT
*
297248 TCAAAAACATTTG-TTTATAACT
1 TTAAAAACATTTGATTTA-AACT
297270 TT-AAAACATT
1 TTAAAAACATT
297280 CATTGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
TTAAAAACATTTGATTTAAACT
Found at i:297791 original size:31 final size:29
Alignment explanation
Indices: 297681--297829 Score: 102
Period size: 30 Copynumber: 4.8 Consensus size: 29
297671 GCTCTCATTT
* * * *
297681 AAAAATTTCTCCCCCTTAATAACTGTTTA
1 AAAAATTTTTCCCCCTTGATAATTGTTAA
* *
297710 AAAGATTTTCTCCCCCTTGATAATCGTTTTTTAAAA
1 AAAAATTTT-TCCCCCTTGATAA----TTGTT--AA
*
297746 AAAAATTTTCCCCCCTTGATAATCAT-TTAA
1 AAAAATTTTTCCCCCTTGATAAT--TGTTAA
*
297776 AAAAATTGTTTCCCCCTTAATAATTGTTAA
1 AAAAATT-TTTCCCCCTTGATAATTGTTAA
*
297806 AAAATTTTTTCTCCCCCTTGATAA
1 AAAA-ATTTT-TCCCCCTTGATAA
297830 AAATTTATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
29 8 0.08
30 31 0.33
31 29 0.31
32 2 0.02
33 1 0.01
34 3 0.03
35 12 0.13
36 9 0.09
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAAATTTTTCCCCCTTGATAATTGTTAA
Found at i:298592 original size:13 final size:13
Alignment explanation
Indices: 298574--298599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
298564 ACATAAGTGT
298574 TGTATCGATATAA
1 TGTATCGATATAA
298587 TGTATCGATATAA
1 TGTATCGATATAA
298600 AGTTGCCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:298669 original size:20 final size:20
Alignment explanation
Indices: 298624--298678 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
298614 CTGCCAAGGA
**
298624 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTGATC
298644 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
** *
298664 TTTGTATTGATACAT
1 AATGTATCGATACAT
298679 CTGGAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:300912 original size:27 final size:27
Alignment explanation
Indices: 300882--300952 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
300872 TTTATTCGTC
* *
300882 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTACTCCAA
*
300909 GGGGACACTCCAACCCCATTACTTCAA
1 GGGGACACTCCAACCCCATTACTCCAA
300936 GGGGACACTCCAACCCC
1 GGGGACACTCCAACCCC
300953 GTTTTCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.42, G:0.18, T:0.14
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTACTCCAA
Found at i:303300 original size:13 final size:13
Alignment explanation
Indices: 303282--303308 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
303272 ATAGTAACTG
303282 ATGTATCGATACA
1 ATGTATCGATACA
303295 ATGTATCGATACA
1 ATGTATCGATACA
303308 A
1 A
303309 AGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:309585 original size:13 final size:13
Alignment explanation
Indices: 309567--309593 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
309557 TGCCAGTTTC
309567 ATGTATCGATACA
1 ATGTATCGATACA
309580 ATGTATCGATACA
1 ATGTATCGATACA
309593 A
1 A
309594 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:309623 original size:20 final size:20
Alignment explanation
Indices: 309579--309631 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
309569 GTATCGATAC
*
309579 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAACAT
*
309599 AATGTATCGATACAAATACCT
1 AATGTATCGATACAAA-ACAT
309620 -ATGTATCGATAC
1 AATGTATCGATAC
309632 TTTGAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAAAACAT
Found at i:312862 original size:15 final size:15
Alignment explanation
Indices: 312842--312872 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
312832 AAAAGATAAA
*
312842 AATGACATGTCTATT
1 AATGACATGTCCATT
312857 AATGACATGTCCATT
1 AATGACATGTCCATT
312872 A
1 A
312873 TCCTTGCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (15 bp):
AATGACATGTCCATT
Found at i:313623 original size:30 final size:30
Alignment explanation
Indices: 313589--313647 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
313579 GTACTCAGTC
*
313589 AAGTCTTTCT-TCACTT-GACTATATTCGATT
1 AAGTCTTT-TATCA-TTGGACTATACTCGATT
313619 AAGTCTTTTATCATTGGACTATACTCGAT
1 AAGTCTTTTATCATTGGACTATACTCGAT
313648 CAAATTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (30 bp):
AAGTCTTTTATCATTGGACTATACTCGATT
Found at i:313903 original size:44 final size:44
Alignment explanation
Indices: 313854--314028 Score: 145
Period size: 44 Copynumber: 4.0 Consensus size: 44
313844 GGTCTAACGT
* *
313854 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCTAATTTGATGC
1 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGACGC
* * ** * * * * *
313898 ATGGTTACCACCCTAGTCA-AATCTACCTCTTTCCAGTTTGGCGT
1 ATGGTTACCACCCTGGTCAGATTCT-TTTCATTCTAATTTGACGC
* * * * * * * **
313942 ATGCTTACCACCCTTGTGAAACTCTTTCTTATTTTGGTTTGACGC
1 ATGGTTACCACCCTGGTCAGATTCTTT-TCATTCTAATTTGACGC
313987 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGAC
1 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGAC
314029 TTATAGTTAC
Statistics
Matches: 95, Mismatches: 33, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
43 4 0.04
44 55 0.58
45 36 0.38
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (44 bp):
ATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGACGC
Found at i:313996 original size:133 final size:132
Alignment explanation
Indices: 313823--314147 Score: 361
Period size: 133 Copynumber: 2.5 Consensus size: 132
313813 GGTTTTGCCC
* * * * * *
313823 TGGTCAAACTCATT-TTATTTCGGTCTAACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTC
1 TGGTGAAACTC-TTCTTATTTTGGTATGACGCATGGTTACCACCATGGTCAGATTCTTTTCATTC
* * * * *
313887 TAATTTGA-TGCATGGTTACCACCCTAGTCAAATCTACCTCTTTCCAGTTTGGCGTATGCTTACC
65 TAATTTGACT-CATAGTTACCACCATAGTCAAATCTACCTCCTTCCAGTTTGACATATGCTTACC
313951 ACCCT
129 A-CCT
* *
313956 T-GTGAAACTCTTTCTTATTTTGGTTTGACGCATGGTTACCACCCTGGTCAGATTCTTTTCATTC
1 TGGTGAAACTC-TTCTTATTTTGGTATGACGCATGGTTACCACCATGGTCAGATTCTTTTCATTC
* * * * ** *
314020 TAATTTGACTTATAGTTACCATCATGGTCAAATCTGCCTCCTTCTTGTTTGACATATGGTTACCA
65 TAATTTGACTCATAGTTACCACCATAGTCAAATCTACCTCCTTCCAGTTTGACATATGCTTACCA
314085 CCT
130 CCT
* * * *
314088 TGGTTAAACTCTTCTCATTTTGATATGAC-CTATGGTTACCACCATAGTCAGATTCTTTTC
1 TGGTGAAACTCTTCTTATTTTGGTATGACGC-ATGGTTACCACCATGGTCAGATTCTTTTC
314148 GCATGGTTAC
Statistics
Matches: 163, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
131 1 0.01
132 56 0.34
133 105 0.64
134 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (132 bp):
TGGTGAAACTCTTCTTATTTTGGTATGACGCATGGTTACCACCATGGTCAGATTCTTTTCATTCT
AATTTGACTCATAGTTACCACCATAGTCAAATCTACCTCCTTCCAGTTTGACATATGCTTACCAC
CT
Found at i:314278 original size:44 final size:44
Alignment explanation
Indices: 314230--314344 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
314220 GCTCATTTTG
* *
314230 GTTTGACGTATGGTTACCACCCTAGT-TAAATCTACCTCATTCCC
1 GTTTGACGTATGGTTACCACCCTAGTCGAAATCT-CCTCATTCCA
* * * * *
314274 GTTTGACGTATGGTTACCACCCTAATCGAACTCTTCTTATTTCA
1 GTTTGACGTATGGTTACCACCCTAGTCGAAATCTCCTCATTCCA
*
314318 GTCTGACGTATGGTTACCACCCTAGTC
1 GTTTGACGTATGGTTACCACCCTAGTC
314345 AGATTCTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 56 0.92
45 5 0.08
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (44 bp):
GTTTGACGTATGGTTACCACCCTAGTCGAAATCTCCTCATTCCA
Found at i:314306 original size:89 final size:88
Alignment explanation
Indices: 314150--314345 Score: 221
Period size: 89 Copynumber: 2.2 Consensus size: 88
314140 TTCTTTTCGC
* * * * * * **
314150 ATGGTTACCACCTTGGTCAAATCTGCCTCTTTCCTATTTGATGTATAATTACCAACCTGGTCAAA
1 ATGGTTACCACCCTAGTCAAATCTACCTCATTCCCATTTGACGTATAATTACCAACCTAATCAAA
** *
314215 CTCTTGCTCATTTTGGTTTGACGT
66 CTCTT-CTCATTTCAGTCTGACGT
* * ** * *
314239 ATGGTTACCACCCTAGTTAAATCTACCTCATTCCCGTTTGACGTATGGTTACCACCCTAATCGAA
1 ATGGTTACCACCCTAGTCAAATCTACCTCATTCCCATTTGACGTATAATTACCAACCTAATCAAA
*
314304 CTCTTCTTATTTCAGTCTGACGT
66 CTCTTCTCATTTCAGTCTGACGT
314327 ATGGTTACCACCCTAGTCA
1 ATGGTTACCACCCTAGTCA
314346 GATTCTTTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
88 32 0.36
89 56 0.64
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (88 bp):
ATGGTTACCACCCTAGTCAAATCTACCTCATTCCCATTTGACGTATAATTACCAACCTAATCAAA
CTCTTCTCATTTCAGTCTGACGT
Found at i:314405 original size:75 final size:75
Alignment explanation
Indices: 314280--314453 Score: 233
Period size: 75 Copynumber: 2.3 Consensus size: 75
314270 TCCCGTTTGA
* * * * *
314280 CGTATGGTTACCACCCTAATCGAACTCTTCTTATTTCAGTCTGACGTATGGTTACCACCCTAGTC
1 CGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAATCTGACATATGGTTACCACCCTAGTC
*
314345 AGATTCTTTTT
66 AAATT-TTTTT
* ** *
314356 -GTATGGTTACCACCCTAGTCAAACTTTTCTCATTTCAATCTGACATATGGTTACCAGTCTGGTC
1 CGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAATCTGACATATGGTTACCACCCTAGTC
314420 AAATTTTTTT
66 AAATTTTTTT
*
314430 CGCATGGTTACCACCCTAGTCAAA
1 CGTATGGTTACCACCCTAGTCAAA
314454 TCAGCCTCTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
74 5 0.06
75 81 0.94
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (75 bp):
CGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAATCTGACATATGGTTACCACCCTAGTC
AAATTTTTTT
Found at i:315015 original size:83 final size:85
Alignment explanation
Indices: 314841--315065 Score: 233
Period size: 83 Copynumber: 2.7 Consensus size: 85
314831 CCAAACTTTT
* * *
314841 TTACCTTTTTTTGACTTATCGGTTCAGCCTTAGTCAAGCTTCTATTCCCTTGTTTACCTATCGGC
1 TTACCCTTTATTGACTTATCGGTTCAGCCTTAGTCAAGCTTCTATTCCCTTGTTTACCTATCAGC
* * *
314906 TCAATCCCTGGTGAACTCCT
66 TCAATCCCTAGTAAACTCCC
* * ** * *
314926 TTACCCTTTATTGACTTATCGGTTTAGCCTTGGTCAA-CTT-T-TTATCTCTGTTTACTTGTCAG
1 TTACCCTTTATTGACTTATCGGTTCAGCCTTAGTCAAGCTTCTATTCCCT-TGTTTACCTATCAG
* *
314988 CTCAATTCGTAGTAAACTCCC
65 CTCAATCCCTAGTAAACTCCC
* * * * * *
315009 TTACCCTTTGTTGACTTATTGGTTCAGCCCTAGTTAACCTT-TAATCCCTTGTTTACC
1 TTACCCTTTATTGACTTATCGGTTCAGCCTTAGTCAAGCTTCTATTCCCTTGTTTACC
315066 AATCGATCTC
Statistics
Matches: 113, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
82 4 0.04
83 59 0.52
84 14 0.12
85 36 0.32
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.43
Consensus pattern (85 bp):
TTACCCTTTATTGACTTATCGGTTCAGCCTTAGTCAAGCTTCTATTCCCTTGTTTACCTATCAGC
TCAATCCCTAGTAAACTCCC
Found at i:322519 original size:20 final size:21
Alignment explanation
Indices: 322496--322547 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
322486 AGATTGCACA
*
322496 GTATCGATACATG-ACCA-AAT
1 GTATCGATACATGTA-AAGAAT
* *
322516 GTATCAATACTTGTAAAGAAT
1 GTATCGATACATGTAAAGAAT
322537 GTATCGATACA
1 GTATCGATACA
322548 GGTCATTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
GTATCGATACATGTAAAGAAT
Found at i:322614 original size:13 final size:13
Alignment explanation
Indices: 322596--322621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
322586 TACACACAAG
322596 ATGTATCGATACA
1 ATGTATCGATACA
322609 ATGTATCGATACA
1 ATGTATCGATACA
322622 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:322638 original size:33 final size:32
Alignment explanation
Indices: 322578--322641 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
322568 CTTAACTGTT
*
322578 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
322610 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
322642 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:324949 original size:239 final size:238
Alignment explanation
Indices: 324526--324999 Score: 939
Period size: 239 Copynumber: 2.0 Consensus size: 238
324516 GAAAAGGTCG
324526 CAAATCTTTGTCTCATGGCTTACGAGGAAAATAAGGTAAATTCAAACTCTTATACTTTTGAAGAA
1 CAAATCTTTGTCTCATGGCTTACGAGGAAAATAAGGTAAATTCAAACTCTTATACTTTTGAAGAA
324591 TTGCAAGAAGCTTTTAATGAACTAGTATTAGAGTTTAAATCTATGAATTTAAAACATAAAAAGAC
66 TTGCAAGAAGCTTTTAATGAACTAGTATTAGAGTTTAAATCTATGAATTTAAAACATAAAAAGAC
324656 AATCATTAAATTAAAAGAAGATAATAAATTGAAAATTATTGAAATTGAAAATCTTGAACAAAAGA
131 AATCATTAAATTAAAAGAAGATAATAAATTGAAAATTATTGAAATTGAAAATCTTGAACAAAAGA
324721 TTGTCACACTTGAGAAAGAAAATCATTCTAAACTTGCTAAATT
196 TTGTCACACTTGAGAAAGAAAATCATTCTAAACTTGCTAAATT
324764 CAAACTCTTTGTCTCATGGCTTACGAGGAAAATAAGGTAAATTCAAACTCTTATACTTTTGAAGA
1 CAAA-TCTTTGTCTCATGGCTTACGAGGAAAATAAGGTAAATTCAAACTCTTATACTTTTGAAGA
324829 ATTGCAAGAAGCTTTTAATGAACTAGTATTAGAGTTTAAATCTATGAATTTAAAACATAAAAAGA
65 ATTGCAAGAAGCTTTTAATGAACTAGTATTAGAGTTTAAATCTATGAATTTAAAACATAAAAAGA
324894 CAATCATTAAATTAAAAGAAGATAATAAATTGAAAATTATTGAAATTGAAAATCTTGAACAAAAG
130 CAATCATTAAATTAAAAGAAGATAATAAATTGAAAATTATTGAAATTGAAAATCTTGAACAAAAG
324959 ATTGTCACACTTGAGAAAGAAAATCATTCTAAACTTGCTAA
195 ATTGTCACACTTGAGAAAGAAAATCATTCTAAACTTGCTAA
325000 TGAAAATAAA
Statistics
Matches: 235, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
238 4 0.02
239 231 0.98
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (238 bp):
CAAATCTTTGTCTCATGGCTTACGAGGAAAATAAGGTAAATTCAAACTCTTATACTTTTGAAGAA
TTGCAAGAAGCTTTTAATGAACTAGTATTAGAGTTTAAATCTATGAATTTAAAACATAAAAAGAC
AATCATTAAATTAAAAGAAGATAATAAATTGAAAATTATTGAAATTGAAAATCTTGAACAAAAGA
TTGTCACACTTGAGAAAGAAAATCATTCTAAACTTGCTAAATT
Found at i:325077 original size:14 final size:14
Alignment explanation
Indices: 325058--325095 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
325048 TTAAGGAAGA
325058 AAAAGAAAATTTTG
1 AAAAGAAAATTTTG
325072 AAAAGAAAATTTTG
1 AAAAGAAAATTTTG
325086 AAAAGAAAAT
1 AAAAGAAAAT
325096 AAATGAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (14 bp):
AAAAGAAAATTTTG
Found at i:329058 original size:13 final size:13
Alignment explanation
Indices: 329040--329078 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
329030 ACAGCATTCT
329040 TTGTATCGATACA
1 TTGTATCGATACA
329053 TTGTATCGATACA
1 TTGTATCGATACA
*
329066 GTGTATCGATACA
1 TTGTATCGATACA
329079 AAGGGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:329546 original size:20 final size:22
Alignment explanation
Indices: 329521--329565 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
329511 GCAGTACTCA
329521 CCAGGTCGCAACC-GGCA-CCC
1 CCAGGTCGCAACCGGGCAGCCC
329541 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGTCGCAACCGGGCAGCCC
329563 CCA
1 CCA
329566 CACTAGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.20, C:0.49, G:0.27, T:0.04
Consensus pattern (22 bp):
CCAGGTCGCAACCGGGCAGCCC
Found at i:331558 original size:13 final size:13
Alignment explanation
Indices: 331542--331566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331532 AAATTACACA
331542 GTATCGATACATT
1 GTATCGATACATT
331555 GTATCGATACAT
1 GTATCGATACAT
331567 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:339008 original size:17 final size:16
Alignment explanation
Indices: 338972--339019 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
338962 AGTCAAAAGT
*
338972 AAAAGCACAAAAAATG
1 AAAAGCAAAAAAAATG
338988 AAAAG-AAAAAAAAGTG
1 AAAAGCAAAAAAAA-TG
339004 CAAAAGCAAAATAAAA
1 -AAAAGCAAAA-AAAA
339020 AAAAGGAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.26
16 7 0.26
17 5 0.19
18 4 0.15
19 4 0.15
ACGTcount: A:0.73, C:0.08, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAGCAAAAAAAATG
Found at i:339036 original size:39 final size:38
Alignment explanation
Indices: 338953--339036 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
338943 CTTCAAAATG
* * *
338953 ACAAAAAAAAGTCAAAAGTAAAAGCACAAAAAATGAAA
1 ACAAAAAAAAGTCAAAAGCAAAAGCAAAAAAAAGGAAA
* *
338991 AGAAAAAAAAGTGCAAAAGCAAAA-TAAAAAAAAGGAACA
1 ACAAAAAAAAGT-CAAAAGCAAAAGCAAAAAAAAGGAA-A
339030 ACAAAAA
1 ACAAAAA
339037 TAAAAAACGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 21 0.55
39 17 0.45
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.06
Consensus pattern (38 bp):
ACAAAAAAAAGTCAAAAGCAAAAGCAAAAAAAAGGAAA
Found at i:340380 original size:30 final size:30
Alignment explanation
Indices: 340324--340380 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
340314 GTACTGTGAC
* *
340324 CTTTTCAAAGTCCACGATTCAGTGGCATTT
1 CTTTTCAAAGTCCACAATCCAGTGGCATTT
340354 CTTTTCAAAGTCCACAACTCCA-TGGCA
1 CTTTTCAAAGTCCACAA-TCCAGTGGCA
340381 CCTTTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (30 bp):
CTTTTCAAAGTCCACAATCCAGTGGCATTT
Found at i:340398 original size:27 final size:27
Alignment explanation
Indices: 340361--340545 Score: 230
Period size: 27 Copynumber: 6.7 Consensus size: 27
340351 TTTCTTTTCA
*
340361 AAGTCCACAACTCCATGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
* *
340388 AAGTCCACAACTTCGTGGCAACC-TTCT
1 AAGTCCACAACTCCGTGGC-ACCTTTTT
*
340415 AAGTCCACAACTCCGTGGCAACC-ATTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTT
* *
340442 AAGTCCACAACTCTGTGGCAACCTTTTA
1 AAGTCCACAACTCCGTGGC-ACCTTTTT
*
340470 AAGTCCATAACTCCGTGGCAGCCCTTTTT
1 AAGTCCACAACTCCGTGGCA--CCTTTTT
* *
340499 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
340526 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
340546 ACACCTTTTT
Statistics
Matches: 138, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 92 0.67
28 22 0.16
29 24 0.17
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCTTTTT
Found at i:340428 original size:54 final size:54
Alignment explanation
Indices: 340361--340545 Score: 266
Period size: 54 Copynumber: 3.4 Consensus size: 54
340351 TTTCTTTTCA
* *
340361 AAGTCCACAACTCCATGGCACCTTTTTAAGTCCACAACTTCGTGGCAACCTTCT
1 AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTTCGTGGCAACCTTTT
*
340415 AAGTCCACAACTCCGTGGCAACC-ATTTAAGTCCACAAC-TCTGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTTAAGTCCACAACTTC-GTGGCAACCTTTT
* *
340469 AAAGTCCATAACTCCGTGGCAGCCCTTTTTAAGTCCACAACTTCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCA--CCTTTTTAAGTCCACAACTTCGTGGCAACCTTTT
340526 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
340546 ACACCTTTTT
Statistics
Matches: 117, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
53 2 0.02
54 45 0.38
55 21 0.18
56 21 0.18
57 26 0.22
58 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTTCGTGGCAACCTTTT
Found at i:340516 original size:84 final size:82
Alignment explanation
Indices: 340361--340566 Score: 261
Period size: 84 Copynumber: 2.5 Consensus size: 82
340351 TTTCTTTTCA
* * *
340361 AAGTCCACAACTCCATGGC-ACCTTTTTAAGTCCACAACTTCGTGGCAACCTTCTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAACCTTCTAAGTCCACAA
340425 CTCCGTGGCAACCATTT
66 CTCCGTGGCAACCATTT
* * * *
340442 AAGTCCACAACTCTGTGGCAACCTTTTAAAGTCCATAACTCCGTGGCAGCCCTTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCA-ACC-TTCTAAGTCCAC
* * *
340507 AACTTCGTGGCACCCTTTT
64 AACTCCGTGGCAACCATTT
*
340526 AAGTCCACAACTCCGTGGCAACACCTTTTTAAAGCCCACAA
1 AAGTCCACAACTCCGTGGC-A-ACC-TTTTAAAGTCCACAA
340567 GTTAGTGGCA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
81 17 0.16
82 25 0.24
83 2 0.02
84 45 0.42
85 1 0.01
86 3 0.03
87 13 0.12
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAACCTTCTAAGTCCACAA
CTCCGTGGCAACCATTT
Found at i:340595 original size:28 final size:28
Alignment explanation
Indices: 340556--341216 Score: 653
Period size: 28 Copynumber: 22.8 Consensus size: 28
340546 ACACCTTTTT
* *
340556 AAAGCCCACAAGTTAGTGGCATCATTTA
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
340584 AAAGCCCACAAGTTAGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
340612 AAAGCCCACAAGTTAGTGGCATCA-TTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
340639 CAAGCCCACAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCATTTC
*
340668 AAAGCCCACAAGTCAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCATTTC
*
340697 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * * *
340725 AAAGCCCACACGAGTCGGTGGTAACTCTTTTT
1 AAAGCCCACA--AGTCAGTGG-CA-TCATTTC
*
340757 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* ** * *
340785 AAAGCCTATGAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340813 AAAGCCCACAAGCCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340841 AAAGCCCACAAGCCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340869 AAAGCCCACAAGTTAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340897 AAAGTCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340925 AAAGCCAACAAGTTAGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCATTTC
*
340954 AAAGCCCACAAGTCGGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340982 AAAGCCCACATAAGTCGGTGGTAACTCATTTG
1 AAAGCCCAC--AAGTCAGTGG-CA-TCATTTC
*
341014 AAAGCCCACACAAGTC-GATGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAG-TGGC-A-TCATTTC
** *
341046 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCATTTC
* * *
341078 AAAGCCCACAAGTTAGTGGCATCCTTCTT
1 AAAGCCCACAAGTCAGTGGCATCATT-TC
* *
341107 AAAGCCCACATAAATCAGTGGCATCTTTTC
1 AAAGCCCAC--AAGTCAGTGGCATCATTTC
341137 AAAGCCCACAAGTCAGTGGCATC-TTCTC
1 AAAGCCCACAAGTCAGTGGCATCATT-TC
*
341165 AAAGCCCACAAGTCAATGGCATCATTCTC
1 AAAGCCCACAAGTCAGTGGCATCATT-TC
341194 AAAGCCCACAAGTCAGTGGCATC
1 AAAGCCCACAAGTCAGTGGCATC
341217 CTTCTGGAAG
Statistics
Matches: 560, Mismatches: 52, Indels: 41
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.04
28 274 0.49
29 114 0.20
30 49 0.09
31 19 0.03
32 74 0.13
33 3 0.01
34 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCATTTC
Found at i:341020 original size:257 final size:263
Alignment explanation
Indices: 340547--341214 Score: 866
Period size: 257 Copynumber: 2.5 Consensus size: 263
340537 TCCGTGGCAA
* * * *
340547 CACCTTTTTAAAGCCCACAAGTTAGTGGCATCATTTAAAAGCCCACAAGTTAGTGGCATCATTTC
1 CACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTAAAAGCCCACAAGTCAGTGGCATCATTTC
* * *
340612 AAAGCCCACAAGTTAGTGGCATC-ATTCCAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
66 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCA
* *
340676 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACGAGTC
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTC
* * * * **
340741 GGTGGTAACTCTTTTTAAAG-CC-CACAAGTC-AGTGGC-ATCC-TTTCAAAG-CC-TATGAGTC
195 GGTGGTAACTCATTTGAAAGCCCACACAAGTCGA-TGGCAACCCATTTCAAAGCCCACACAAGTC
340799 AGTGG
259 AGTGG
** * * * * *
340804 CACCCTTTCAAAGCCCACAAGCCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCACCCTTTC
1 CACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTAAAAGCCCACAAGTCAGTGGCATCATTTC
* * * *
340869 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGTCCACAAGTCAGTGGCACCCTTTCAAAGCCAAC
66 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCAC
* * *
340934 AAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCGGTGGCATCATTTCAAAGCCCACATAAGTCG
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCG
**
340999 GTGGTAACTCATTTGAAAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCACACAAGTTGG
196 GTGGTAACTCATTTGAAAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCACACAAGTCAG
341064 TGG
261 TGG
* *
341067 CAACCCATTTCAAAGCCCACAAGTTAGTGGCATCCTTCTTAAAGCCCACATAAATCAGTGGCATC
1 C-ACCC-TTTCAAAGCCCACAAGTTAGTGGCATCCTT-TAAAAGCCCAC--AAGTCAGTGGCATC
* * * * *
341132 TTTTCAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCCCACAAGTCAATGGCATCATTCTCAAA
61 ATTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCATT-TCAAA
341197 GCCCACAAGTCAGTGGCA
125 GCCCACAAGTCAGTGGCA
341215 TCCTTCTGGA
Statistics
Matches: 350, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
257 166 0.47
258 25 0.07
259 12 0.03
260 4 0.01
261 8 0.02
262 2 0.01
263 9 0.03
264 4 0.01
265 27 0.08
266 10 0.03
268 62 0.18
269 21 0.06
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (263 bp):
CACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTAAAAGCCCACAAGTCAGTGGCATCATTTC
AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCAC
AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCG
GTGGTAACTCATTTGAAAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCACACAAGTCAG
TGG
Found at i:341840 original size:20 final size:20
Alignment explanation
Indices: 341817--341892 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
341807 AAAGTACCCA
*
341817 AATGTATCGATAAATTTTTC
1 AATGTATCGATACATTTTTC
* * *
341837 AATGTATCGATACATATATG
1 AATGTATCGATACATTTTTC
*
341857 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
341877 AATGTATCGATACATT
1 AATGTATCGATACATT
341893 CTATCTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:346051 original size:20 final size:19
Alignment explanation
Indices: 346005--346061 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
345995 TTGTATCGAT
* *
346005 ACATTGCATCGATACATGT
1 ACATTGTATCGATACATGG
*
346024 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
346043 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
346062 AAACTGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:346146 original size:33 final size:33
Alignment explanation
Indices: 346093--346155 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
346083 CCACTGTTTG
*
346093 TATCGATACATGGTACATTGT-ATAGATACAATA
1 TATCGATACATGATACATTGTAAT-GATACAATA
346126 TATCGATACATGATGA-ATTGTAATGATACA
1 TATCGATACATGAT-ACATTGTAATGATACA
346156 TTGCTTCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (33 bp):
TATCGATACATGATACATTGTAATGATACAATA
Found at i:350077 original size:78 final size:78
Alignment explanation
Indices: 349967--350172 Score: 225
Period size: 78 Copynumber: 2.6 Consensus size: 78
349957 GAGATAATAA
* * * * * * *
349967 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
350032 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* **
350045 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
350110 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* * *
350124 CGGGGCTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
350173 GAAATAACGA
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.50
79 51 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:350164 original size:28 final size:28
Alignment explanation
Indices: 350124--350195 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
350114 GGAATAAAGC
* ** *
350124 CGGGGCTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
350152 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
350180 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
350196 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:350336 original size:55 final size:53
Alignment explanation
Indices: 350205--350407 Score: 180
Period size: 55 Copynumber: 3.8 Consensus size: 53
350195 CTCGATTGTG
* *** * *
350205 AAAAATTGGTGTTTTTGAAAATAAAATTAGAGTTGGAGTATCCCCGA-TTAAAG
1 AAAAATTAGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTTAAAA
* *
350258 GAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTAAAAA
1 AAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT-T-AAAA
** **
350313 AAAAATTAGTGTTTT-AGCCATAAAACCGGGGTTGGAGTATCCCCGA-TT-ATG
1 AAAAATTAGTGTTTTGA-AAATAAAACCGGGGTTGGAGTATCCCCGATTTAAAA
* * * * **
350364 AAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCC
1 AAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCC
350408 TCGGAAATAA
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
51 36 0.29
52 31 0.25
53 12 0.10
54 3 0.02
55 43 0.34
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (53 bp):
AAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTTAAAA
Found at i:350453 original size:27 final size:28
Alignment explanation
Indices: 350390--350465 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
350380 GAAATAAAGT
***
350390 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
350418 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
350445 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
350466 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:350479 original size:266 final size:266
Alignment explanation
Indices: 350073--350573 Score: 808
Period size: 266 Copynumber: 1.9 Consensus size: 266
350063 TCGAAAATAA
* * *
350073 CGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGCTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGCTGGAGTAT
* *
350138 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
* *
350203 TGAAAAATTGGTG-TTTTTGAAAATAAAATTAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
131 TGAAAAATTGGTGTTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAA-GAAAATTAG
* *
350267 TGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTAAAAAAAAAATTAGTGTTTTAGCC
195 TGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTAAAAAAAAAATTAGTGTTTTAGCC
350332 ATAAAAC
260 ATAAAAC
* * *
350339 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGCTGGAGTAT
* *
350404 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
* * *
350468 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAG
131 TGAA-AAATTGGTGTTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
*
350533 TGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGT
195 TGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGT
350574 GGAGAATTGA
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
265 29 0.13
266 149 0.69
267 37 0.17
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (266 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGCTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
TGAAAAATTGGTGTTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTAAAAAAAAAATTAGTGTTTTAGCCA
TAAAAC
Found at i:350553 original size:51 final size:51
Alignment explanation
Indices: 350183--350571 Score: 209
Period size: 51 Copynumber: 7.4 Consensus size: 51
350173 GAAATAACGA
* * * **
350183 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTGTTTTTGAAAATAAAATTAG
1 GGTTGGAGTATCCCCGATTATAG-AAAATTAGTG-TTTTGAAAATAAAATCGG
* * * *
350235 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGG
* * ** *
350287 GGTTGGAGTATCCCCGATTGTAAAAAAAAAATTAGTGTTTT-AGCCATAAAACCGG
1 GGTTGGAGTATCCCCGA-T-T--ATAGAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * * *
350342 GGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
* *** * *** ** *
350393 GGTTGGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTAT-CCC-C-GATTATAGA--AAATT--AGTGT-TTTGAAAATAAAATCGG
* * *
350448 GGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAG-A-AAATTAGTG--TTTTGAAAATAAAATCGG
*
350502 AGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGG
* *
350553 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
350572 GTGGAGAATT
Statistics
Matches: 256, Mismatches: 55, Indels: 53
0.70 0.15 0.15
Matches are distributed among these distances:
51 68 0.27
52 57 0.22
53 31 0.12
54 34 0.13
55 55 0.21
56 8 0.03
57 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:352949 original size:13 final size:13
Alignment explanation
Indices: 352931--352956 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
352921 ACAAAGATCC
352931 ATGTATCGATACA
1 ATGTATCGATACA
352944 ATGTATCGATACA
1 ATGTATCGATACA
352957 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:352952 original size:33 final size:33
Alignment explanation
Indices: 352910--352976 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
352900 AAAATTTCCA
***
352910 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
352943 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
352976 A
1 A
352977 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:353040 original size:32 final size:32
Alignment explanation
Indices: 352999--353061 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
352989 TAGCTAATTA
* *
352999 TGTATCGATACAATACTTATTTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
353031 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
353062 AACTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:353055 original size:19 final size:19
Alignment explanation
Indices: 352996--353063 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
352986 CAGTAGCTAA
*
352996 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
353015 TTATTTATCGATAC---A-
1 TTATGTATCGATACAAAAC
353030 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
353047 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
353064 CTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:353917 original size:55 final size:55
Alignment explanation
Indices: 353833--354704 Score: 1461
Period size: 55 Copynumber: 15.9 Consensus size: 55
353823 GTGTATTCTA
* * * **
353833 CTCTTTGACGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTG
1 CTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
* * *
353888 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTA
1 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
353943 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
* *
353998 CTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAGAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
354053 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
354108 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
* *
354163 CTCTTTGGGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCATG
1 CTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTG
354218 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
* *
354273 CTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAGAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
354328 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
354383 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
* * *
354438 CTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAAGTGTCCTG
1 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTG
354493 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
*
354548 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
354603 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
*
354658 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
354705 AAAAAGGCAT
Statistics
Matches: 773, Mismatches: 32, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
53 4 0.01
54 8 0.01
55 745 0.96
56 12 0.02
57 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
Found at i:354125 original size:27 final size:27
Alignment explanation
Indices: 354043--354125 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
354033 GGGCTTTGAG
354043 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
354070 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
354098 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
354125 A
1 A
354126 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:354400 original size:27 final size:27
Alignment explanation
Indices: 354318--354400 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
354308 GGGCTTTGAG
354318 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
354345 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
354373 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
354400 A
1 A
354401 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:354565 original size:27 final size:27
Alignment explanation
Indices: 354535--354675 Score: 65
Period size: 27 Copynumber: 5.1 Consensus size: 27
354525 TGTGGGCTTT
354535 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
354562 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
*
354590 GAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
354617 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
354645 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
354672 GAAA
1 GAAA
354676 ATGCCACCAA
Statistics
Matches: 74, Mismatches: 30, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 23 0.31
28 19 0.26
29 10 0.14
30 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:355753 original size:36 final size:37
Alignment explanation
Indices: 355699--355776 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 37
355689 AAGTAGGTTC
* *
355699 TTTTTCTTTTCTCTCTTTTTCTCTGTTTTG-TTTTTTG
1 TTTTGCTTTTCTCTCTTTTT-TCTCTTTTGCTTTTTTG
* * *
355736 TTTTGCTTTTTTC-CTTTTTTTTCTTTTGCTTTTTTT
1 TTTTGCTTTTCTCTCTTTTTTCTCTTTTGCTTTTTTG
355772 TTTTG
1 TTTTG
355777 AAGAGAAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 7 0.20
36 17 0.49
37 11 0.31
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (37 bp):
TTTTGCTTTTCTCTCTTTTTTCTCTTTTGCTTTTTTG
Found at i:372664 original size:77 final size:78
Alignment explanation
Indices: 372561--372760 Score: 233
Period size: 79 Copynumber: 2.6 Consensus size: 78
372551 AATAACGGGG
* * * * * * *
372561 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT-A
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTGA
*
372624 GAAAAAAATCGAGA
65 GAAAAAAACCGAGA
*
372638 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTGA
* * * *
372703 GAATAAAGCCGGGG
65 GAAAAAAACCGAGA
* *
372717 CTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
372761 GAAATAACGA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
76 1 0.01
77 50 0.48
78 2 0.02
79 51 0.49
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTGAG
AAAAAAACCGAGA
Found at i:372788 original size:28 final size:29
Alignment explanation
Indices: 372718--372788 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
372708 AAGCCGGGGC
*
372718 TGGAGTATCCCC--TCGAAAGTAACGGGGT
1 TGGAGTATCCCCGAT-GAAAGTAACGAGGT
372746 TGGAGTATCCCCGATGAAA-TAACGAGGT
1 TGGAGTATCCCCGATGAAAGTAACGAGGT
*
372774 TGGAGTATCCTCGAT
1 TGGAGTATCCCCGAT
372789 TGTGAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (29 bp):
TGGAGTATCCCCGATGAAAGTAACGAGGT
Found at i:372833 original size:52 final size:51
Alignment explanation
Indices: 372772--373162 Score: 184
Period size: 51 Copynumber: 7.4 Consensus size: 51
372762 AAATAACGAG
* *
372772 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAACCAGA
** * * *
372824 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
* * * * *
372876 GTTGGAGTATCCCCGATTGTAAAAAAAAAATTAGTGTTTT-AGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT----GAAAAATTGGTGTTTTGA-AAATAAAACCAGA
* * *** * * **** *
372931 GTTGGAGTATCCCTGATTATGAAAAATCAATATTTTGGAAATAAAGTTGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
* * ** ** * *
372982 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGCAGTATCCCTGATGAT-TAACGAG-
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTG--GTGT-TTTGAAAATAAAACCAGA
* * *
373037 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGAAAATAAAACCAGA
* * * *
373091 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAACCAGA
* *
373142 GTTGGAATATCCCCAATTGTG
1 GTTGGAGTATCCCCGATTGTG
373163 GAGAATTGAG
Statistics
Matches: 256, Mismatches: 57, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
51 71 0.28
52 55 0.21
53 27 0.11
54 22 0.09
55 57 0.22
56 5 0.02
57 6 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
Found at i:372956 original size:55 final size:55
Alignment explanation
Indices: 372793--372956 Score: 183
Period size: 55 Copynumber: 3.0 Consensus size: 55
372783 CTCGATTGTG
* * * * *
372793 AAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGA-T-T-AAAG
1 AAAAATTAGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATAAAAA
* * *
372846 GAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTAAAAA
1 AAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATAAAAA
* * *
372901 AAAAATTAGTGTTTT-AGCAATAAAACCGGGGTTGGAGTATCCCTGATTATGAAAA
1 AAAAATTAGTGTTTTGA-AAATAAAACCGGGGTTGGAGTATCCCCGATTATAAAAA
372956 A
1 A
372957 TCAATATTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 32 0.33
53 11 0.11
54 2 0.02
55 51 0.53
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (55 bp):
AAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATAAAAA
Found at i:373135 original size:266 final size:266
Alignment explanation
Indices: 372661--373161 Score: 776
Period size: 266 Copynumber: 1.9 Consensus size: 266
372651 TCGAAAATAA
*
372661 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAGAATAAAGCCGGGGCTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAGAATAAAGCCGGGGCTGGAGTAT
* *
372726 CCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGAAAGTAACGGGGTTGCAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
*
372791 TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* * *
372856 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTAAAAAAAAAATTAGTGTTTTAGCAA
196 GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTGTAAAAAAAAAATTAGTGTTTTAGCAA
372921 TAAAAC
261 TAAAAC
** ** *
372927 CGGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTG-GAAATAAAGTTGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAG-AATAAAGCCGGGGCTGGAGTA
* *
372991 TCCCCTCGGAAA-TAACGGGGTTGCAGTATCCCTGATG-ATTAACGAGGTTGGAGTATCCCCGAT
65 TCCCCTC-GAAAGTAACGGGGTTGCAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGAT
* * *
373054 TGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAAT
129 TGTGAA-AAATTGGTG-TTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAAT
*
373118 TAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCAATTGT
192 TAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTGT
373162 GGAGAATTGA
Statistics
Matches: 213, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
265 31 0.15
266 140 0.66
267 42 0.20
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (266 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAGAATAAAGCCGGGGCTGGAGTAT
CCCCTCGAAAGTAACGGGGTTGCAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTGTAAAAAAAAAATTAGTGTTTTAGCAA
TAAAAC
Found at i:375628 original size:32 final size:32
Alignment explanation
Indices: 375587--375649 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
375577 TAGCTAATTA
* *
375587 TGTATCGATACAATACTTATTTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
375619 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
375650 AACTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:375643 original size:19 final size:19
Alignment explanation
Indices: 375584--375651 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
375574 CAGTAGCTAA
*
375584 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
375603 TTATTTATCGATAC---A-
1 TTATGTATCGATACAAAAC
375618 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
375635 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
375652 CTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:379378 original size:20 final size:21
Alignment explanation
Indices: 379339--379378 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
379329 TTACAAATTT
* *
379339 CTTCATTTTTACTTCGAAATA
1 CTTCATTTTTACATCAAAATA
379360 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
379379 CACCAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:393725 original size:78 final size:78
Alignment explanation
Indices: 393588--393795 Score: 245
Period size: 78 Copynumber: 2.7 Consensus size: 78
393578 CCAGTTATTC
* * * * *
393588 CCTTCTTTCCCAAACACCAGATGATATTAGTGCATCATAAGGACAAAAGGGGCACTTCCCACACA
1 CCTTCTTTCCCAAACACCAGATGATATTGGTGCATCACATGGCCAAAAGGGACACTTCCCACACA
393653 TTCCTAATCATAT
66 TTCCTAATCATAT
* ** *
393666 CCTTCTTTCCCAAATACCAGATGATATTGGTGCATCACATGGCCAAAAGGGACGTTTCCCATACA
1 CCTTCTTTCCCAAACACCAGATGATATTGGTGCATCACATGGCCAAAAGGGACACTTCCCACACA
* *
393731 TTCCTAGTCGTAT
66 TTCCTAATCATAT
* * * * * * *
393744 CCATCCTTCCCAAACACTAAATGGTATTGATGCATCACATGACCATAAAGGG
1 CCTTCTTTCCCAAACACCAGATGATATTGGTGCATCACATGGCCA-AAAGGG
393796 CACATCCTAC
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
78 104 0.95
79 6 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (78 bp):
CCTTCTTTCCCAAACACCAGATGATATTGGTGCATCACATGGCCAAAAGGGACACTTCCCACACA
TTCCTAATCATAT
Found at i:394582 original size:42 final size:42
Alignment explanation
Indices: 394406--394628 Score: 137
Period size: 42 Copynumber: 5.3 Consensus size: 42
394396 TCTGTCTCGG
* * * ** *
394406 GAGACTTCCTTTATC-ATCGTCTGCCCGTCGGCTTAGAAGCAG
1 GAGACTT-CTTCATCAATCATCTGCCCGTCAGCTTAGACTCAA
* * * * * * * *
394448 GAGATTTCTTCATCAACCGTCTGCTCATCGGCTTAGACCCGA
1 GAGACTTCTTCATCAATCATCTGCCCGTCAGCTTAGACTCAA
* ** * * * * *
394490 GAGACTT-TTATATCTTTCGTTTGCCCATCGGCTTAG-TTCCAA
1 GAGACTTCTT-CATCAATCATCTGCCCGTCAGCTTAGACT-CAA
* * * * *
394532 GAGGCTTCTTTATCAATCATCTGCCTGTCAGCTTAGACTTAG
1 GAGACTTCTTCATCAATCATCTGCCCGTCAGCTTAGACTCAA
**
394574 GAGACTTCTTCATCTTTCATCTGCCCGTCAGCTTAGACTCAA
1 GAGACTTCTTCATCAATCATCTGCCCGTCAGCTTAGACTCAA
394616 GAGACTTCTTCAT
1 GAGACTTCTTCAT
394629 TCATCGTTTG
Statistics
Matches: 139, Mismatches: 37, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
41 8 0.06
42 128 0.92
43 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (42 bp):
GAGACTTCTTCATCAATCATCTGCCCGTCAGCTTAGACTCAA
Found at i:394753 original size:42 final size:42
Alignment explanation
Indices: 394676--394761 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
394666 TTTTCATCCA
* *
394676 TCGTCTACCCATCAGCTCAATCCTGAGAGATTTCTTTATCTT
1 TCGTCTACCCATCAGCTCAATCCTGAGAGACTTCTTCATCTT
* *
394718 TCGTCTACCCTTCAGCTTAGA-CCTG-GTAGACTTCTTCATCTT
1 TCGTCTACCCATCAGCTCA-ATCCTGAG-AGACTTCTTCATCTT
394760 TC
1 TC
394762 ATTTGCCCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 36 0.95
43 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (42 bp):
TCGTCTACCCATCAGCTCAATCCTGAGAGACTTCTTCATCTT
Found at i:396509 original size:160 final size:161
Alignment explanation
Indices: 396068--396489 Score: 509
Period size: 164 Copynumber: 2.6 Consensus size: 161
396058 CTCTGTAAAT
* * * *
396068 TTTTTTGGAGTGGATTTCTCTTAATTTTTAACTTTTAAAATTCATCAAATATTTTTATTTATTTC
1 TTTTTT-GAGGGGATTTTTATTGATTTTTAA-TTTTAAAATTCATCAAATATTTTTATTTATTTC
* * *
396133 ATATTAATTCAATTTTCAAAAATTCATTTATTTACATGGGTTTTTGATTTTTTTCCTTAAAATCC
64 ATATTAATTCAATTTTCAAAAATTCATTCATTTACATGAGTTTTTGATTTTTTTCCATAAAAT-C
* *
396198 TTTTTTTTCCCGTAATATGGTCTTTCTCCTCGGTGAA
128 TTTTTTTT--C-TAATATAGTCTTTCTACTCGGTGAA
* * *
396235 TTTTTTGAGGGGATTTTTCTTG-GTTTTAATTTTAAAATTCATCAAATATTTTTATTCATTTCAT
1 TTTTTTGAGGGGATTTTTATTGATTTTTAATTTTAAAATTCATCAAATATTTTTATTTATTTCAT
* * * *
396299 ATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTT-CAT-GAAT-TTT
66 ATTAATTCAATTTTCAAAAATTCATTCATTTACATGAGTTTTTGATTTTTTTCCATAAAATCTTT
396361 TTTTT-TAA-ATACGTAGCTTTCTACTAC-GT-AA
131 TTTTTCTAATATA-GT--CTTTCTACT-CGGTGAA
* * *
396392 TTTTTTCGGGGGGATTTTTATTGATTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATTTC
1 TTTTTT-GAGGGGATTTTTATTGATTTTTAA-TTTTAAAATTCATCAAATATTTTTATTTATTTC
396457 ATATTAATTCAATTTTCAAAAATTCATTCATTT
64 ATATTAATTCAATTTTCAAAAATTCATTCATTT
396490 CCATAAATTT
Statistics
Matches: 226, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
155 2 0.01
156 5 0.02
157 8 0.04
158 24 0.11
159 7 0.03
160 69 0.31
162 3 0.01
163 2 0.01
164 81 0.36
165 6 0.03
166 13 0.06
167 6 0.03
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (161 bp):
TTTTTTGAGGGGATTTTTATTGATTTTTAATTTTAAAATTCATCAAATATTTTTATTTATTTCAT
ATTAATTCAATTTTCAAAAATTCATTCATTTACATGAGTTTTTGATTTTTTTCCATAAAATCTTT
TTTTTCTAATATAGTCTTTCTACTCGGTGAA
Found at i:406003 original size:18 final size:19
Alignment explanation
Indices: 405980--406020 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
405970 CGTCGTTCCC
405980 TTATTTTTTACTTTT-TTT
1 TTATTTTTTACTTTTATTT
*
405998 TTATTTTTTATTTTTATTT
1 TTATTTTTTACTTTTATTT
406017 TTAT
1 TTAT
406021 CTAAGCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (19 bp):
TTATTTTTTACTTTTATTT
Found at i:406632 original size:25 final size:25
Alignment explanation
Indices: 406604--406654 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
406594 AACCACGGGG
406604 TCCGCTTTACACCGTGAGTGGGTAT
1 TCCGCTTTACACCGTGAGTGGGTAT
406629 TCCGCTTTACACCGTGAGTGGGTAT
1 TCCGCTTTACACCGTGAGTGGGTAT
406654 T
1 T
406655 AGGGATAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (25 bp):
TCCGCTTTACACCGTGAGTGGGTAT
Found at i:411560 original size:15 final size:14
Alignment explanation
Indices: 411542--411583 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
411532 TTCATGACCT
411542 AATATATTTAAATAA
1 AATA-ATTTAAATAA
411557 AATAAATTTAAATAA
1 AAT-AATTTAAATAA
411572 AATAA-TTAAATA
1 AATAATTTAAATA
411584 TGCACGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 16 0.62
16 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATTTAAATAA
Found at i:412888 original size:19 final size:19
Alignment explanation
Indices: 412851--412888 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
412841 ATAATTAATT
*
412851 ATTTTAATATTTTGATTTA
1 ATTTTAATATATTGATTTA
412870 ATTTGTAATATATTG-TTTA
1 ATTT-TAATATATTGATTTA
412889 GTAATTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
ATTTTAATATATTGATTTA
Found at i:415586 original size:14 final size:14
Alignment explanation
Indices: 415569--415616 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
415559 ATATTTTTAA
415569 TATTTTATTTTATT
1 TATTTTATTTTATT
415583 TATTTTATTATT-TT
1 TATTTTATT-TTATT
* *
415597 TATTTGATATTTATA
1 TATTTTAT-TTTATT
415612 TATTT
1 TATTT
415617 ACATAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:415587 original size:23 final size:25
Alignment explanation
Indices: 415560--415610 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
415550 TTGTTGAAAA
415560 TATTTTTAATA-TTTTATTT-TATT
1 TATTTTTAATATTTTTATTTATATT
*
415583 TA-TTTTATTATTTTTATTTGATATT
1 TATTTTTAATATTTTTATTT-ATATT
415608 TAT
1 TAT
415611 ATATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
25 6 0.26
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTTTAATATTTTTATTTATATT
Found at i:416374 original size:29 final size:27
Alignment explanation
Indices: 416332--416385 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
416322 TATAATAAAT
416332 AATAAAAAATAATATGTATATAATTAACC
1 AATAAAAAATAATA--TATATAATTAACC
416361 AATAAATAAA-AATATATATAATTAA
1 AATAAA-AAATAATATATATAATTAA
416386 ATATCGTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 11 0.46
29 10 0.42
30 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AATAAAAAATAATATATATAATTAACC
Found at i:419064 original size:17 final size:16
Alignment explanation
Indices: 419039--419104 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
419029 AAAATTTTAA
419039 GATCATTTTCGAGTTCG
1 GATCATTTT-GAGTTCG
*
419056 GATCGTTTTGAGTTCAG
1 GATCATTTTGAGTTC-G
* *
419073 G-TCATTTCGGGTTCG
1 GATCATTTTGAGTTCG
* * *
419088 GGTCATTCTGAATTCG
1 GATCATTTTGAGTTCG
419104 G
1 G
419105 GTCTATTGGG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.05
16 27 0.69
17 10 0.26
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (16 bp):
GATCATTTTGAGTTCG
Found at i:419070 original size:16 final size:17
Alignment explanation
Indices: 419039--419094 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
419029 AAAATTTTAA
419039 GATCATTTTCGAGTTCG
1 GATCATTTTCGAGTTCG
*
419056 GATCGTTTT-GAGTTCAG
1 GATCATTTTCGAGTTC-G
*
419073 G-TCA-TTTCGGGTTCG
1 GATCATTTTCGAGTTCG
*
419088 GGTCATT
1 GATCATT
419095 CTGAATTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 5 0.16
16 16 0.50
17 11 0.34
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (17 bp):
GATCATTTTCGAGTTCG
Found at i:419922 original size:16 final size:16
Alignment explanation
Indices: 419897--419964 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
419887 CAGGTTAATT
*
419897 GTTCGGGTCATTTCGG
1 GTTCGGGTCATTTCGA
*
419913 GTTCGAGTCATTTCGA
1 GTTCGGGTCATTTCGA
*
419929 GTTCGGGTCATTTTG-
1 GTTCGGGTCATTTCGA
*
419944 GATTCGGGTTATTTCGA
1 G-TTCGGGTCATTTCGA
419961 GTTC
1 GTTC
419965 AGATCAGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.02
16 42 0.95
17 1 0.02
ACGTcount: A:0.12, C:0.16, G:0.31, T:0.41
Consensus pattern (16 bp):
GTTCGGGTCATTTCGA
Found at i:419935 original size:32 final size:32
Alignment explanation
Indices: 419897--419964 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
419887 CAGGTTAATT
*
419897 GTTCGGGTCATTTCGGGTTCGAGTCATTTCGA
1 GTTCGGGTCATTTCGGATTCGAGTCATTTCGA
* * *
419929 GTTCGGGTCATTTTGGATTCGGGTTATTTCGA
1 GTTCGGGTCATTTCGGATTCGAGTCATTTCGA
419961 GTTC
1 GTTC
419965 AGATCAGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.16, G:0.31, T:0.41
Consensus pattern (32 bp):
GTTCGGGTCATTTCGGATTCGAGTCATTTCGA
Found at i:420724 original size:2 final size:2
Alignment explanation
Indices: 420708--420761 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
420698 CAATATTATG
*
420708 AT AT AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
420749 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
420762 ATGGTATGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:421181 original size:20 final size:20
Alignment explanation
Indices: 421152--421196 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
421142 GGCTCGTTTG
421152 AAAATATGGATTTAGATTAA
1 AAAATATGGATTTAGATTAA
* *
421172 AAAATTTGGATTTAGATTTA
1 AAAATATGGATTTAGATTAA
421192 AAAAT
1 AAAAT
421197 CCAAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AAAATATGGATTTAGATTAA
Found at i:421637 original size:32 final size:32
Alignment explanation
Indices: 421591--421666 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 32
421581 TTAATGACTG
*
421591 TCAAATTTACGAGTAATTATACCTAATATTCA
1 TCAAATTTATGAGTAATTATACCTAATATTCA
***
421623 TCAAATTTATGAGTAATTATGTTTAATATTCA
1 TCAAATTTATGAGTAATTATACCTAATATTCA
*
421655 TTAAATTTATGA
1 TCAAATTTATGA
421667 TCAATATCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (32 bp):
TCAAATTTATGAGTAATTATACCTAATATTCA
Done.