Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 107 of 182
Found at i:32409846 original size:20 final size:21
Alignment explanation
Indices: 32409821--32409863 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
32409811 TATATTTAAT
32409821 TATTTTATTATTA-AA-TAAAA
1 TATTTTATT-TTATAATTAAAA
32409841 TATTTTATTTTATAATTAAAA
1 TATTTTATTTTATAATTAAAA
32409862 TA
1 TA
32409864 AATAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTATTTTATAATTAAAA
Found at i:32409880 original size:17 final size:19
Alignment explanation
Indices: 32409858--32409896 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
32409848 TTTTATAATT
32409858 AAAATAAAT-AAATAT-TA
1 AAAATAAATAAAATATGTA
*
32409875 AAAATAATTAAAATATGTA
1 AAAATAAATAAAATATGTA
32409894 AAA
1 AAA
32409897 TATTATGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATAAATAAAATATGTA
Found at i:32409897 original size:18 final size:16
Alignment explanation
Indices: 32409855--32409898 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
32409845 TTATTTTATA
32409855 ATTAAAATAAATAAAT
1 ATTAAAATAAATAAAT
*
32409871 ATTAAAAATAATTAAAAT
1 ATT-AAAATAAAT-AAAT
32409889 ATGTAAAATA
1 AT-TAAAATA
32409899 TTATGATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 12 0.50
19 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATTAAAATAAATAAAT
Found at i:32410142 original size:23 final size:23
Alignment explanation
Indices: 32410116--32410160 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32410106 TTTATTAAAG
32410116 ATAATAAATT-TAATTTAATATTA
1 ATAA-AAATTCTAATTTAATATTA
32410139 ATAAAAATTCTAATTTAATATT
1 ATAAAAATTCTAATTTAATATT
32410161 TTATATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAAAATTCTAATTTAATATTA
Found at i:32412632 original size:26 final size:26
Alignment explanation
Indices: 32412603--32412655 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32412593 GTTTCCTGAG
* *
32412603 CTTTATTTTT-TTCTTTTACGTTCTTT
1 CTTTATTTTTCTTATTTT-CCTTCTTT
*
32412629 CTTTCTTTTTCTTATTTTCCTTCTTT
1 CTTTATTTTTCTTATTTTCCTTCTTT
32412655 C
1 C
32412656 CTTTTCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.72
Consensus pattern (26 bp):
CTTTATTTTTCTTATTTTCCTTCTTT
Found at i:32412647 original size:18 final size:19
Alignment explanation
Indices: 32412605--32412654 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
32412595 TTCCTGAGCT
32412605 TTATTTT-TTTCTTTTACG
1 TTATTTTCTTTCTTTTACG
* *
32412623 TT-CTTTCTTTCTTTTTC-
1 TTATTTTCTTTCTTTTACG
*
32412640 TTATTTTCCTTCTTT
1 TTATTTTCTTTCTTT
32412655 CCTTTTCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTTCTTTCTTTTACG
Found at i:32415444 original size:14 final size:15
Alignment explanation
Indices: 32415425--32415462 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
32415415 AAGGGTCCAA
*
32415425 TTGAACCGCAT-TAG
1 TTGAACCGAATCTAG
32415439 TTGAACCGAATCTAG
1 TTGAACCGAATCTAG
32415454 -TGAACCGAA
1 TTGAACCGAA
32415463 CCGGCCACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
TTGAACCGAATCTAG
Found at i:32419717 original size:26 final size:26
Alignment explanation
Indices: 32419680--32419731 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32419670 TTAAAGGTGA
32419680 TTTGCTTCTATTAATTT-TTTTATTTT
1 TTTGCTTCTATT-ATTTATTTTATTTT
*
32419706 TTTGC-TCTTATTTTTTATTTTATTTT
1 TTTGCTTC-TATTATTTATTTTATTTT
32419732 CTTATTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTGCTTCTATTATTTATTTTATTTT
Found at i:32419734 original size:20 final size:20
Alignment explanation
Indices: 32419695--32419738 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
32419685 TTCTATTAAT
32419695 TTTTTTATTTTTTTGCTCTTA
1 TTTTTTATTTTTTT-CTCTTA
32419716 TTTTTTATTTTATTT-TCTTA
1 TTTTTTATTTT-TTTCTCTTA
32419736 TTT
1 TTT
32419739 CGAAACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 11 0.50
22 3 0.14
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTTATTTTTTTCTCTTA
Found at i:32420546 original size:23 final size:21
Alignment explanation
Indices: 32420508--32420568 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
32420498 TTATACACAT
* *
32420508 TATATATATACATTTCTAC-AA
1 TATATATACACATTT-TTCTAA
32420529 TATATATACACATTTTTCTAA
1 TATATATACACATTTTTCTAA
32420550 TATATATACGTACATTTTT
1 TATATATAC--ACATTTTT
32420569 TAAAGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 25 0.71
23 8 0.23
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATATACACATTTTTCTAA
Found at i:32425837 original size:6 final size:6
Alignment explanation
Indices: 32425823--32425869 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
32425813 ATATATTTCA
* *
32425823 AAAAAG AAGAAG AAGAAG -AAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
32425870 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32425846 original size:17 final size:17
Alignment explanation
Indices: 32425824--32425869 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
32425814 TATATTTCAA
* *
32425824 AAAAGAAGAAGAAGAAG
1 AAAAGAAAAAGAAAAAG
32425841 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
32425858 AAAAAGAAAAAG
1 -AAAAGAAAAAG
32425870 GAGAGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:32425853 original size:23 final size:23
Alignment explanation
Indices: 32425823--32425867 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32425813 ATATATTTCA
* *
32425823 AAAAAGAAGAAGAAGAAGAAAAG
1 AAAAAGAAAAAGAAAAAGAAAAG
32425846 AAAAAGAAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAAAGAAAA
32425868 AGGAGAGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAGAAAAAGAAAAG
Found at i:32427280 original size:44 final size:44
Alignment explanation
Indices: 32427232--32427371 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
32427222 ACCAGCCTTA
*
32427232 TCTTCCTGAGCAGCAGAGGAGTAGGTTGAAGATTGTAGATCTTG
1 TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
* * * * * **** * *
32427276 TCTTCCT-ATACTAGCAGTGAAGTAGATTAAAAACACCAG-CCTTA
1 TCTTCCTGA-GC-AGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
*
32427320 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
1 TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
*
32427364 TCATCCTG
1 TCTTCCTG
32427372 TACTGGCAGT
Statistics
Matches: 66, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 20 0.30
44 27 0.41
45 19 0.29
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTG
Found at i:32427300 original size:45 final size:45
Alignment explanation
Indices: 32427251--32427388 Score: 111
Period size: 45 Copynumber: 3.1 Consensus size: 45
32427241 GCAGCAGAGG
32427251 AGTAGGTTGAAGATTGTAGATCTTGTCTTCCTATACTAGCAGTGA
1 AGTAGGTTGAAGATTGTAGATCTTGTCTTCCTATACTAGCAGTGA
* * * **** * * * * *
32427296 AGTAGATTAAAAACACCAG-CCTTATCTCCCTGA-GC-AGCAGTGG
1 AGTAGGTTGAAGATTGTAGATCTTGTCTTCCT-ATACTAGCAGTGA
* * *
32427339 AGTAGGTTGAAGATTGTAGATCTTGTCATCCTGTACTGGCAGTGA
1 AGTAGGTTGAAGATTGTAGATCTTGTCTTCCTATACTAGCAGTGA
32427384 AGTAG
1 AGTAG
32427389 ATAGAAAACA
Statistics
Matches: 62, Mismatches: 27, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 19 0.31
44 19 0.31
45 24 0.39
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
AGTAGGTTGAAGATTGTAGATCTTGTCTTCCTATACTAGCAGTGA
Found at i:32427320 original size:88 final size:88
Alignment explanation
Indices: 32427171--32427635 Score: 592
Period size: 88 Copynumber: 5.3 Consensus size: 88
32427161 ATGGATTGAA
* * * *
32427171 GAAGATTGTAGATCTTGTCTTCCTGTACTGGTAGTAAAGCAAATTGAAAACACCAGCCTTATCTT
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
*
32427236 CCTGAGCAGCAGAGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * *
32427259 GAAGATTGTAGATCTTGTCTTCCTATACTAGCAGTGAAGTAGATTAAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
32427324 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * * *
32427347 GAAGATTGTAGATCTTGTCATCCTGTACTGGCAGTGAAGTAGATAGAAAACACCAACCTTATC-T
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
* * * *
32427411 CCTTGAACATCAGTGGAATAAGTT
66 CC-TGAGCAGCAGTGGAGTAGGTT
* * *
32427435 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAACAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
*
32427500 CCTGAGCAACAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * ** *
32427523 AAAGATGGTAGATCTTGTCTTCCTGTACTGTTAGTGAAGCAGATCGAAAACACCAGCCTTATC-T
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
* *
32427587 CCTTGAGCAGCAGTAGAGTAGGTA
66 CC-TGAGCAGCAGTGGAGTAGGTT
* * * *
32427611 GAAAATTATAGATATTGTCTCCCTA
1 GAAGATTGTAGATCTTGTCTTCCTA
32427636 AGCAGTAGTG
Statistics
Matches: 326, Mismatches: 48, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
87 4 0.01
88 320 0.98
89 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTT
CCTGAGCAGCAGTGGAGTAGGTT
Found at i:32427738 original size:132 final size:131
Alignment explanation
Indices: 32427573--32427809 Score: 314
Period size: 132 Copynumber: 1.8 Consensus size: 131
32427563 AGATCGAAAA
* *
32427573 CACCAGCCTTATCTCCTTGAGCAGCAGTAGAGTAGGTAGAAAATTATAGATATTGTCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTAGAAAATTATAGATACTGTCTCCCTAAG
* ***
32427638 CAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAA
66 CAGTAGTGGAACAGATCAAAGACAATGAATCTTAT-TTCCCAAGGTAGTAGGGAAGTAGATTTAA
32427703 GC
130 GC
** * * * * *
32427705 CACCAGTCC-TATCTCCCTGAGTTGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAA
1 CACCAG-CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTAGAAAATTATAGATACTGTCTCCCTAA
* *
32427769 GTAGTAGTGGAACAGATCGAAGACAATGAATCTTATTTCCC
65 GCAGTAGTGGAACAGATCAAAGACAATGAATCTTATTTCCC
32427810 TGGCTTTGCA
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
131 5 0.06
132 82 0.92
133 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTAGAAAATTATAGATACTGTCTCCCTAAG
CAGTAGTGGAACAGATCAAAGACAATGAATCTTATTTCCCAAGGTAGTAGGGAAGTAGATTTAAG
C
Found at i:32427874 original size:51 final size:51
Alignment explanation
Indices: 32427793--32427891 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
32427783 GATCGAAGAC
* *
32427793 AATGAATCTTATTTCCCTGGCTTTGCAGTGGAATAGATTAAAGCTAAATGT
1 AATGAATCTTATTTCCCTGGCATTGCAGTGGAATACATTAAAGCTAAATGT
* *
32427844 AATGAATCTTTTTTCCCTGGCATTGTAGTGGAATACATTAAAGCTAAA
1 AATGAATCTTATTTCCCTGGCATTGCAGTGGAATACATTAAAGCTAAA
32427892 GTGGAGCGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (51 bp):
AATGAATCTTATTTCCCTGGCATTGCAGTGGAATACATTAAAGCTAAATGT
Found at i:32427921 original size:20 final size:21
Alignment explanation
Indices: 32427880--32427922 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
32427870 AGTGGAATAC
*
32427880 ATTAAAGCTAAAGTGGAGCGA
1 ATTAAAGCTAAAGTGCAGCGA
*
32427901 ATTAAAGCTGAAG-GCAGCGA
1 ATTAAAGCTAAAGTGCAGCGA
32427921 AT
1 AT
32427923 CCTATTTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (21 bp):
ATTAAAGCTAAAGTGCAGCGA
Found at i:32427974 original size:51 final size:51
Alignment explanation
Indices: 32427901--32428144 Score: 283
Period size: 51 Copynumber: 4.8 Consensus size: 51
32427891 AGTGGAGCGA
* * * * *
32427901 ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCGTTACAGTGGAACAG
1 ATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCATTACAGCGGAACAG
* * * * * *
32427952 ATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGACATTGCAGCGGAATAG
1 ATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCATTACAGCGGAACAG
* * *
32428003 ATTAAAGCTGAA-GTCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAG
1 ATTAAAGCTAAAGGT-AGCGAATCTTATTTCCTTGGCATTACAGCGGAACAG
* * * *
32428054 ATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCATTACAGCGGAATAG
1 ATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCATTACAGCGGAACAG
* * *
32428105 ATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGACATTA
1 ATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCATTA
32428145 AAGACTGAAG
Statistics
Matches: 158, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 2 0.01
51 154 0.97
52 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (51 bp):
ATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCATTACAGCGGAACAG
Found at i:32428077 original size:102 final size:102
Alignment explanation
Indices: 32427901--32428144 Score: 416
Period size: 102 Copynumber: 2.4 Consensus size: 102
32427891 AGTGGAGCGA
*
32427901 ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGG
1 ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGG
*
32427966 TAGTGAATCTTGTTTCCCTGACATTGCAGCGGAATAG
66 TAGTGAATCTTGTTTCCCTGACATTACAGCGGAATAG
*
32428003 ATTAAAGCTGAAGTCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGG
1 ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGG
*
32428068 TAGTGAATCTTGTTTCCCTGGCATTACAGCGGAATAG
66 TAGTGAATCTTGTTTCCCTGACATTACAGCGGAATAG
* * * *
32428105 ATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGACATTA
1 ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCATTA
32428145 AAGACTGAAG
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 133 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (102 bp):
ATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAGG
TAGTGAATCTTGTTTCCCTGACATTACAGCGGAATAG
Found at i:32428253 original size:44 final size:44
Alignment explanation
Indices: 32428184--32428359 Score: 201
Period size: 44 Copynumber: 4.0 Consensus size: 44
32428174 ATTGAAGAAG
* * *
32428184 GCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAA
1 GCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * *
32428228 GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAA
1 GCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * * * *
32428272 GATACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCATATGAAA
1 GCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* *
32428316 GCTATTAATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 GCTA-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
32428360 ACGATGAATC
Statistics
Matches: 106, Mismatches: 25, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
44 104 0.98
45 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
Found at i:32428339 original size:88 final size:88
Alignment explanation
Indices: 32428190--32428350 Score: 252
Period size: 88 Copynumber: 1.8 Consensus size: 88
32428180 GAAGGCTACA
*
32428190 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATGAAAGCCACAAACCTTATCTCCCTGAAGTTG
32428255 CAGTGGAGTAGGTTGAAGATACC
66 CAGTGGAGTAGGTTGAAGATACC
* * * * *
32428278 AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATGAAAGCTATTAATCC-TATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATGAAAGCCA-CAAACCTTATCTCCCTGAAGTT
32428342 GCAGTGGAG
65 GCAGTGGAG
32428351 CAGATTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
88 62 0.94
89 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATGAAAGCCACAAACCTTATCTCCCTGAAGTTG
CAGTGGAGTAGGTTGAAGATACC
Found at i:32428370 original size:44 final size:44
Alignment explanation
Indices: 32428190--32428390 Score: 167
Period size: 44 Copynumber: 4.6 Consensus size: 44
32428180 GAAGGCTACA
* * * * *
32428190 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA-C
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATC
* * * *
32428233 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTT-GAA-GATACC
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAT--C
* * * * * * *
32428278 AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATGAAAGCTATT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATC
*
32428322 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATC
* *
32428366 AATCCTATAC-CTCTGATGTTGCAGT
1 AATCCTAT-CTCCCTGAAGTTGCAGT
32428391 AGGTCGGATT
Statistics
Matches: 122, Mismatches: 29, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 109 0.89
45 6 0.05
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATC
Found at i:32428546 original size:44 final size:44
Alignment explanation
Indices: 32428479--32428592 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
32428469 CACATCAAAC
32428479 CTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAA-ATTGAAGATACCAAT
* * * **
32428523 CTTATCTCGCTGAAGTTGTAGTGGAGTAAATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACCAAT
* *
32428567 CCTATCTCCCAGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
32428593 CGGATTAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACCAAT
Found at i:32428657 original size:242 final size:241
Alignment explanation
Indices: 32428232--32428793 Score: 880
Period size: 242 Copynumber: 2.3 Consensus size: 241
32428222 ATTAAAGCCA
* *
32428232 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAATCTTATCT-CCTGAAGT
* *
32428297 TGTAGTGGAGCATATGAAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
65 TGTAGTGGAGCAAATGAAAGCTATTAATCCTATCTCCCAGAAGTTGCAGTGGAGCAGATTAAAAC
32428362 GATGAATCCTATACCTCTGATGTTGCAGTAGGTCGGATTAAGTCTATCATAACAAGTCTTATCTC
130 GATGAATCCTATACCTCTGATGTTGCAGTAGGTCGGATTAAGTCTATCATAACAAGTCTTATCTC
*
32428427 CCTAAAGTTGTAGTAGAGCAGACTGTA-GATAGTGAATCTTATCACAT
195 CCTAAAGTTGTAGTAGAGAAGACTG-AGGATAGTGAATCTTATCACAT
32428474 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAATCTTATCTCGCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAATCTTATCTC-CTGAAGT
* *
32428539 TGTAGTGGAGTAAATTG-AAGCTATTAATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAA
65 TGTAGTGGAGCAAA-TGAAAGCTATTAATCCTATCTCCCAGAAGTTGCAGTGGAGCAGATTAAAA
*
32428603 CGATGAATCCTATACCTCTGATGTTGCAGTAGGTTGGATTAAGTCTATCATAACAAGTCTTATCT
129 CGATGAATCCTATACCTCTGATGTTGCAGTAGGTCGGATTAAGTCTATCATAACAAGTCTTATCT
* *
32428668 CCCTAAAGTTGTAGTGGAGAAGACTGAGGATAGTGGATCTTATCACAT
194 CCCTAAAGTTGTAGTAGAGAAGACTGAGGATAGTGAATCTTATCACAT
* * * * *
32428716 CAAACCTTATCTCCCTGAAAG-TGTAGTGGA-ACAGACTGAGGATAACAAACCTTATCTCCTTGA
1 CAAACCTTATCTCCCTG-AAGTTGCAGTGGAGA-AGATTGAAGAT-ACCAATCTTATCTCC-TGA
*
32428779 TGTTGTAGTGGAGCA
62 AGTTGTAGTGGAGCA
32428794 GACTAAAACC
Statistics
Matches: 296, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
241 3 0.01
242 260 0.88
243 33 0.11
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (241 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAATCTTATCTCCTGAAGTT
GTAGTGGAGCAAATGAAAGCTATTAATCCTATCTCCCAGAAGTTGCAGTGGAGCAGATTAAAACG
ATGAATCCTATACCTCTGATGTTGCAGTAGGTCGGATTAAGTCTATCATAACAAGTCTTATCTCC
CTAAAGTTGTAGTAGAGAAGACTGAGGATAGTGAATCTTATCACAT
Found at i:32429507 original size:22 final size:21
Alignment explanation
Indices: 32429474--32429519 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
32429464 TTCTATTAAT
*
32429474 TTTTATTATTTTTTTCTCTCTTA
1 TTTTATTATTTTCTT-T-TCTTA
32429497 TTTT-TTATTTTCTTTTCTTA
1 TTTTATTATTTTCTTTTCTTA
32429517 TTT
1 TTT
32429520 CGAAACAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 9 0.41
23 4 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTATTTTCTTTTCTTA
Found at i:32436278 original size:322 final size:322
Alignment explanation
Indices: 32435693--32436336 Score: 1288
Period size: 322 Copynumber: 2.0 Consensus size: 322
32435683 CTGTAGTAAG
32435693 TTTGAAACACCTTATTCTAAACAATATCAAATAGATGGAGTTTAATAAGGTTTAAAAAACCTTAT
1 TTTGAAACACCTTATTCTAAACAATATCAAATAGATGGAGTTTAATAAGGTTTAAAAAACCTTAT
32435758 TCTAAAATAAAATGAAAGAAATATAGTTCTATAAGGATTTTACTTTTATTTACCACTGTATTTTA
66 TCTAAAATAAAATGAAAGAAATATAGTTCTATAAGGATTTTACTTTTATTTACCACTGTATTTTA
32435823 TTTAAATAAGGATTCGAGTCACTTAATTCTAACAATCTCCACCTTGACACGAATTCTCAATGAAC
131 TTTAAATAAGGATTCGAGTCACTTAATTCTAACAATCTCCACCTTGACACGAATTCTCAATGAAC
32435888 AAGTTCTTCATCACAAACTCTCAACGAAAAAGTTCTCCACCTCTTCCAAAAACCCCTTAAGGGTT
196 AAGTTCTTCATCACAAACTCTCAACGAAAAAGTTCTCCACCTCTTCCAAAAACCCCTTAAGGGTT
32435953 TAGCTTCAACAATGAACACCAATCAAGTCTAAGCAATGCTCAAACTTAGTTATAGGAAGTGA
261 TAGCTTCAACAATGAACACCAATCAAGTCTAAGCAATGCTCAAACTTAGTTATAGGAAGTGA
32436015 TTTGAAACACCTTATTCTAAACAATATCAAATAGATGGAGTTTAATAAGGTTTAAAAAACCTTAT
1 TTTGAAACACCTTATTCTAAACAATATCAAATAGATGGAGTTTAATAAGGTTTAAAAAACCTTAT
32436080 TCTAAAATAAAATGAAAGAAATATAGTTCTATAAGGATTTTACTTTTATTTACCACTGTATTTTA
66 TCTAAAATAAAATGAAAGAAATATAGTTCTATAAGGATTTTACTTTTATTTACCACTGTATTTTA
32436145 TTTAAATAAGGATTCGAGTCACTTAATTCTAACAATCTCCACCTTGACACGAATTCTCAATGAAC
131 TTTAAATAAGGATTCGAGTCACTTAATTCTAACAATCTCCACCTTGACACGAATTCTCAATGAAC
32436210 AAGTTCTTCATCACAAACTCTCAACGAAAAAGTTCTCCACCTCTTCCAAAAACCCCTTAAGGGTT
196 AAGTTCTTCATCACAAACTCTCAACGAAAAAGTTCTCCACCTCTTCCAAAAACCCCTTAAGGGTT
32436275 TAGCTTCAACAATGAACACCAATCAAGTCTAAGCAATGCTCAAACTTAGTTATAGGAAGTGA
261 TAGCTTCAACAATGAACACCAATCAAGTCTAAGCAATGCTCAAACTTAGTTATAGGAAGTGA
32436337 CTTAGTCATC
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 322 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (322 bp):
TTTGAAACACCTTATTCTAAACAATATCAAATAGATGGAGTTTAATAAGGTTTAAAAAACCTTAT
TCTAAAATAAAATGAAAGAAATATAGTTCTATAAGGATTTTACTTTTATTTACCACTGTATTTTA
TTTAAATAAGGATTCGAGTCACTTAATTCTAACAATCTCCACCTTGACACGAATTCTCAATGAAC
AAGTTCTTCATCACAAACTCTCAACGAAAAAGTTCTCCACCTCTTCCAAAAACCCCTTAAGGGTT
TAGCTTCAACAATGAACACCAATCAAGTCTAAGCAATGCTCAAACTTAGTTATAGGAAGTGA
Found at i:32454060 original size:19 final size:17
Alignment explanation
Indices: 32454006--32454063 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 17
32453996 TATTAATTTT
*
32454006 AAATAAATAAATTTTGAA
1 AAATTAATAAATTTT-AA
32454024 AAATTAAGTAATATTTTAA
1 AAATTAA-TAA-ATTTTAA
32454043 AGAATTAGATAAATTTTAA
1 A-AATTA-ATAAATTTTAA
32454062 AA
1 AA
32454064 TTTTTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 13 0.37
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AAATTAATAAATTTTAA
Found at i:32454348 original size:20 final size:20
Alignment explanation
Indices: 32454310--32454348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32454300 ATTATAAAAA
* **
32454310 TAAATGTTTAAAATCTTTTT
1 TAAATATTTAAAAAATTTTT
32454330 TAAATATTTAAAAAATTTT
1 TAAATATTTAAAAAATTTT
32454349 AAAATCTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TAAATATTTAAAAAATTTTT
Found at i:32454363 original size:10 final size:10
Alignment explanation
Indices: 32454316--32454375 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
32454306 AAAATAAATG
32454316 TTTAAAATCTT
1 TTTAAAATC-T
* *
32454327 TTTTAAAT-A
1 TTTAAAATCT
**
32454336 TTTAAAAAAT
1 TTTAAAATCT
32454346 TTTAAAATCT
1 TTTAAAATCT
32454356 TTTAAAATTCAT
1 TTTAAAA-TC-T
32454368 TTTAAAAT
1 TTTAAAAT
32454376 TTTAAATCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 6 0.15
10 15 0.38
11 10 0.26
12 8 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAAATCT
Found at i:32454372 original size:12 final size:12
Alignment explanation
Indices: 32454344--32454376 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32454334 TATTTAAAAA
32454344 ATTTTAAAA-TC
1 ATTTTAAAATTC
32454355 -TTTTAAAATTC
1 ATTTTAAAATTC
32454366 ATTTTAAAATT
1 ATTTTAAAATT
32454377 TTAAATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTAAAATTC
Found at i:32454375 original size:30 final size:30
Alignment explanation
Indices: 32454311--32454381 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
32454301 TTATAAAAAT
*
32454311 AAATGTTTAAAATCTTTTTTAAATATTTAAA
1 AAAT-TTTAAAATCTTTTTAAAATATTTAAA
*
32454342 AAATTTTAAAATC-TTTTAAAATTCATTT-TA
1 AAATTTTAAAATCTTTTTAAAA-T-ATTTAAA
32454372 AAATTTTAAA
1 AAATTTTAAA
32454382 TCACGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 7 0.19
30 21 0.58
31 8 0.22
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (30 bp):
AAATTTTAAAATCTTTTTAAAATATTTAAA
Found at i:32455027 original size:21 final size:21
Alignment explanation
Indices: 32454977--32455038 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
32454967 CTAACTCGAC
32454977 CCCAAATCTCTAAACCCTAAAT
1 CCCAAA-CTCTAAACCCTAAAT
* *
32454999 CTCTAACTCTAAACCTCT-AAT
1 CCCAAACTCTAAACC-CTAAAT
32455020 CCCAAACTC-ATAACCCTAA
1 CCCAAACTCTA-AACCCTAA
32455039 TTACCCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.09
21 24 0.73
22 6 0.18
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCAAACTCTAAACCCTAAAT
Found at i:32455222 original size:22 final size:21
Alignment explanation
Indices: 32455183--32455235 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
32455173 AACCTTAAAA
* *
32455183 CCCTAAACTCATAACCCTCAGC
1 CCCTAACCTCATAACCCT-AAC
32455205 CCCTAACCTC-TAACCCCTAAC
1 CCCTAACCTCATAA-CCCTAAC
32455226 CCCTGAACCT
1 CCCT-AACCT
32455236 TATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.28, C:0.49, G:0.04, T:0.19
Consensus pattern (21 bp):
CCCTAACCTCATAACCCTAAC
Found at i:32455571 original size:40 final size:40
Alignment explanation
Indices: 32455521--32455659 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
32455511 TGGGCTTAGG
* *
32455521 TTTTTTGCGGCGTTTTTTAGAAAAACGCTGCTAATGATC-A
1 TTTTTAGCGGCGTTTTTT-GAAAAGCGCTGCTAATGATCGA
** * *
32455561 TTTTTAGCGGCGCTTTCCT-ATAAGCGCCGCTAAT-ACTCGA
1 TTTTTAGCGGCG-TTTTTTGAAAAGCGCTGCTAATGA-TCGA
* * * * *
32455601 TCTTTAGCGGCGTTTTTGGGAAAGCGCTGGTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTGAAAAGCGCTGCTAATGATCGA
32455641 TTTTTAGCGGCGTTTTTTG
1 TTTTTAGCGGCGTTTTTTG
32455660 TACAAACGCC
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.01
39 17 0.22
40 55 0.71
41 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGAAAAGCGCTGCTAATGATCGA
Found at i:32456049 original size:36 final size:36
Alignment explanation
Indices: 32456002--32456073 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
32455992 GACTAAAGTG
32456002 AGGACCCATGGAAGCCATTATTGAAGATGAAAAGCT
1 AGGACCCATGGAAGCCATTATTGAAGATGAAAAGCT
32456038 AGGACCCATGGAAGCCATTATTGAAGATGAAAAGCT
1 AGGACCCATGGAAGCCATTATTGAAGATGAAAAGCT
32456074 GGTTTAGCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (36 bp):
AGGACCCATGGAAGCCATTATTGAAGATGAAAAGCT
Found at i:32456637 original size:3 final size:3
Alignment explanation
Indices: 32456631--32456664 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
32456621 AGATTGTTAA
32456631 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32456665 GAGGATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32463755 original size:15 final size:15
Alignment explanation
Indices: 32463735--32463769 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
32463725 TATTTTACTT
32463735 TTAAAACTCTGGCTA
1 TTAAAACTCTGGCTA
32463750 TTAAAACTCTGGCTA
1 TTAAAACTCTGGCTA
*
32463765 ATAAA
1 TTAAA
32463770 GAATTTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (15 bp):
TTAAAACTCTGGCTA
Found at i:32471145 original size:23 final size:24
Alignment explanation
Indices: 32471091--32471150 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
32471081 CTGAACCATA
* *
32471091 AAAAGAAAAAGAATTACACTTTGTC
1 AAAA-AAAAATAAATACACTTTGTC
32471116 ACCAAAAAAAATAAATACACTTT-TC
1 A--AAAAAAAATAAATACACTTTGTC
32471141 AAAAAAAAAT
1 AAAAAAAAAT
32471151 TAGAGTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 9 0.29
25 4 0.13
26 15 0.48
27 3 0.10
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (24 bp):
AAAAAAAAATAAATACACTTTGTC
Found at i:32473450 original size:28 final size:28
Alignment explanation
Indices: 32473417--32473470 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
32473407 AAAAATATTA
32473417 AAATTTCTAATA-TTTTTAATTTTTTTGT
1 AAATTT-TAATATTTTTTAATTTTTTTGT
*
32473445 AAATTTTAGTATTTTTTAATTTTTTT
1 AAATTTTAATATTTTTTAATTTTTTT
32473471 TTTCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (28 bp):
AAATTTTAATATTTTTTAATTTTTTTGT
Found at i:32475443 original size:86 final size:85
Alignment explanation
Indices: 32475264--32475472 Score: 253
Period size: 86 Copynumber: 2.4 Consensus size: 85
32475254 AAATATATTT
* * * *
32475264 TTAAAAGTGAATAAAATCTGTTTCGAGATTTATTCCTACCGTTCAACGGATTTTATTCCAATTTG
1 TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATT-CAATTTG
32475329 ATTTTATTTCCAAAACGAGTA
65 ATTTTATTTCCAAAACGAGTA
* * * *
32475350 TTTAAATTAAAATAAAATCTGTTT-GGGGTTTATTCCCACCGTTCAATGGATTTTATT-ATTTTT
1 TTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCA-ATTT
* *
32475413 TATTTTATTTCCAAAATGA-TAAA
64 GATTTTATTTCCAAAACGAGT--A
*
32475436 TTAAAATTAAATAAAATCTATTTCGGGATTTATTCCC
1 TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCC
32475473 GTCGATAACA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
84 2 0.02
85 34 0.32
86 55 0.52
87 14 0.13
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (85 bp):
TTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCAATTTGA
TTTTATTTCCAAAACGAGTA
Found at i:32475488 original size:86 final size:83
Alignment explanation
Indices: 32475312--32475598 Score: 244
Period size: 85 Copynumber: 3.4 Consensus size: 83
32475302 CCGTTCAACG
* * * * *
32475312 GATTTTATTCCAATTTGATTTTATTTCCAAAACGAGT-ATTTAAATTAAAATAAAATCTGTTTGG
1 GATTTTATT-CATTTTAATTTTATTTCCAAAATGA-TAAATTAAATT-AAATAAAATCTATTTGG
* ** *
32475376 GGTTTATTCCCACCGT-TCAA
63 GATTTATTCCCGTCGTAACAA
*
32475396 TGGATTTTATT-ATTTTTTATTTTATTTCCAAAATGATAAATTAAAATTAAATAAAATCTATTTC
1 --GATTTTATTCA-TTTTAATTTTATTTCCAAAATGATAAATT-AAATTAAATAAAATCTATTT-
32475460 GGGATTTATTCCCGTCGATAACAA
61 GGGATTTATTCCCGTCG-TAACAA
* * * * *
32475484 GATTTTATTCGATTTTAATTTTGTTTTC-AAATTAGAAA-TAAATTAAATTAAATCTATTTTGGG
1 GATTTTATTC-ATTTTAATTTTATTTCCAAAATGATAAATTAAATTAAATAAAATCTA-TTTGGG
*
32475547 ATTTATTCCCGTTGTTTAACAA
64 ATTTATTCCCGTCG--TAACAA
* *
32475569 GATTTTATTCAATATTAA-TTTGTTTCCAAA
1 GATTTTATTC-ATTTTAATTTTATTTCCAAA
32475599 CAAAGACTTA
Statistics
Matches: 170, Mismatches: 20, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
84 42 0.25
85 65 0.38
86 45 0.26
87 14 0.08
88 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (83 bp):
GATTTTATTCATTTTAATTTTATTTCCAAAATGATAAATTAAATTAAATAAAATCTATTTGGGAT
TTATTCCCGTCGTAACAA
Found at i:32475548 original size:84 final size:84
Alignment explanation
Indices: 32475439--32475598 Score: 241
Period size: 84 Copynumber: 1.9 Consensus size: 84
32475429 TGATAAATTA
* *
32475439 AAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCG-ATAACAAGATTTTATTCGATTTTAAT
1 AAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCGTATAACAAGATTTTATTCAATATTAA-
*
32475503 TTTGTTTTCAAATTAGAAAT
65 TTTGTTTCCAAATTAGAAAT
* * * *
32475523 AAATTAAATTAAATCTATTTTGGGATTTATTCCCGTTGTTTAACAAGATTTTATTCAATATTAAT
1 AAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCGTATAACAAGATTTTATTCAATATTAAT
32475588 TTGTTTCCAAA
66 TTGTTTCCAAA
32475599 CAAAGACTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 46 0.68
85 22 0.32
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (84 bp):
AAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCGTATAACAAGATTTTATTCAATATTAAT
TTGTTTCCAAATTAGAAAT
Found at i:32475647 original size:83 final size:85
Alignment explanation
Indices: 32475439--32475656 Score: 230
Period size: 84 Copynumber: 2.6 Consensus size: 85
32475429 TGATAAATTA
* * * * * * *
32475439 AAATTAAATAAAATCTATTTCGGGATTTATTCCCGTCG-ATAACAAGATTTTATTCGATTTTAAT
1 AAATCAAATTAAATATATTTTGGGATTTATTCCCGTCGTTTAACAAGATTTTATTCAATATTAAT
* *
32475503 TTTGTTTTCAAATTAGAAAT
66 TTTGTTTCCAAATCAGAAAT
* * *
32475523 AAATTAAATTAAATCTATTTTGGGATTTATTCCCGTTGTTTAACAAGATTTTATTCAATATTAA-
1 AAATCAAATTAAATATATTTTGGGATTTATTCCCGTCGTTTAACAAGATTTTATTCAATATTAAT
32475587 TTTGTTTCCAAA-CA-AAGACT
66 TTTGTTTCCAAATCAGAA-A-T
* * * * *
32475607 TAATCAAA-TAATTATGTTTTGGGATTTATTCCCGCCGTTTAACAAAATTT
1 AAATCAAATTAAATATATTTTGGGATTTATTCCCGTCGTTTAACAAGATTT
32475657 ATTTTTATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
82 2 0.02
83 38 0.33
84 53 0.46
85 22 0.19
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (85 bp):
AAATCAAATTAAATATATTTTGGGATTTATTCCCGTCGTTTAACAAGATTTTATTCAATATTAAT
TTTGTTTCCAAATCAGAAAT
Found at i:32475669 original size:59 final size:58
Alignment explanation
Indices: 32475606--32475724 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 58
32475596 AAACAAAGAC
* * * *
32475606 TTAATCAAATAA-TTATGTTTTGGGATTTATTCCCGCCGTTTAACAAAATTTATTTTTAT
1 TTAATCAAATAAGTT-T-TTTTGGGATTTAGTCCCACCGTTTAACAAAATTAATTTTGAT
* * * *
32475665 TTAATTACATAAGTTTTTTTGGGATTTAGTCCTATCGTTTAACAAAATTAATTTTGAT
1 TTAATCAAATAAGTTTTTTTGGGATTTAGTCCCACCGTTTAACAAAATTAATTTTGAT
32475723 TT
1 TT
32475725 TGTTTCAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 38 0.75
59 11 0.22
60 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (58 bp):
TTAATCAAATAAGTTTTTTTGGGATTTAGTCCCACCGTTTAACAAAATTAATTTTGAT
Found at i:32483436 original size:29 final size:30
Alignment explanation
Indices: 32483395--32483454 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
32483385 TAATTTTCCA
* *
32483395 TTTTTATATATTTTAAT-AATTTTTAAATAT
1 TTTTTATAAATTTT-ATGAATTTATAAATAT
*
32483425 TTTTTA-AAATTTTTTGAATTTATAAATAT
1 TTTTTATAAATTTTATGAATTTATAAATAT
32483454 T
1 T
32483455 AATAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.04
29 19 0.73
30 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTATAAATTTTATGAATTTATAAATAT
Found at i:32483439 original size:21 final size:21
Alignment explanation
Indices: 32483400--32483438 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32483390 TTCCATTTTT
32483400 ATATATTTTAATAATTTTTAA
1 ATATATTTTAATAATTTTTAA
*
32483421 ATATTTTTTAA-AATTTTT
1 ATATATTTTAATAATTTTT
32483439 TGAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATATTTTAATAATTTTTAA
Found at i:32487340 original size:12 final size:12
Alignment explanation
Indices: 32487325--32487362 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32487315 ATAGAGTAAG
*
32487325 ATGCAATTTCAA
1 ATGCAATATCAA
32487337 ATGCAA-AGTCAA
1 ATGCAATA-TCAA
32487349 ATGCAATATCAA
1 ATGCAATATCAA
32487361 AT
1 AT
32487363 ACATAATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (12 bp):
ATGCAATATCAA
Found at i:32490751 original size:21 final size:24
Alignment explanation
Indices: 32490709--32490751 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
32490699 GTACCAAAAA
*
32490709 TATTATTACAAATAAAGTAAATGG
1 TATTATTACAAATAAAGAAAATGG
32490733 TATTA-TA-AAATAAA-AAAAT
1 TATTATTACAAATAAAGAAAAT
32490752 AATTGTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 2 0.11
24 5 0.28
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (24 bp):
TATTATTACAAATAAAGAAAATGG
Found at i:32491998 original size:274 final size:277
Alignment explanation
Indices: 32491501--32492059 Score: 874
Period size: 274 Copynumber: 2.0 Consensus size: 277
32491491 CACACATGTT
* *
32491501 TTTTAAATACATGATTTTCACACGCATAATCTTGTGATAAAAATTCTTACTTGTAATAGTTTTAT
1 TTTTAAATACATGATTTTCACACGCATAACCTTGTGATAAAAATTCTTACTTGTAATAGTTTGAT
*
32491566 TTTGGTCATGATACAGATTTATTGATTGGATTTGTAATTCCATTTGTATATTATACTAATGGCCC
66 TTTGGTCAAGATACAGATTTATTGATTGGATTTGTAATTCCATTTGTATATTATACTAATGGCCC
* * * * *
32491631 ATTTAGTTTACTTGAAACCGGCGTGATATCTCATTTATTACGTAATTATCACATGAGCTTTAAAT
131 ATTTAGTTTACATAAAAACGGCGTGATAGCTCATTTATTACGTAATTATCACATGAGATTTAAAT
* * *
32491696 AAAAAGATATTTGATAGCCTTGATAAATAA-AAGATCATGTAAC-TTTTTTA-CTTAAGTTGAAA
196 AAAAAGATATTTGATAACCTTAATAAATAAGAAGATCATGTAACTTTTTTTAGCTTAAATTGAAA
32491758 GATAATTTTCACCTATA
261 GATAATTTTCACCTATA
* * * *
32491775 TTTTAAATACATGATTTTTACGCGCATAACCTTGTGATAAGAATTTTTACTTGTAATAGTTTGAT
1 TTTTAAATACATGATTTTCACACGCATAACCTTGTGATAAAAATTCTTACTTGTAATAGTTTGAT
* *
32491840 TTTGGTCAAGATAGAGATTTATTGATTGGATTTGTAA-TCCAATTTGTATATTTTACTAATGGCC
66 TTTGGTCAAGATACAGATTTATTGATTGGATTTGTAATTCC-ATTTGTATATTATACTAATGGCC
** *
32491904 TGTTTAGTTTACATAAAAATGGCGTGATAGCTCATTTATTACGTAATTATCACATGAGATTTAAA
130 CATTTAGTTTACATAAAAACGGCGTGATAGCTCATTTATTACGTAATTATCACATGAGATTTAAA
* * *
32491969 TAAAAAGATATTTGATAACCTTAATAAATAAGAGGATTATGTAACTTTTTTTAGTTTAAATTGAA
195 TAAAAAGATATTTGATAACCTTAATAAATAAGAAGATCATGTAACTTTTTTTAGCTTAAATTGAA
32492034 AGATAATTTTCACCTATA
260 AGATAATTTTCACCTATA
32492052 TTTTAAAT
1 TTTTAAAT
32492060 CACTAAGTAA
Statistics
Matches: 258, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
273 3 0.01
274 202 0.78
275 11 0.04
276 7 0.03
277 35 0.14
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (277 bp):
TTTTAAATACATGATTTTCACACGCATAACCTTGTGATAAAAATTCTTACTTGTAATAGTTTGAT
TTTGGTCAAGATACAGATTTATTGATTGGATTTGTAATTCCATTTGTATATTATACTAATGGCCC
ATTTAGTTTACATAAAAACGGCGTGATAGCTCATTTATTACGTAATTATCACATGAGATTTAAAT
AAAAAGATATTTGATAACCTTAATAAATAAGAAGATCATGTAACTTTTTTTAGCTTAAATTGAAA
GATAATTTTCACCTATA
Found at i:32498224 original size:8 final size:9
Alignment explanation
Indices: 32498206--32498364 Score: 66
Period size: 9 Copynumber: 17.4 Consensus size: 9
32498196 TTGATGATTT
32498206 TTTTTATAA
1 TTTTTATAA
32498215 TTTTTA-AA
1 TTTTTATAA
* *
32498223 TTGTCA-AA
1 TTTTTATAA
*
32498231 GGTTTTT-TTA
1 --TTTTTATAA
32498241 TT-TTATAA
1 TTTTTATAA
* *
32498249 TTTTAATTA
1 TTTTTATAA
32498258 -TTTTATAA
1 TTTTTATAA
32498266 TTCTTTATAAA
1 TT-TTTAT-AA
32498277 TTTTTACTGAA
1 TTTTTA-T-AA
32498288 -TTTTATAA
1 TTTTTATAA
32498296 TTTTTATAAA
1 TTTTTAT-AA
*
32498306 TCTTGATAATAA
1 T-TT--TTATAA
* * *
32498318 GTTATAAAA
1 TTTTTATAA
32498327 TTTTTAATAA
1 TTTTT-ATAA
32498337 TTTTT-T-A
1 TTTTTATAA
32498344 TTTTT-TAA
1 TTTTTATAA
*
32498352 TTTTTAGAA
1 TTTTTATAA
32498361 TTTT
1 TTTT
32498365 AGAATGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
7 9 0.08
8 29 0.26
9 30 0.27
10 29 0.26
11 11 0.10
12 2 0.02
13 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32498274 original size:10 final size:9
Alignment explanation
Indices: 32498241--32498364 Score: 69
Period size: 9 Copynumber: 13.3 Consensus size: 9
32498231 GGTTTTTTTA
32498241 TTTTATAAT
1 TTTTATAAT
* *
32498250 TTTAATTA-
1 TTTTATAAT
32498258 TTTTATAAT
1 TTTTATAAT
32498267 TCTTTATAAAT
1 T-TTTAT-AAT
32498278 TTTTACTGAA-
1 TTTTA-T-AAT
32498288 TTTTATAAT
1 TTTTATAAT
32498297 TTTTATAAAT
1 TTTTAT-AAT
* *
32498307 CTTGATAATAAG
1 -TT--TTATAAT
* *
32498319 TTATAAAAT
1 TTTTATAAT
32498328 TTTTAATAAT
1 TTTT-ATAAT
32498338 TTTT-T-AT
1 TTTTATAAT
32498345 TTTT-TAAT
1 TTTTATAAT
*
32498353 TTTTAGAAT
1 TTTTATAAT
32498362 TTT
1 TTT
32498365 AGAATGATTC
Statistics
Matches: 89, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.08
8 15 0.17
9 26 0.29
10 25 0.28
11 11 0.12
12 2 0.02
13 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:32498314 original size:19 final size:19
Alignment explanation
Indices: 32498258--32498315 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
32498248 ATTTTAATTA
*
32498258 TTTTATAATTCTTTATAAAT
1 TTTTATAAATCTTTAT-AAT
*
32498278 TTTTACTGAAT-TTTATAAT
1 TTTTA-TAAATCTTTATAAT
*
32498297 TTTTATAAATCTTGATAAT
1 TTTTATAAATCTTTATAAT
32498316 AAGTTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 4 0.12
19 15 0.47
20 10 0.31
21 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTATAAATCTTTATAAT
Found at i:32500958 original size:34 final size:34
Alignment explanation
Indices: 32500915--32500983 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
32500905 GAGAAAATAG
32500915 AACCCTTGTAGAATTGTAGAAATTTATTTCCACT
1 AACCCTTGTAGAATTGTAGAAATTTATTTCCACT
32500949 AACCCTTGTAGAATTGTAGAAATTTATTTCCACT
1 AACCCTTGTAGAATTGTAGAAATTTATTTCCACT
32500983 A
1 A
32500984 GAAAAACAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (34 bp):
AACCCTTGTAGAATTGTAGAAATTTATTTCCACT
Found at i:32501260 original size:18 final size:16
Alignment explanation
Indices: 32501225--32501263 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
32501215 TTCTCACCCC
32501225 AATTTTACCCCAGTAA
1 AATTTTACCCCAGTAA
*
32501241 AATTTTAACCCCTGGTAA
1 AATTTT-ACCCC-AGTAA
32501259 AATTT
1 AATTT
32501264 CGAGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (16 bp):
AATTTTACCCCAGTAA
Found at i:32501414 original size:18 final size:18
Alignment explanation
Indices: 32501391--32501427 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32501381 AGGATTACAA
32501391 GTTTCCATTTCCAATTTT
1 GTTTCCATTTCCAATTTT
*
32501409 GTTTCCATTTCCATTTTT
1 GTTTCCATTTCCAATTTT
32501427 G
1 G
32501428 GAAATCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.08, T:0.57
Consensus pattern (18 bp):
GTTTCCATTTCCAATTTT
Found at i:32503924 original size:39 final size:39
Alignment explanation
Indices: 32503870--32503945 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
32503860 TAATAACAAA
32503870 TTTAACTTATTTAATACTCACATTCATTAAAACAGCCAT
1 TTTAACTTATTTAATACTCACATTCATTAAAACAGCCAT
* *
32503909 TTTAACTTATTTAATACTCATATTCATTAAAATAGCC
1 TTTAACTTATTTAATACTCACATTCATTAAAACAGCC
32503946 CTCGACTCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (39 bp):
TTTAACTTATTTAATACTCACATTCATTAAAACAGCCAT
Found at i:32508309 original size:28 final size:28
Alignment explanation
Indices: 32508273--32508326 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
32508263 ACAAAGTAAA
32508273 AATAACAATAAGCACCAAAATGCAAAAT
1 AATAACAATAAGCACCAAAATGCAAAAT
* * *
32508301 AATATCAATAAGCACCGAAGTGCAAA
1 AATAACAATAAGCACCAAAATGCAAA
32508327 TTTTACAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.15
Consensus pattern (28 bp):
AATAACAATAAGCACCAAAATGCAAAAT
Found at i:32513388 original size:27 final size:27
Alignment explanation
Indices: 32513356--32513424 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32513346 AGGTTGTAAG
32513356 ATGACCGTAATA-CCTCCATAAGGTTAA
1 ATGACCGTAATACCCT-CATAAGGTTAA
32513383 ATGACCGTAATACCCTCATAAGGTTAA
1 ATGACCGTAATACCCTCATAAGGTTAA
*
32513410 ATGACCATAATACCC
1 ATGACCGTAATACCC
32513425 CTGTAGGGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (27 bp):
ATGACCGTAATACCCTCATAAGGTTAA
Found at i:32513992 original size:33 final size:33
Alignment explanation
Indices: 32513955--32514022 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
32513945 CCCTGCAATT
*
32513955 TTAAACCGAGACCAATCCAACACAACCAATCCA
1 TTAAACCAAGACCAATCCAACACAACCAATCCA
*
32513988 TTAAACCAAGACCAATCCAACGCAACCAATCCA
1 TTAAACCAAGACCAATCCAACACAACCAATCCA
32514021 TT
1 TT
32514023 TCAACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (33 bp):
TTAAACCAAGACCAATCCAACACAACCAATCCA
Found at i:32514054 original size:22 final size:23
Alignment explanation
Indices: 32514020--32514063 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
32514010 CAACCAATCC
**
32514020 ATTTCAACATATTTTTAAGATAG
1 ATTTCAACATATTCATAAGATAG
*
32514043 ATTT-AACGTATTCATAAGATA
1 ATTTCAACATATTCATAAGATA
32514064 ACCTCCTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATTTCAACATATTCATAAGATAG
Found at i:32519133 original size:70 final size:70
Alignment explanation
Indices: 32518973--32519193 Score: 320
Period size: 70 Copynumber: 3.1 Consensus size: 70
32518963 TTTGATGCTT
* *
32518973 AAATGATGCCCAATTTGTTGTAT-TTATGCTGCCCAATTTGTTGTATATATATGCTGTCCAATTT
1 AAATGCTGCTCAATTTGTTGTATATT-TGCTGCCCAATTTGTTGTATATA-A-GCTGTCCAATTT
*
32519037 TGATGTAA
63 TGGTGTAA
*
32519045 AAATGTTGCTCAATTTGTTGTATATTTGCTGCCCAATTTGTTGTATATAAGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATTTGCTGCCCAATTTGTTGTATATAAGCTGTCCAA-TTTTG
32519110 GTGTAA
65 GTGTAA
*
32519116 AAATGCTGCTCAA-TTGTTGTATATTTGCTGCTCAATTTGTTGTATATAAGCTGTCCAAATTTTG
1 AAATGCTGCTCAATTTGTTGTATATTTGCTGCCCAATTTGTTGTATATAAGCTGTCC-AATTTTG
* *
32519180 GTATGA
65 GTGTAA
32519186 AAATGCTG
1 AAATGCTG
32519194 TCTAGTTTGG
Statistics
Matches: 139, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
70 68 0.49
71 25 0.18
72 44 0.32
73 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (70 bp):
AAATGCTGCTCAATTTGTTGTATATTTGCTGCCCAATTTGTTGTATATAAGCTGTCCAATTTTGG
TGTAA
Found at i:32519161 original size:23 final size:23
Alignment explanation
Indices: 32518983--32519162 Score: 143
Period size: 23 Copynumber: 7.7 Consensus size: 23
32518973 AAATGATGCC
*
32518983 CAATTTGTTGTAT-TTATGCTGCC
1 CAATTTGTTGTATATT-TGCTGCT
32519006 CAATTTGTTGTATATATATGCTG-T
1 CAATTTGTTGTATAT-T-TGCTGCT
* * ** *
32519030 CCAATTTTGATGTAAAAATGTTGCT
1 -CAA-TTTGTTGTATATTTGCTGCT
*
32519055 CAATTTGTTGTATATTTGCTGCC
1 CAATTTGTTGTATATTTGCTGCT
**
32519078 CAATTTGTTGTATATAAGCTG-T
1 CAATTTGTTGTATATTTGCTGCT
* * **
32519100 CCAATTTTTGGTGTAAAAATGCTGCT
1 -CAA--TTTGTTGTATATTTGCTGCT
32519126 CAA-TTGTTGTATATTTGCTGCT
1 CAATTTGTTGTATATTTGCTGCT
32519148 CAATTTGTTGTATAT
1 CAATTTGTTGTATAT
32519163 AAGCTGTCCA
Statistics
Matches: 124, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
22 18 0.15
23 60 0.48
24 8 0.06
25 28 0.23
26 10 0.08
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (23 bp):
CAATTTGTTGTATATTTGCTGCT
Found at i:32519225 original size:23 final size:23
Alignment explanation
Indices: 32518998--32519225 Score: 89
Period size: 23 Copynumber: 9.7 Consensus size: 23
32518988 TGTTGTATTT
* *
32518998 ATGCTGCCCAATTTGTTGTATATAT
1 ATGCTGTCCAATTTG--GTATATAA
* * *
32519023 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGGTATATAA
* * * *
32519047 ATGTTG-CTCAATTTGTTGTATAT
1 ATGCTGTC-CAATTTGGTATATAA
* *
32519070 TTGCTGCCCAATTTGTTGTATAT-A
1 ATGCTGTCCAATTTG--GTATATAA
* *
32519094 A-GCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA--TTTGGTATATAA
*
32519118 ATGCTG-CTCAATTGTTGTATAT--
1 ATGCTGTC-CAATT-TGGTATATAA
*
32519140 TTGCTG-CTCAATTTGTTGTATAT-A
1 ATGCTGTC-CAATTTG--GTATATAA
32519164 A-GCTGTCCAAATTTTGGTATGA-AA
1 ATGCTGTCC-AA-TTTGGTAT-ATAA
* *
32519188 ATGCTGTCTAGTTTGGTATATAA
1 ATGCTGTCCAATTTGGTATATAA
32519211 ATGCTGTCCAATTTG
1 ATGCTGTCCAATTTG
32519226 ATGTATGAGG
Statistics
Matches: 154, Mismatches: 28, Indels: 44
0.68 0.12 0.19
Matches are distributed among these distances:
21 1 0.01
22 13 0.08
23 73 0.47
24 28 0.18
25 35 0.23
26 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (23 bp):
ATGCTGTCCAATTTGGTATATAA
Found at i:32524837 original size:16 final size:16
Alignment explanation
Indices: 32524816--32524850 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
32524806 TATTGAAGAA
32524816 GAAAGACACCATTAAT
1 GAAAGACACCATTAAT
*
32524832 GAAAGACACCATTGAT
1 GAAAGACACCATTAAT
32524848 GAA
1 GAA
32524851 CACTTTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (16 bp):
GAAAGACACCATTAAT
Found at i:32525529 original size:30 final size:30
Alignment explanation
Indices: 32525495--32525618 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
32525485 GTACATATTT
* * *
32525495 TATACACTACCGAATTGATTTTTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
32525525 TATACATTGCTGAATTGATTTGTATATCGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
32525555 TATGCATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
32525585 TATACATTGCCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
32525615 TATA
1 TATA
32525619 TATATATTTC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:32531038 original size:50 final size:50
Alignment explanation
Indices: 32530956--32531539 Score: 258
Period size: 50 Copynumber: 11.9 Consensus size: 50
32530946 CCATGGTTTC
* * * *
32530956 CAAT-GAAAAGATT-AAGACCACAACGGCAAATCTTACTTCCCAGGCAGTG
1 CAATGGAAAAGATTGAAG-CTACAACGGCGAATCTTACTTCCCTGACAGTG
* * * * *
32531005 CAATGGAACATATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTG
** * *
32531055 CAATTTAAAAGATT---G-----A-GGCAAATCTTACTT-CCTAGGCAGTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACAGTG
** * * * *
32531096 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCTGACAGTG
* ** * *
32531147 TAATTTAAAAGATTGAAG-TCACAACAGCGAATCTTACTTCCCTGGA-GGTG
1 CAATGGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCT-GACAGTG
* * * * * *
32531197 CAGTGGAACATATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTG
* * * * * *
32531247 CAAT-TAAAAGATCGAGGCCATAACGGCGAATCTTAC-TCCCTGGC-GTTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAG-TG
* * * ** * * *
32531295 CAGTGGAACAGATTGAAGTTACAACGGAAAATCTT-GTTTCCTCGACATTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACAGTG
* * * * * * * *
32531345 CAAT-TAAAAGA-TCAAGGCCATAATGGCGAATCCTACTT-CCAGGC-GTTG
1 CAATGGAAAAGATTGAA-GCTACAACGGCGAATCTTACTTCCCTGACAG-TG
*** * * * *
32531393 CAGCAGAATAGATTGAAGCTACAATGGCGAATCTTGCTTCCCTGACATTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTG
** * * * * *
32531443 CAATTTAAAATATTGAAGCCACAACTGCGAATCGTACTTCCCTGACGGTG
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTG
* * * * * * * * *
32531493 TAGTGGAATATATTGAAGCTACGATGGCAAATCTTAATTCCCCGACA
1 CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACA
32531540 TTTGCAGTTA
Statistics
Matches: 376, Mismatches: 129, Indels: 59
0.67 0.23 0.10
Matches are distributed among these distances:
40 2 0.01
41 26 0.07
42 1 0.00
44 1 0.00
47 1 0.00
48 20 0.05
49 97 0.26
50 186 0.49
51 40 0.11
52 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
CAATGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTG
Found at i:32531171 original size:51 final size:51
Alignment explanation
Indices: 32531105--32531484 Score: 208
Period size: 49 Copynumber: 7.6 Consensus size: 51
32531095 GCAGCGGAAC
*
32531105 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGTAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* * ** ** * ** *
32531156 AGATTGAAG-TCACAACAGCGAATCTTACTTCCCTGGA-GGTGCAGTGGAAC
1 AGATTGAAGCT-ACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
*
32531206 ATATTGAAGCTACAACGGCGAATCTTGCTT-CCCCGACATTGCAA-TTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* * * * * * * * * ** *
32531255 AGATCGAGGCCATAACGGCGAATCTTAC-T-CCCTGGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* ** * *
32531304 AGATTGAAGTTACAACGGAAAATCTTG-TTTCCTCGACATTGCAA-TTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* * * * * * * * * **** *
32531353 AGA-TCAAGGCCATAATGGCGAATCCTACTT--CCAGGCGTTGCAGCAGAAT
1 AGATTGAA-GCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* *
32531402 AGATTGAAGCTACAATGGCGAATCTTGCTT-CCCTGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
* * * * *
32531452 ATATTGAAGCCACAACTGCGAATCGTACTTCCC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCC
32531485 TGACGGTGTA
Statistics
Matches: 230, Mismatches: 87, Indels: 24
0.67 0.26 0.07
Matches are distributed among these distances:
48 22 0.10
49 89 0.39
50 85 0.37
51 34 0.15
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (51 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAA
Found at i:32531319 original size:98 final size:98
Alignment explanation
Indices: 32531075--32531556 Score: 498
Period size: 98 Copynumber: 4.8 Consensus size: 98
32531065 GATTGAGGCA
* * *
32531075 AATCTTACTTCCTAGGCAGTGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCC
1 AATCTTACTCCCT-GGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT-CCCC
* * * *
32531140 GACATTGTAATTTAAAAGATTGAAGTCACAACAGCG
64 GACATTGCAA-TTAAAAGATCGAAGCCACAACGGCG
* *
32531176 AATCTTACTTCCCTGGAGGTGCAGTGGAACATATTGAAGCTACAACGGCGAATCTTGCTTCCCCG
1 AATCTTAC-TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCG
* *
32531241 ACATTGCAATTAAAAGATCGAGGCCATAACGGCG
65 ACATTGCAATTAAAAGATCGAAGCCACAACGGCG
* * ** * *
32531275 AATCTTACTCCCTGGCGTTGCAGTGGAACAGATTGAAGTTACAACGGAAAATCTTGTTTCCTCGA
1 AATCTTACTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA
* *
32531340 CATTGCAATTAAAAGATC-AAGGCCATAATGGCG
66 CATTGCAATTAAAAGATCGAA-GCCACAACGGCG
* * * * ** * * *
32531373 AATCCTACTTCCAGGCGTTGCAGCAGAATAGATTGAAGCTACAATGGCGAATCTTGCTTCCCTGA
1 AATCTTACTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA
* * *
32531438 CATTGCAATTTAAAATATTGAAGCCACAACTGCG
66 CATTGCAA-TTAAAAGATCGAAGCCACAACGGCG
* * * * * * * * **
32531472 AATCGTACTTCCCTGACGGTGTAGTGGAATATATTGAAGCTACGATGGCAAATCTTAATTCCCCG
1 AATCTTAC-TCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCG
*
32531537 ACATTTGCAGTTAAACAGAT
65 ACA-TTGCAATTAAA-AGAT
32531557 AGGAGAAGCC
Statistics
Matches: 319, Mismatches: 55, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
97 1 0.00
98 138 0.43
99 52 0.16
100 66 0.21
101 58 0.18
102 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (98 bp):
AATCTTACTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA
CATTGCAATTAAAAGATCGAAGCCACAACGGCG
Found at i:32531500 original size:296 final size:293
Alignment explanation
Indices: 32530977--32531556 Score: 737
Period size: 296 Copynumber: 2.0 Consensus size: 293
32530967 TTAAGACCAC
* **
32530977 AACGGCAAATCTTACTTCCCAGGCAGTGCAATGGAACATATTGAAGCTACAACGGCGAATCTTGC
1 AACGGCAAATCTTACTTCCCAGGCAGTGCAATGGAACAGATTGAAGCTACAACGGAAAATCTTGC
** *
32531042 TTCCCCGACATTGCAATTTAAAAGATTGAGGCAAATCTTACTTCCTAGGCAGTGCAGCGGAACAG
66 TTCCCCGACATTGCAATTTAAAAGATCAAGGCAAATCTTACTTCCTAGGCAGTGCAGCAGAACAG
* *
32531107 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGTAATTTAAAAGATTGAAGTCACAAC
131 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAAAGATTGAAGCCACAAC
* * **
32531172 AGCGAATCTTACTTCCCTGGAGGTGCAGTGGAACATATTGAAGCTACAACGGCGAATCTTGCTTC
196 AGCGAATCGTACTTCCCTGGAGGTGCAGTGGAACATATTGAAGCTACAACGGCAAATCTTAATTC
32531237 CCCGACA-TTGCAATTAAA-AGATCGAGGCCAT
261 CCCGACATTTGCAATTAAACAGATCGAGGCCAT
* * * *
32531268 AACGGCGAATCTTAC-TCCCTGGC-GTTGCAGTGGAACAGATTGAAGTTACAACGGAAAATCTTG
1 AACGGCAAATCTTACTTCCCAGGCAG-TGCAATGGAACAGATTGAAGCTACAACGGAAAATCTTG
* *
32531331 TTTCCTCGACATTGCAA-TTAAAAGATCAAGGCCATAATGGCGAATCCTACTTCC-AGGC-GTTG
65 CTTCCCCGACATTGCAATTTAAAAGATCAAGG-CA-AAT--C---T--TACTTCCTAGGCAG-TG
* * * *
32531393 CAGCAGAATAGATTGAAGCTACAATGGCGAATCTTGCTT-CCCTGACATTGCAATTTAAAATATT
120 CAGCAGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAAAGATT
* * * * *
32531457 GAAGCCACAACTGCGAATCGTACTTCCCT-GACGGTGTAGTGGAATATATTGAAGCTACGATGGC
185 GAAGCCACAACAGCGAATCGTACTTCCCTGGA-GGTGCAGTGGAACATATTGAAGCTACAACGGC
*
32531521 AAATCTTAATTCCCCGACATTTGCAGTTAAACAGAT
249 AAATCTTAATTCCCCGACATTTGCAATTAAACAGAT
32531557 AGGAGAAGCC
Statistics
Matches: 247, Mismatches: 28, Indels: 21
0.83 0.09 0.07
Matches are distributed among these distances:
289 13 0.05
290 57 0.23
291 17 0.07
293 1 0.00
295 2 0.01
296 94 0.38
297 52 0.21
298 11 0.04
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (293 bp):
AACGGCAAATCTTACTTCCCAGGCAGTGCAATGGAACAGATTGAAGCTACAACGGAAAATCTTGC
TTCCCCGACATTGCAATTTAAAAGATCAAGGCAAATCTTACTTCCTAGGCAGTGCAGCAGAACAG
ATTGAAGCTACAACGGCGAATCTTGCTTCCCCCGACATTGCAATTTAAAAGATTGAAGCCACAAC
AGCGAATCGTACTTCCCTGGAGGTGCAGTGGAACATATTGAAGCTACAACGGCAAATCTTAATTC
CCCGACATTTGCAATTAAACAGATCGAGGCCAT
Found at i:32531715 original size:44 final size:43
Alignment explanation
Indices: 32531560--32531729 Score: 138
Period size: 44 Copynumber: 4.0 Consensus size: 43
32531550 AACAGATAGG
* *
32531560 AGAAGCCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-ATTA
1 AGAATCCAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGACA--A
* * * *
32531603 A-AA-CCAGAAATCTTATCTCTCTGAAGTTGTAGTAGAGCA-A-AT
1 AGAATCC---AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGACAA
* * *
32531645 AGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGA
1 AGAATCCAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGACA-A
*
32531689 AGAATCCAATCCTATC-CCCTTGAAGTTGCAGTGGAGCAGAC
1 AGAATCCAATCCTATCTCCC-TGAAGTTGTAGTGGAGCAGAC
32531730 TAAAACCACA
Statistics
Matches: 103, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
41 30 0.29
42 4 0.04
43 6 0.06
44 63 0.61
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
AGAATCCAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGACAA
Found at i:32533198 original size:9 final size:9
Alignment explanation
Indices: 32533186--32533218 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
32533176 CATTTTGTTC
32533186 ATTATTTTT
1 ATTATTTTT
32533195 ATTATTTTT
1 ATTATTTTT
32533204 ATTATTTTT
1 ATTATTTTT
32533213 ATTATT
1 ATTATT
32533219 ATCTTTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTATTTTT
Found at i:32533208 original size:12 final size:12
Alignment explanation
Indices: 32533186--32533271 Score: 75
Period size: 12 Copynumber: 7.2 Consensus size: 12
32533176 CATTTTGTTC
*
32533186 ATTATTTTTATT
1 ATTATTATTATT
*
32533198 ATTTTTATTATT
1 ATTATTATTATT
*
32533210 TTTATTATTATCT
1 ATTATTATTAT-T
* *
32533223 -TTACTATTACT
1 ATTATTATTATT
*
32533234 ATTAGTATTATT
1 ATTATTATTATT
* *
32533246 ACTAATATTATT
1 ATTATTATTATT
*
32533258 ATTACTATTATT
1 ATTATTATTATT
32533270 AT
1 AT
32533272 ATTTACACTT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
11 1 0.02
12 58 0.97
13 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (12 bp):
ATTATTATTATT
Found at i:32533277 original size:15 final size:15
Alignment explanation
Indices: 32533188--32533271 Score: 80
Period size: 15 Copynumber: 5.6 Consensus size: 15
32533178 TTTTGTTCAT
* **
32533188 TATTTTTATTATTTT
1 TATTATTATTATTAC
* *
32533203 TATTATTTTTATTAT
1 TATTATTATTATTAC
*
32533218 TATCT-TTACTATTAC
1 TAT-TATTATTATTAC
*
32533233 TATTAGTATTATTAC
1 TATTATTATTATTAC
*
32533248 TAATATTATTATTAC
1 TATTATTATTATTAC
32533263 TATTATTAT
1 TATTATTAT
32533272 ATTTACACTT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
14 1 0.02
15 54 0.96
16 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:32536426 original size:119 final size:117
Alignment explanation
Indices: 32536290--32536549 Score: 366
Period size: 119 Copynumber: 2.2 Consensus size: 117
32536280 AAATAGTTGA
* * *
32536290 AAAAGATCAAAACTTTGTTTT-AAAATTTTAAACTTTTTCC-TTAAAATGACTGAAAAACAGATT
1 AAAA-ATCAAAATTTTGTTTTCAAAA-TTTAAA-TGTTTCCTTTAAAATGACTAAAAAACAGATT
* ***
32536353 TTTATTTTTAAAAATCTAAACTTCCTCTTTTTTTTAAAAAAAATCACTATTTTTCTT
63 TTTATTTTTAAAAATCTAAAC-T-CACTTTTTAAAAAAAAAAATCACTATTTTTCTT
*
32536410 AAAAATCAAAATTTTGTTTTCAAAATTTAAATGTTTCCTTTAAAATGACTAAAAAATAGATTTTT
1 AAAAATCAAAATTTTGTTTTCAAAATTTAAATGTTTCCTTTAAAATGACTAAAAAACAGATTTTT
32536475 ATTTTTAAAAATCTAAACTCACTTTTTAAAAAAAAAAATCACTATTTTTCTT
66 ATTTTTAAAAATCTAAACTCACTTTTTAAAAAAAAAAATCACTATTTTTCTT
32536527 AAAAATC-AAATTTT-TATTTCAAA
1 AAAAATCAAAATTTTGT-TTTCAAA
32536550 TAGTTGAAAA
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
115 1 0.01
116 14 0.11
117 36 0.28
118 7 0.05
119 63 0.49
120 8 0.06
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (117 bp):
AAAAATCAAAATTTTGTTTTCAAAATTTAAATGTTTCCTTTAAAATGACTAAAAAACAGATTTTT
ATTTTTAAAAATCTAAACTCACTTTTTAAAAAAAAAAATCACTATTTTTCTT
Found at i:32536594 original size:144 final size:146
Alignment explanation
Indices: 32536443--32536787 Score: 475
Period size: 144 Copynumber: 2.3 Consensus size: 146
32536433 AATTTAAATG
32536443 TTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTAAAAATCTAAACTCACTTTTTAAAAAA
1 TTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTAAAAATCTAAACTCACTTTTT-AAAAA
**
32536508 AAAAATCACTATTTTTCTTAAAAATCAAATTTTTATTTC-AAATAGTTGAAAAAGATCAAAA-T-
65 AAAAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGAAAAAGATCAAAATTG
32536570 TTAAAAAAAATTAAACT
130 TTAAAAAAAATTAAACT
* * **
32536587 TTTCCTTTAAAATGACTAAAAACAT--ATTTTTATTTTTAAAAATCTAAATTTTCTCTTTTTTTA
1 TTTCCTTTAAAATGACTAAAAA-ATAGATTTTTATTTTTAAAAATCTAAA--CTCACTTTTTAAA
*
32536650 AAAAAAATTACTATTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
63 AAAAAAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGAAAAAGATCAAAA-
** * *
32536715 TTTGTTTTAAAAATTTAATCT
127 -TTGTTAAAAAAAATTAAACT
* *
32536736 TTTCCTTTAAAATGACTAAAAAATAGGTTTTTATTTTAAAAAAATCTAAACT
1 TTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTT-TAAAAATCTAAACT
32536788 TTCCATTTTT
Statistics
Matches: 176, Mismatches: 14, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
143 23 0.13
144 61 0.35
145 32 0.18
148 3 0.02
149 36 0.20
150 10 0.06
151 11 0.06
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (146 bp):
TTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTAAAAATCTAAACTCACTTTTTAAAAAA
AAAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGAAAAAGATCAAAATTGT
TAAAAAAAATTAAACT
Found at i:32538725 original size:39 final size:39
Alignment explanation
Indices: 32538677--32538758 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
32538667 TTATTAAAAT
* *
32538677 CTAAGACAATTTAGCAAATTAGTCCCTAGGTTAGCTAGA
1 CTAAAACAATTTAACAAATTAGTCCCTAGGTTAGCTAGA
*
32538716 CTAAAACAATTTAACAAGTTAGTCCCTAGGTTAGCTAGA
1 CTAAAACAATTTAACAAATTAGTCCCTAGGTTAGCTAGA
32538755 CTAA
1 CTAA
32538759 GTTACAACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (39 bp):
CTAAAACAATTTAACAAATTAGTCCCTAGGTTAGCTAGA
Found at i:32541855 original size:15 final size:15
Alignment explanation
Indices: 32541837--32541897 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
32541827 AAGTGTAAAT
32541837 ATAATGATAGTAATA
1 ATAATGATAGTAATA
32541852 ATAAT-ATTAGTAATA
1 ATAATGA-TAGTAATA
* *
32541867 ATACTAATAGTAATA
1 ATAATGATAGTAATA
* * *
32541882 GTAAAGATAATAATA
1 ATAATGATAGTAATA
32541897 A
1 A
32541898 AAATAATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (15 bp):
ATAATGATAGTAATA
Found at i:32541874 original size:9 final size:9
Alignment explanation
Indices: 32541837--32541913 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 9
32541827 AAGTGTAAAT
*
32541837 ATAATGATA
1 ATAATAATA
*
32541846 GTAATAATA
1 ATAATAATA
* *
32541855 ATATTAGTA
1 ATAATAATA
*
32541864 ATAATACTA
1 ATAATAATA
*
32541873 ATAGTAATA
1 ATAATAATA
*
32541882 GTAA-AGATA
1 ATAATA-ATA
*
32541891 ATAATAAAA
1 ATAATAATA
*
32541900 ATAATAAAA
1 ATAATAATA
32541909 ATAAT
1 ATAAT
32541914 GAACAAAATG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
8 1 0.02
9 51 0.96
10 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (9 bp):
ATAATAATA
Found at i:32541897 original size:6 final size:6
Alignment explanation
Indices: 32541837--32541913 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 6
32541827 AAGTGTAAAT
* * * * * * *
32541837 ATAATG ATAGTA ATAATA ATATTA GTAATA ATACTA ATAGTA ATAGTA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* *
32541885 A-AGATA ATAATA AAAATA ATAAAA ATAAT
1 ATA-ATA ATAATA ATAATA ATAATA ATAAT
32541914 GAACAAAATG
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
5 1 0.02
6 53 0.96
7 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:32549021 original size:46 final size:46
Alignment explanation
Indices: 32548971--32549063 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
32548961 AAAAGTCTGA
32548971 ATTAAAAAGTAGGAGGGTGCAACATTATGTAATACCAAAAGATATG
1 ATTAAAAAGTAGGAGGGTGCAACATTATGTAATACCAAAAGATATG
32549017 ATTAAAAAGTAGGAGGGTGCAACATTATGTAATACCAAAAGATATG
1 ATTAAAAAGTAGGAGGGTGCAACATTATGTAATACCAAAAGATATG
32549063 A
1 A
32549064 AACGAACTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (46 bp):
ATTAAAAAGTAGGAGGGTGCAACATTATGTAATACCAAAAGATATG
Found at i:32553571 original size:3 final size:3
Alignment explanation
Indices: 32553563--32553599 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
32553553 ATATGTAGGT
32553563 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
32553600 CAAAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32553577 original size:21 final size:18
Alignment explanation
Indices: 32553562--32553598 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
32553552 TATATGTAGG
32553562 TATAATAATAATATATAA
1 TATAATAATAATATATAA
32553580 TATAATAATAATA-ATAA
1 TATAATAATAATATATAA
32553597 TA
1 TA
32553599 ACAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:32553609 original size:24 final size:24
Alignment explanation
Indices: 32553563--32553615 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32553553 ATATGTAGGT
* *
32553563 ATAATAATAATATATAATATAATA
1 ATAATAATAATACAAAATATAATA
32553587 ATAATAATAATAACAAAAT-TAATA
1 ATAATAATAAT-ACAAAATATAATA
32553611 A-AATA
1 ATAATA
32553616 GACTAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATACAAAATATAATA
Found at i:32554052 original size:22 final size:21
Alignment explanation
Indices: 32554017--32554114 Score: 71
Period size: 21 Copynumber: 4.7 Consensus size: 21
32554007 AAAGGGTATC
* *
32554017 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
32554038 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
32554061 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
32554080 TGA-ATATATCATA--TCTAAGAT
1 T-ACA-A-ATCATATCTCTAAGAT
* *
32554101 TGCATATCATATCT
1 TACAAATCATATCT
32554115 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 16 0.25
20 1 0.02
21 20 0.32
22 15 0.24
23 11 0.17
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:32554060 original size:23 final size:22
Alignment explanation
Indices: 32554017--32554074 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
32554007 AAAGGGTATC
* *
32554017 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
32554038 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
32554061 TACATATCATATCT
1 TACAAATCATATCT
32554075 AAGATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:32554077 original size:19 final size:19
Alignment explanation
Indices: 32554030--32554127 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
32554020 AAATTAAATC
*
32554030 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
32554050 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
32554072 TCTAAGATTGAATATATCATA
1 TCTAAGATT--ACATATCATA
*
32554093 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
32554112 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
32554128 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:32554991 original size:44 final size:44
Alignment explanation
Indices: 32554925--32555300 Score: 500
Period size: 44 Copynumber: 8.7 Consensus size: 44
32554915 GCTATTTTCC
* * *
32554925 ACCTATTCCACTGCT-TCTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCA
*
32554969 ACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * *
32555013 ATCTATTCCACTGCTGCCCAGGGAGAT-GGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGG-ATTCACAATCTTCA
*
32555057 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
32555101 ACCTATTCCACTGCTGTCCAGGGAGATAGAATT--C--T-TT-A
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * * *
32555139 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
32555183 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
32555227 ACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
32555271 ACCTATTCCACTGCTGACCAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
32555301 GCTGGGGTCA
Statistics
Matches: 296, Mismatches: 25, Indels: 22
0.86 0.07 0.06
Matches are distributed among these distances:
38 32 0.11
39 2 0.01
40 2 0.01
42 2 0.01
43 5 0.02
44 249 0.84
45 4 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:32555162 original size:170 final size:170
Alignment explanation
Indices: 32554971--32555299 Score: 536
Period size: 170 Copynumber: 1.9 Consensus size: 170
32554961 GATCTTCAAC
* * *
32554971 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTGCTGCCCAGG
1 CTATTCCACTGCTGACCAGGGAGATAGAATCCT-CAATCTTCAACCTATTCCACTGCTGACCAGG
* *
32555035 GAGAT-GGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTT
65 GAGATAGG-ATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTT
*
32555099 TAACCTATTCCACTGCTGTCCAGGGAGATAGAATTCTTTAAT
129 TAACCTATTCCACTGCTGACCAGGGAGATAGAATTCTTTAAT
* *
32555141 CTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGG
1 CTATTCCACTGCTGACCAGGGAGATAGAATCCTCAATCTTCAACCTATTCCACTGCTGACCAGGG
* *
32555206 AGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTA
66 AGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
32555271 ACCTATTCCACTGCTGACCAGGGAGATAG
131 ACCTATTCCACTGCTGACCAGGGAGATAG
32555300 GGCTGGGGTC
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
170 143 0.97
171 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (170 bp):
CTATTCCACTGCTGACCAGGGAGATAGAATCCTCAATCTTCAACCTATTCCACTGCTGACCAGGG
AGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
ACCTATTCCACTGCTGACCAGGGAGATAGAATTCTTTAAT
Found at i:32555356 original size:88 final size:88
Alignment explanation
Indices: 32555314--32556229 Score: 1364
Period size: 88 Copynumber: 10.4 Consensus size: 88
32555304 GGGGTCATCA
* * *
32555314 ATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* * *
32555379 GGGAGGTAAGGCCGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
* * **
32555402 ATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCTACTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
32555467 GGGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
** * * * *
32555490 ATCTGCTTCATTGTCGATGCAGGAAGGCAAGATATGCTATTTTCAGCCTACTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* * *
32555555 GGGAGGCAAGGTTGATGACTTCT
66 GGGAGGCAAGGCTGGTGACTTCG
* * * * *
32555578 ATTTGCTTTGCTTTCGGTGCAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCGCTGTAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* *
32555643 TGGAGGCAAGGCTGGTGTCTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
* * *
32555666 ATCTGCTTCGCTGTCGGTACAAGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* *
32555731 GGGAGGCAAGGCTGGTGTCTTCA
66 GGGAGGCAAGGCTGGTGACTTCG
* *
32555754 ATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACTCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* *
32555819 GGGAGGCAAGGCTGGTGTCTTTG
66 GGGAGGCAAGGCTGGTGACTTCG
*
32555842 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
32555907 GAGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
*
32555930 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
32555995 GAGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
*
32556018 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
*
32556083 GAGAGGCAAGGCTGGTGACTTCG
66 GGGAGGCAAGGCTGGTGACTTCG
* * * *
32556106 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGTAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
* *
32556171 GGGAGGCAAGGCTGGTGTCTTTG
66 GGGAGGCAAGGCTGGTGACTTCG
* * * * *
32556194 ATCTGTTTCACTGCCAGTACAGGAAGGCAAGATCTG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
32556230 TTATCTTCAC
Statistics
Matches: 753, Mismatches: 75, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 753 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCA
GGGAGGCAAGGCTGGTGACTTCG
Found at i:32562462 original size:21 final size:21
Alignment explanation
Indices: 32562423--32562463 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32562413 TATACTACAA
* *
32562423 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
32562444 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
32562464 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:32562498 original size:16 final size:17
Alignment explanation
Indices: 32562468--32562505 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
32562458 ATATATTTTT
*
32562468 TAAAAAATAATTAAATA
1 TAAAAAAGAATTAAATA
32562485 TAAAAAAGAA-TAAATA
1 TAAAAAAGAATTAAATA
32562501 -AAAAA
1 TAAAAA
32562506 CTAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAAGAATTAAATA
Found at i:32562519 original size:16 final size:15
Alignment explanation
Indices: 32562469--32562524 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
32562459 TATATTTTTT
32562469 AAAAAATAATTAAATA
1 AAAAAATAATT-AATA
* *
32562485 TAAAAAAGAATAAATA
1 -AAAAAATAATTAATA
*
32562501 AAAAACTAATTAATA
1 AAAAAATAATTAATA
32562516 AAAAAATAA
1 AAAAAATAA
32562525 AGAAAATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 20 0.61
16 4 0.12
17 9 0.27
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAAAATAATTAATA
Found at i:32563053 original size:64 final size:64
Alignment explanation
Indices: 32562924--32563053 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 64
32562914 TTTTTTTCTT
* * **
32562924 CAATAAAGGGAGAGGCCTCTATTTATAGCTGAGCCTCCCCAAATCCAACAGTACACTCCTTTTA
1 CAATAAAGGGAGAGACCTCTATTTATAGCTGAGCCTCCCCAAATCCAACAGTACAATCCAATTA
* *
32562988 CAATGAAGGGAGAGACCTCTATTTATAGCTGAGCCTCCCCAAATCCAACGGTACAGAT-CAATTA
1 CAATAAAGGGAGAGACCTCTATTTATAGCTGAGCCTCCCCAAATCCAACAGTACA-ATCCAATTA
32563052 CA
1 CA
32563054 TCAACGGGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 58 0.98
65 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (64 bp):
CAATAAAGGGAGAGACCTCTATTTATAGCTGAGCCTCCCCAAATCCAACAGTACAATCCAATTA
Found at i:32563114 original size:22 final size:21
Alignment explanation
Indices: 32563079--32563174 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
32563069 AAAGGGTATC
* *
32563079 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
32563100 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
32563123 TACATATCATA--TCTAAGAC
1 TACAAATCATATCTCTAAGAT
* *
32563142 TGCATATCATAT-T-TAAGAT
1 TACAAATCATATCTCTAAGAT
* *
32563161 TGCATATCATATCT
1 TACAAATCATATCT
32563175 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
19 34 0.52
20 2 0.03
21 3 0.05
22 15 0.23
23 11 0.17
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:32563122 original size:23 final size:22
Alignment explanation
Indices: 32563079--32563136 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
32563069 AAAGGGTATC
* *
32563079 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
32563100 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
32563123 TACATATCATATCT
1 TACAAATCATATCT
32563137 AAGACTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:32563139 original size:19 final size:19
Alignment explanation
Indices: 32563115--32563187 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
32563105 AATCATATCT
*
32563115 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
32563134 TCTAAGACTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32563153 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
32563172 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
32563188 CTCGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:32576245 original size:10 final size:11
Alignment explanation
Indices: 32576210--32576276 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 11
32576200 TTTATTAGAA
32576210 TATATATTATT
1 TATATATTATT
*
32576221 T-TATATTACT
1 TATATATTATT
*
32576231 AATA-ATTATT
1 TATATATTATT
*
32576241 TATAAATT-TT
1 TATATATTATT
* *
32576251 TACAAATATATT
1 TATATAT-TATT
*
32576263 TTTATATTATT
1 TATATATTATT
32576274 TAT
1 TAT
32576277 TTTTAACATT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 24 0.56
11 13 0.30
12 6 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATATTATT
Found at i:32587813 original size:11 final size:11
Alignment explanation
Indices: 32587797--32587823 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32587787 AAAAACTTCT
32587797 AATATATTTAA
1 AATATATTTAA
32587808 AATATATTTAA
1 AATATATTTAA
32587819 AATAT
1 AATAT
32587824 TTATGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATTTAA
Found at i:32588585 original size:17 final size:17
Alignment explanation
Indices: 32588560--32588601 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
32588550 AAAATGTTAT
32588560 ATATAAAATTTAAATA-A
1 ATATAAAA-TTAAATATA
*
32588577 ATATTAAATTAAATATA
1 ATATAAAATTAAATATA
32588594 ATATAAAA
1 ATATAAAA
32588602 AAATTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAAATTAAATATA
Found at i:32590126 original size:16 final size:16
Alignment explanation
Indices: 32590105--32590138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32590095 TACCTTAGCA
32590105 AAATAATTATATAATT
1 AAATAATTATATAATT
* *
32590121 AAATAATTTTGTAATT
1 AAATAATTATATAATT
32590137 AA
1 AA
32590139 TAGACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATAATTATATAATT
Found at i:32605330 original size:26 final size:26
Alignment explanation
Indices: 32605292--32605347 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
32605282 AAAGCTCTTA
* * *
32605292 TGAGCGTCTCGA-TATATGGCTCTTTG
1 TGAGCGTCCCGATTA-AAGGCTCTTTC
*
32605318 TGAGCTTCCCGATTAAAGGCTCTTTC
1 TGAGCGTCCCGATTAAAGGCTCTTTC
32605344 TGAG
1 TGAG
32605348 TTTCAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTTC
Found at i:32610489 original size:26 final size:26
Alignment explanation
Indices: 32610453--32610505 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32610443 AAGAAGAAAT
32610453 AACTCACTAGAAACTCTAGTACATTG
1 AACTCACTAGAAACTCTAGTACATTG
32610479 AACTCACTAGAAACTCTAGTACATTG
1 AACTCACTAGAAACTCTAGTACATTG
32610505 A
1 A
32610506 TCTATACAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
AACTCACTAGAAACTCTAGTACATTG
Found at i:32613006 original size:19 final size:19
Alignment explanation
Indices: 32612982--32613020 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32612972 TAGTGGAAAA
*
32612982 ATTAGATAATTCTACTAAC
1 ATTAGATAATTCCACTAAC
32613001 ATTAGATAATTCCACTAAC
1 ATTAGATAATTCCACTAAC
32613020 A
1 A
32613021 CCCTTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAGATAATTCCACTAAC
Found at i:32620289 original size:27 final size:27
Alignment explanation
Indices: 32620248--32620301 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
32620238 GTGCAAATAA
*
32620248 CCACAGTCGAGAGGCCCCATTAGTATT
1 CCACAATCGAGAGGCCCCATTAGTATT
* *
32620275 CCACAATCGATAGGCCCCATTGGTATT
1 CCACAATCGAGAGGCCCCATTAGTATT
32620302 TTTTGTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (27 bp):
CCACAATCGAGAGGCCCCATTAGTATT
Found at i:32623757 original size:69 final size:69
Alignment explanation
Indices: 32623641--32623772 Score: 246
Period size: 69 Copynumber: 1.9 Consensus size: 69
32623631 TATAAGTTGA
*
32623641 TAAAATAAATGTTAATGTGAAATGAATGTAAAGTTAACCATTGGTATGGCTATCAAATCTTAGTT
1 TAAAATAAATGTTAATGTGAAATGAATGTAAAGTTAACCATTGGTATGACTATCAAATCTTAGTT
32623706 TTAT
66 TTAT
*
32623710 TAAAGTAAATGTTAATGTGAAATGAATGTAAAGTTAACCATTGGTATGACTATCAAATCTTAG
1 TAAAATAAATGTTAATGTGAAATGAATGTAAAGTTAACCATTGGTATGACTATCAAATCTTAG
32623773 GTTTGGTATG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (69 bp):
TAAAATAAATGTTAATGTGAAATGAATGTAAAGTTAACCATTGGTATGACTATCAAATCTTAGTT
TTAT
Found at i:32623976 original size:14 final size:15
Alignment explanation
Indices: 32623943--32623976 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32623933 GTAATAACGA
*
32623943 AAAAAAATTTATTCG
1 AAAAAAATTAATTCG
*
32623958 AAAAAAATTAATTTG
1 AAAAAAATTAATTCG
32623973 AAAA
1 AAAA
32623977 GCTCCGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAAAAATTAATTCG
Found at i:32624046 original size:18 final size:18
Alignment explanation
Indices: 32624023--32624060 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32624013 ATCCTACCTC
32624023 GTAAATATAGGTAGGGGT
1 GTAAATATAGGTAGGGGT
32624041 GTAAATATAGGTAGGGGT
1 GTAAATATAGGTAGGGGT
32624059 GT
1 GT
32624061 TACAATCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (18 bp):
GTAAATATAGGTAGGGGT
Found at i:32627478 original size:22 final size:23
Alignment explanation
Indices: 32627444--32627496 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
32627434 AAAAGAATGG
*
32627444 AAAA-TAAAGAGAAAAAAAAAGG
1 AAAATTAAAGAGAAAAAAAAAGA
* * *
32627466 AAAGTTAAA-AGAACATAAAAGA
1 AAAATTAAAGAGAAAAAAAAAGA
32627488 AAAATTAAA
1 AAAATTAAA
32627497 TTGCTCAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.13, T:0.11
Consensus pattern (23 bp):
AAAATTAAAGAGAAAAAAAAAGA
Found at i:32631488 original size:20 final size:20
Alignment explanation
Indices: 32631463--32631514 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
32631453 ATATACACAT
32631463 TAAAAATATAAAAAAATTCA
1 TAAAAATATAAAAAAATTCA
* * *
32631483 TAAAAATAT-ATATAATTTA
1 TAAAAATATAAAAAAATTCA
32631502 TAAAACATATAAA
1 TAAAA-ATATAAA
32631515 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.46
20 13 0.50
21 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATATAAAAAAATTCA
Found at i:32631513 original size:16 final size:16
Alignment explanation
Indices: 32631492--32631532 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
32631482 ATAAAAATAT
*
32631492 ATATAATTTATAAAAC
1 ATATAAATTATAAAAC
32631508 ATATAAATTATAAAA-
1 ATATAAATTATAAAAC
*
32631523 ATAAAAATTA
1 ATATAAATTA
32631533 CAATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATTATAAAAC
Found at i:32631973 original size:24 final size:26
Alignment explanation
Indices: 32631937--32632012 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 26
32631927 TATAAAAATA
*
32631937 ATATAAAATTTTT-TAATATTATTTTT
1 ATATAAAATTTTTATAA-AATATTTTT
32631963 ATAT-AAA-TTTTATAAAATATTTTT
1 ATATAAAATTTTTATAAAATATTTTT
* *
32631987 ATATTATTAATTTTTTTAAAAT-TTTT
1 ATA-TA-AAATTTTTATAAAATATTTT
32632013 ATAATAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
24 15 0.36
25 7 0.17
26 4 0.10
27 6 0.14
28 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATAAAATTTTTATAAAATATTTTT
Found at i:32632024 original size:29 final size:28
Alignment explanation
Indices: 32631934--32632024 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 28
32631924 TAATATAAAA
* *
32631934 ATAATATAAAATTTTT-TAATATTATTTTT
1 ATAATAT-TAATTTTTATAA-AATATTTTT
32631963 AT-ATA--AA-TTTTATAAAATATTTTT
1 ATAATATTAATTTTTATAAAATATTTTT
* *
32631987 ATATTATTAATTTTTTTAAAAT-TTTTAT
1 ATAATATTAATTTTTATAAAATATTTT-T
32632015 AATAATATTA
1 -ATAATATTA
32632025 GCAATCTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
24 14 0.27
25 7 0.14
27 6 0.12
28 14 0.27
29 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATAATATTAATTTTTATAAAATATTTTT
Found at i:32633006 original size:15 final size:16
Alignment explanation
Indices: 32632986--32633019 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32632976 CCTTATCAAA
32632986 TTTCAATTAAT-TTAT
1 TTTCAATTAATCTTAT
*
32633001 TTTCAATTTATCTTAT
1 TTTCAATTAATCTTAT
32633017 TTT
1 TTT
32633020 TTAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCAATTAATCTTAT
Found at i:32633119 original size:20 final size:21
Alignment explanation
Indices: 32633079--32633119 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32633069 TATATATACT
*
32633079 TTTCTAATTTTTTTATATTTA
1 TTTCTAATTTTTATATATTTA
*
32633100 TTTCT-ATTTTTATATTTTTA
1 TTTCTAATTTTTATATATTTA
32633120 ATGCGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCTAATTTTTATATATTTA
Found at i:32638682 original size:2 final size:2
Alignment explanation
Indices: 32638677--32638701 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32638667 AATATGAATC
32638677 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
32638702 TCATATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32647171 original size:25 final size:25
Alignment explanation
Indices: 32647133--32647183 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
32647123 ATATTGGACC
*
32647133 TCATGTGCAGCTCACTGTTTAGATT
1 TCATGTGCAACTCACTGTTTAGATT
32647158 TCATGTGCAACTCACTGTTTAGATT
1 TCATGTGCAACTCACTGTTTAGATT
32647183 T
1 T
32647184 ATGCCTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
TCATGTGCAACTCACTGTTTAGATT
Found at i:32654027 original size:26 final size:26
Alignment explanation
Indices: 32653996--32654048 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32653986 GTCGCATGAC
32653996 AAAGCTCATGATATAACGTCGCCAAA
1 AAAGCTCATGATATAACGTCGCCAAA
32654022 AAAGCTCATGATATAACGTCGCCAAA
1 AAAGCTCATGATATAACGTCGCCAAA
32654048 A
1 A
32654049 TCGTTGAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (26 bp):
AAAGCTCATGATATAACGTCGCCAAA
Found at i:32659299 original size:22 final size:23
Alignment explanation
Indices: 32659254--32659300 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
32659244 AAAAAACTTA
*
32659254 TTGTCTTTTTTACTATTTTCTTG
1 TTGTCTTTTTTACTATTATCTTG
*
32659277 TTGT-TTTTTTACTATTATGTTG
1 TTGTCTTTTTTACTATTATCTTG
32659299 TT
1 TT
32659301 ATTGTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (23 bp):
TTGTCTTTTTTACTATTATCTTG
Done.