Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 107 of 185
Found at i:33880757 original size:14 final size:14
Alignment explanation
Indices: 33880740--33880773 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33880730 AAAAAATGAA
33880740 AAAATGTGATCTAC
1 AAAATGTGATCTAC
*
33880754 AAAATGTTATCTAC
1 AAAATGTGATCTAC
33880768 AAAATG
1 AAAATG
33880774 AAAAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (14 bp):
AAAATGTGATCTAC
Found at i:33881155 original size:36 final size:36
Alignment explanation
Indices: 33881062--33881164 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 36
33881052 TGAGCTTCAC
*
33881062 TCAGTATAACAATAGAATTTGCTCGATTGAACATCAT
1 TCAGTATAACAATA-AATTTGCTCGATTGAACACCAT
** *
33881099 TCAGTATAACGGTAAGATTTGCTC-AGTT-AAGACCAT
1 TCAGTATAACAATAA-ATTTGCTCGA-TTGAACACCAT
*
33881135 TCAGTATAACAATATAATTTGCTTGATTGA
1 TCAGTATAACAATA-AATTTGCTCGATTGA
33881165 GCTTTACTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
36 29 0.54
37 25 0.46
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (36 bp):
TCAGTATAACAATAAATTTGCTCGATTGAACACCAT
Found at i:33881192 original size:37 final size:37
Alignment explanation
Indices: 33881051--33881192 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 37
33881041 TTTAACTTAT
*
33881051 TTGAGCTTCACTCAGTATAACAAT-AGAATTTGCTCGA
1 TTGAGCTTCACTCAGTATAACAATAAG-ATTTGCTTGA
* * * ** *
33881088 TTGAACATCATTCAGTATAACGGTAAGATTTGC-TCA
1 TTGAGCTTCACTCAGTATAACAATAAGATTTGCTTGA
* *
33881124 GTTAAGAC--CATTCAGTATAACAATATA-ATTTGCTTGA
1 -TTGAG-CTTCACTCAGTATAACAATA-AGATTTGCTTGA
* **
33881161 TTGAGCTTTACTCAGTATAACGGTAAGATTTG
1 TTGAGCTTCACTCAGTATAACAATAAGATTTG
33881193 GCTCAACAGA
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
35 1 0.01
36 27 0.34
37 49 0.61
38 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (37 bp):
TTGAGCTTCACTCAGTATAACAATAAGATTTGCTTGA
Found at i:33900110 original size:98 final size:98
Alignment explanation
Indices: 33899936--33900132 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
33899926 GTACAATAAA
*
33899936 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
33900001 CCTCTAGAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
*
33900034 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
33900099 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
33900132 A
1 A
33900133 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:33901460 original size:19 final size:19
Alignment explanation
Indices: 33901436--33901548 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
33901426 AATCATATAT
33901436 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
33901455 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
33901474 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33901493 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
33901514 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33901533 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
33901549 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33901523 original size:40 final size:40
Alignment explanation
Indices: 33901436--33901547 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
33901426 AATCATATAT
*
33901436 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
33901474 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
33901514 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
33901548 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:33906042 original size:3 final size:3
Alignment explanation
Indices: 33906034--33906069 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33906024 GTCAAAGTTG
33906034 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33906070 AGATGAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33906580 original size:17 final size:18
Alignment explanation
Indices: 33906541--33906580 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
33906531 AATCTTCAAG
*
33906541 GATATGCAATCTTAAATAA
1 GATATGCAATCTT-AAGAA
33906560 GATATGCAATCTT-AGAA
1 GATATGCAATCTTAAGAA
33906577 GATA
1 GATA
33906581 AGATTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
GATATGCAATCTTAAGAA
Found at i:33907481 original size:24 final size:23
Alignment explanation
Indices: 33907376--33907558 Score: 112
Period size: 24 Copynumber: 7.9 Consensus size: 23
33907366 TATTGTATAT
* *
33907376 TATTATTTTAGATTTATCATGTTT
1 TATTATTTTAAATTTATCATG-TA
* *
33907400 TAGTATTTGT-AATTTATCA-ATA
1 TATTATTT-TAAATTTATCATGTA
*
33907422 TTATTATTTTAAATTCAT--TGTTAA
1 -TATTATTTTAAATTTATCATG-T-A
*
33907446 CATTATTTTAAATTTATCATGTA
1 TATTATTTTAAATTTATCATGTA
33907469 TATCTATTTTAAATTTATCAT-TA
1 TAT-TATTTTAAATTTATCATGTA
* *
33907492 -A-TATTTTTAAATTTATTATATA
1 TATTA-TTTTAAATTTATCATGTA
** *
33907514 CTATTATTTTGGATTTATCACGTA
1 -TATTATTTTAAATTTATCATGTA
*
33907538 TGATTATTCTAGAA-TTATCAT
1 T-ATTATTTTA-AATTTATCAT
33907559 CAAAATTTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 32
0.70 0.11 0.18
Matches are distributed among these distances:
20 2 0.02
21 14 0.11
22 5 0.04
23 35 0.28
24 61 0.50
25 6 0.05
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.55
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATGTA
Found at i:33907684 original size:23 final size:23
Alignment explanation
Indices: 33907657--33907701 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33907647 AATTGTACAT
* *
33907657 TCATATATATTATTTGTTTTAAC
1 TCATAAATATTATTTATTTTAAC
*
33907680 TCATAAATATTGTTTATTTTAA
1 TCATAAATATTATTTATTTTAA
33907702 AATTTTGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (23 bp):
TCATAAATATTATTTATTTTAAC
Found at i:33909213 original size:16 final size:16
Alignment explanation
Indices: 33909189--33909222 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33909179 TGTGTTTTGC
*
33909189 TTTGGCTGCATGACAT
1 TTTGACTGCATGACAT
*
33909205 TTTGACTGCATGGCAT
1 TTTGACTGCATGACAT
33909221 TT
1 TT
33909223 CATCATAGAA
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:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGACAT
Found at i:33914519 original size:268 final size:268
Alignment explanation
Indices: 33914039--33914528 Score: 854
Period size: 268 Copynumber: 1.8 Consensus size: 268
33914029 ACAGATCAGT
* *
33914039 AAAGATATCAGATCTTGTCTTTCTGTACTAGAAGCAAAGTAGATCGAAAATACCAGCCTTATCTC
1 AAAGATAGCAGATCTTATCTTTCTGTACTAGAAGCAAAGTAGATCGAAAATACCAGCCTTATCTC
* * * *
33914104 CCTGAGCAGCAGTGGAGTAAGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAG
66 CCTGAGCAGCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAG
* *
33914169 ATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTG
131 ATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTA
33914234 TCTTCCTGTACTGGCAGCGAAGTAGATAAAAAATAGCAGATCTTGTCTTCCTGTATTGGTAGCGA
196 TCTTCCTGTACTGGCAGCGAAGTAGATAAAAAATAGCAGATCTTGTCTTCCTGTATTGGTAGCGA
33914299 AGTAGATC
261 AGTAGATC
* *
33914307 AAAGATAGCAGATCTTATCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATACCAGCCTTATCTC
1 AAAGATAGCAGATCTTATCTTTCTGTACTAGAAGCAAAGTAGATCGAAAATACCAGCCTTATCTC
* *
33914372 CTTGAGCAGCAGTAGAGTAGGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAG
66 CCTGAGCAGCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAG
*
33914437 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTA
131 ATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTA
*
33914502 TCTTCCTGTATTGGCAGCGAAGTAGAT
196 TCTTCCTGTACTGGCAGCGAAGTAGAT
33914529 CGAAGTCACA
Statistics
Matches: 208, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
268 208 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (268 bp):
AAAGATAGCAGATCTTATCTTTCTGTACTAGAAGCAAAGTAGATCGAAAATACCAGCCTTATCTC
CCTGAGCAGCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAG
ATCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTA
TCTTCCTGTACTGGCAGCGAAGTAGATAAAAAATAGCAGATCTTGTCTTCCTGTATTGGTAGCGA
AGTAGATC
Found at i:33914585 original size:268 final size:266
Alignment explanation
Indices: 33914047--33914626 Score: 801
Period size: 268 Copynumber: 2.2 Consensus size: 266
33914037 GTAAAGATAT
* *
33914047 CAGATCTTGTCTTTCTGTACTAGAAGCAAAGTAGATCGAAAATACCAGCCTTATCTCCCTGAGCA
1 CAGATCTTGTCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATACCAGCCTTATCTCCCTGAGCA
* * * *
33914112 GCAGTGGAGTAAGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGA
66 GCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCGAAGA
* *
33914177 TAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCTG
131 TAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTG
* * * *
33914242 TACTGGCAGCGAAGTAGATAAAAAATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATC
196 TACTGGCAGCGAAGTAGATAAAAAATAGCAGACCTTGTCTCCCTGTA-T-GCAGCGAAGTAGATA
*
33914307 AAAGATAG
259 AAAAATAG
* *
33914315 CAGATCTTATCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATACCAGCCTTATCTCCTTGAGCA
1 CAGATCTTGTCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATACCAGCCTTATCTCCCTGAGCA
*
33914380 GCAGTAGAGTAGGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCGAAGA
66 GCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCGAAGA
*
33914445 TAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTG
131 TAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTG
* ** *
33914510 TATTGGCAGCGAAGTAGAT-CGAAGTCA-CA-AGCCTTGTCTCCCTG-A-GCAGCAGTAGAGTAA
196 TACTGGCAGCGAAGTAGATAAAAAAT-AGCAGA-CCTTGTCTCCCTGTATGCAGC-G-A-AGT-A
*
33914570 GTTAAAAAAATAG
255 GAT-AAAAAATAG
* * ** *
33914583 CAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATCAAAGATA
1 CAGATCTTGTCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATA
33914627 GCAGATCTTG
Statistics
Matches: 277, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
263 4 0.01
264 1 0.00
265 1 0.00
266 5 0.02
267 19 0.07
268 247 0.89
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (266 bp):
CAGATCTTGTCTTTCTGTACTAGCAGCAAAGTAGATCGAAGATACCAGCCTTATCTCCCTGAGCA
GCAGTAGAGTAAGTTGAAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCGAAGA
TAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTG
TACTGGCAGCGAAGTAGATAAAAAATAGCAGACCTTGTCTCCCTGTATGCAGCGAAGTAGATAAA
AAATAG
Found at i:33914725 original size:45 final size:45
Alignment explanation
Indices: 33914040--33914714 Score: 628
Period size: 45 Copynumber: 15.1 Consensus size: 45
33914030 CAGATCAGTA
* * * * *
33914040 AAGATATCAGATCTTGTCTTTCTGTACTAGAAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * * * * * * * *
33914085 AAAATACCAG-CCTTATCTCCCTG-AGC-AGCAGTGGAGTA-AGTTG
1 AAGATAGCAGATCTTGTCTTCCTGTA-CTGGCAGCGAAGTAGA-TCG
* *
33914128 AAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
*
33914173 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
**
33914218 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATAA
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * * *
33914263 AAAATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * * *
33914308 AAGATAGCAGATCTTATCTTTCTGTACTAGCAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * * * *
33914353 AAGATACCAG-CCTTATC-TCC--T--TGAGCAGCAGTAGAGTAGGTTG
1 AAGATAGCAGATCTTGTCTTCCTGTACTG-GCAGC-G-A-AGTAGATCG
* * *
33914396 AAAATAGCAAATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
*
33914441 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* *
33914486 AAGATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * * **
33914531 AAG-TCA-CA-AGCCTTGTCTCCCTG-A---GCAGCAGTAGAGTAAGTTAAA
1 AAGAT-AGCAGA-TCTTGTCTTCCTGTACTGGCAGC-G-A-AGT-AGAT-CG
* * * * *
33914576 AAAATAGCAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * *
33914621 AAGATAGCAGATCTTGTCTTTCTGTATTGGCAACGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
* * *
33914666 AAGATAGCAGATCTTGTCTTCCTGTACTAGTAGCGCAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
33914711 AAGA
1 AAGA
33914715 CGGCAAATCT
Statistics
Matches: 523, Mismatches: 77, Indels: 60
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.00
40 10 0.02
41 2 0.00
42 3 0.01
43 41 0.08
44 49 0.09
45 378 0.72
46 19 0.04
47 7 0.01
48 6 0.01
49 3 0.01
50 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCG
Found at i:33914904 original size:132 final size:132
Alignment explanation
Indices: 33914705--33915256 Score: 768
Period size: 132 Copynumber: 4.2 Consensus size: 132
33914695 GTAGCGCAGT
* * * *
33914705 AGATCGAAGACGGCAAATCTTAT-TTCCCAAGGTAGTAGGGAAGC-GAATTTAATCCACCAATCT
1 AGATCGAAGACAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAG-ATTTAAGCCACCAATCC
* * *
33914768 TATCTCCCTGAGTAGCAGTGGAATAGGTTAAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTAG
65 TATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGG
33914833 AGC
130 AGC
** * * *
33914836 AGATCGAAGATGGTAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCT
1 AGATCGAAGACAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCT
* * * *
33914901 ATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGGA
33914966 GC
131 GC
* * * *
33914968 AGATAGAAGGCAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCATCAGTCCT
1 AGATCGAAGACAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCT
* * * *
33915033 ATTTCCTTGAGCAGCGGTGGAGTAGGTTGAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGGA
33915098 GC
131 GC
**
33915100 AGATCGAAGGTAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCT
1 AGATCGAAGACAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCT
* * * *
33915165 TTCTCCCTGAGCAGCAGTGGAGTAGG-TAGAAGATTGTAGATCCTGTATCCCTAAGCAGTAGTGG
66 ATCTCCCTGAGCAGCAGTGGAGTAGGTTA-AAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGG
33915229 AGC
130 AGC
* * *
33915232 AGATCGAAGGCAGCGAATCTTATCT
1 AGATCGAAGACAGCAAATCCTATCT
33915257 CCTTGGCATT
Statistics
Matches: 378, Mismatches: 40, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
131 22 0.06
132 355 0.94
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
AGATCGAAGACAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCT
ATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAAATCTTGTCTCCCTAAGCAGTAGTGGA
GC
Found at i:33915118 original size:44 final size:44
Alignment explanation
Indices: 33914814--33915258 Score: 188
Period size: 44 Copynumber: 10.1 Consensus size: 44
33914804 GTAAATCTTG
* * ** * *
33914814 TCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* * * * *
33914858 TCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAGCCA-CCAGTCCTA
1 TC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACAGCAAATCCTA
* * * ** * * * *
33914902 TCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCATG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* *
33914946 TCTCCCTAAGCAGTAGTGGAGCAGATAGAAGGCAGCAAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* * * * *
33914990 TCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAGCCATC-AGTCCTA
1 TC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACAGCAAATCCTA
* * * ** * * ** * * *
33915034 TTTCCTTGAGCAGCGGTGGAGTAGGTTGAAGATTGTAAATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* **
33915078 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCAAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* * * * *
33915122 TCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAGCCA-CCAATCCTT
1 TC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACAGCAAATCCTA
* * * * * ** * * *
33915166 TCTCCCTGAGCAGCAGTGGAGTAGGTAGAAGATTGTAGATCCTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
* * * * *
33915210 TATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCAGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
33915254 TCTCC
1 TCTCC
33915259 TTGGCATTAC
Statistics
Matches: 275, Mismatches: 108, Indels: 36
0.66 0.26 0.09
Matches are distributed among these distances:
43 51 0.19
44 160 0.58
45 64 0.23
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAAATCCTA
Found at i:33915402 original size:44 final size:44
Alignment explanation
Indices: 33915337--33915515 Score: 141
Period size: 44 Copynumber: 4.0 Consensus size: 44
33915327 AGATCAAGAC
* * * *
33915337 TGAAGATAACTAACCTTATCTCATTGAAGTTACAGTGGAGTC-GGT
1 TGAAGAT-AC-AATCTTATCTCCTTGAAGTTGCAGTGGAGTCAGAT
* *
33915382 TGAAGATATCAATCTTATCTCCTTAAAGTTGCAGT-GAGACAGAT
1 TGAAGATA-CAATCTTATCTCCTTGAAGTTGCAGTGGAGTCAGAT
* * * *
33915426 TGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGT-AGAC
1 TGAAGATACAA-TCTTATCTCCTTGAAGTTGCAGTGGAGTCAGAT
* * * * *
33915470 TGAGGATGGCGAATCTTGTCTCCCTGAAGTTGTAGTGGAG-CAGAT
1 TGAAGAT-AC-AATCTTATCTCCTTGAAGTTGCAGTGGAGTCAGAT
33915515 T
1 T
33915516 AAAGCCAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.06
44 59 0.54
45 42 0.38
46 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TGAAGATACAATCTTATCTCCTTGAAGTTGCAGTGGAGTCAGAT
Found at i:33916812 original size:24 final size:24
Alignment explanation
Indices: 33916781--33916966 Score: 138
Period size: 24 Copynumber: 8.0 Consensus size: 24
33916771 GTGTATTGTA
*
33916781 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
33916805 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
33916828 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
33916850 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
33916875 TA-TATCTATTTTAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
33916898 TAGTA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
33916920 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
33916944 TATGATTATTCTAGAA-TTATCAT
1 TATTATTATTTTA-AATTTATCAT
33916967 CAAAATTTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
21 14 0.11
22 6 0.05
23 38 0.30
24 65 0.51
25 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:33916831 original size:47 final size:46
Alignment explanation
Indices: 33916780--33916941 Score: 129
Period size: 47 Copynumber: 3.5 Consensus size: 46
33916770 AGTGTATTGT
* *
33916780 ATATTATTATTTTAGATTTATCATGTTTTATTATTTGTAATTTATCA
1 ATATTATTATTTTAAATTTATCATGTTATATTATTT-TAATTTATCA
* *
33916827 ATATTATTATTTTAAATTCAT--TGTTAACATTATTTTAAATTTATC-
1 ATATTATTATTTTAAATTTATCATGTT-ATATTATTTT-AATTTATCA
* * *
33916872 ATGTATATCTATTTTAAATTTATCA--TTAGTATT-TTTAAATTTATTA
1 ATAT-TAT-TATTTTAAATTTATCATGTTA-TATTATTTTAATTTATCA
* **
33916918 TATACTATTATTTTGGATTTATCA
1 -ATATTATTATTTTAAATTTATCA
33916942 CGTATGATTA
Statistics
Matches: 93, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
45 29 0.31
46 25 0.27
47 39 0.42
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.57
Consensus pattern (46 bp):
ATATTATTATTTTAAATTTATCATGTTATATTATTTTAATTTATCA
Found at i:33916859 original size:70 final size:69
Alignment explanation
Indices: 33916779--33916946 Score: 182
Period size: 70 Copynumber: 2.4 Consensus size: 69
33916769 AAGTGTATTG
* * *
33916779 TATATTATTATTTTAGATTTATCATGTTTTAT-TATTTGT-AATTTATCAATATTATTATTTTAA
1 TATACTATTATTTTAGATTTATCATG-TATATCTATTT-TAAATTTATCAATAGTA-T-TTTTAA
*
33916842 ATTCATTG
62 ATTCATTA
* *
33916850 T-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTTAAATTTATCATTAGTATTTTTAAATT
1 TAT-ACTATTATTTTAGATTTATCATGTATATCTATTTTAAATTTATCAATAGTATTTTTAAATT
*
33916913 TATTA
65 CATTA
* *
33916918 TATACTATTATTTTGGATTTATCACGTAT
1 TATACTATTATTTTAGATTTATCATGTAT
33916947 GATTATTCTA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
68 15 0.18
69 27 0.33
70 38 0.46
71 2 0.02
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (69 bp):
TATACTATTATTTTAGATTTATCATGTATATCTATTTTAAATTTATCAATAGTATTTTTAAATTC
ATTA
Found at i:33917092 original size:23 final size:23
Alignment explanation
Indices: 33917065--33917109 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33917055 AATTGTACAT
* *
33917065 TCATATATATTATTTGTTTTAAC
1 TCATATAGATTATTTATTTTAAC
*
33917088 TCATATAGATTGTTTATTTTAA
1 TCATATAGATTATTTATTTTAA
33917110 AATTTTGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (23 bp):
TCATATAGATTATTTATTTTAAC
Found at i:33918507 original size:125 final size:125
Alignment explanation
Indices: 33918168--33918546 Score: 544
Period size: 125 Copynumber: 3.0 Consensus size: 125
33918158 TTAGGGTTAT
* * *
33918168 TAGGTCCTGGAATAAATAATTTTGAGTTAACGTTTTTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTTGAGTTAACGTTTTTGAGCAAATAGTGTAAAATCGCTTCTAGC
* *
33918233 AGGATGCTATTTGAGAAGAATTTATAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *** * * *
33918293 TAGGTCAC-AGAAGAAATAATTATTTTTTTTACGTTTTTGAGAAAATAGTGTAAAATCGCTTGTA
1 TAGGTC-CTGGAAGAAATAATT-TTGAGTTAACGTTTTTGAGCAAATAGTGTAAAATCGCTTCTA
* *
33918357 GCAGGATGCTATTTGAGAAGAATTTGTGATATCGTGCCCTCGTGGACGCGCTTTTGCTACAG
64 GCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
33918419 TAGGTCCTGGAAGAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTGTAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTTGAGTTAACGTTTTTGAGCAAATAGTGTAAAATCGCTTCTAGC
* * * *
33918484 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCGTCGTGGACGTGATTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
33918544 TAG
1 TAG
33918547 CATGTTTGGG
Statistics
Matches: 222, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
125 111 0.50
126 111 0.50
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (125 bp):
TAGGTCCTGGAAGAAATAATTTTGAGTTAACGTTTTTGAGCAAATAGTGTAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:33921738 original size:116 final size:116
Alignment explanation
Indices: 33921574--33921798 Score: 326
Period size: 116 Copynumber: 1.9 Consensus size: 116
33921564 ATTAATTGAT
* * *
33921574 AATTGTATTAATTGTTACTAAAATTATCAAATAGTATAAATTTATTAATTGTTAGTACCAGTCAA
1 AATTGTATTAATGGTTACTAAAACTATCAAATAGTATAAAGTTATTAATTGTTAGTACCAGTCAA
*
33921639 AACATTTTACCAAATCTAACATTATGTGAATGTAAAATTATTAAGTCAAAA
66 AACATTTTACCAAATCTAACATTACGTGAATGTAAAATTATTAAGTCAAAA
* * * *
33921690 AATTGTGTTAATGGTTAGTAAAACTATCAAATTA-TGTAAAGTTCTTAATTGTTAGTACCAGTCA
1 AATTGTATTAATGGTTACTAAAACTATCAAA-TAGTATAAAGTTATTAATTGTTAGTACCAGTCA
* * * *
33921754 AAATATTTTTCCAAATCTAACATTACGTGAATGTAACATTGTTAA
65 AAACATTTTACCAAATCTAACATTACGTGAATGTAAAATTATTAA
33921799 CTTACTTTAG
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 94 0.98
117 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (116 bp):
AATTGTATTAATGGTTACTAAAACTATCAAATAGTATAAAGTTATTAATTGTTAGTACCAGTCAA
AACATTTTACCAAATCTAACATTACGTGAATGTAAAATTATTAAGTCAAAA
Found at i:33921849 original size:23 final size:23
Alignment explanation
Indices: 33921809--33921858 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
33921799 CTTACTTTAG
* *
33921809 GGTTTTTAAATAATTTAGGTTAA
1 GGTTTTGAAATAAATTAGGTTAA
* *
33921832 GGTTTTGAATTAAATTAGGTTAG
1 GGTTTTGAAATAAATTAGGTTAA
33921855 GGTT
1 GGTT
33921859 AGGGTCTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
GGTTTTGAAATAAATTAGGTTAA
Found at i:33921871 original size:29 final size:30
Alignment explanation
Indices: 33921826--33922021 Score: 210
Period size: 29 Copynumber: 6.6 Consensus size: 30
33921816 AAATAATTTA
* *
33921826 GGTTAAGGTTTTGAATTAAATTAGG-TTAG
1 GGTTAGGGTTTTTAATTAAATTAGGATTAG
*
33921855 GGTTAGGGTCTTTAATTAAATTAGGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGATTAG
*
33921885 GGTTTTTAGGGTTTTTAATTAAATTAAG-TTAG
1 GG---TTAGGGTTTTTAATTAAATTAGGATTAG
* * *
33921917 GGTTAGGGTATTTAATT--A--GGGTTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGATTAG
*
33921942 GGTTAGGGTTTTTAATTAAATTGGGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGATTAG
33921972 GGTTTTTAGGGTTTTTAATTAAATTAGG-TTAG
1 GG---TTAGGGTTTTTAATTAAATTAGGATTAG
33922004 GGTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
33922022 GGGTATTTAA
Statistics
Matches: 143, Mismatches: 11, Indels: 26
0.79 0.06 0.14
Matches are distributed among these distances:
25 17 0.12
26 3 0.02
27 2 0.01
29 58 0.41
30 8 0.06
32 12 0.08
33 43 0.30
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (30 bp):
GGTTAGGGTTTTTAATTAAATTAGGATTAG
Found at i:33921905 original size:62 final size:58
Alignment explanation
Indices: 33921826--33922021 Score: 213
Period size: 62 Copynumber: 3.3 Consensus size: 58
33921816 AAATAATTTA
* * *
33921826 GGTTAAGGTTTTGAATTAAATTAGGTTAGGGTTAGGGTCTTTAATTAAATTAGGATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAAATTAGG-TTAG
* *
33921885 GGTTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTATTTAATT--A--GGGTTTA-
1 GG---TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAAATTAGG-TTAG
* *
33921942 GGTTAGGGTTTTTAATTAAATTGGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAGGG---TTAGGGTATTTAATTAAATTAGGTTAG
33922004 GGTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
33922022 GGGTATTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
54 21 0.18
55 6 0.05
57 2 0.02
58 19 0.17
59 2 0.02
60 2 0.02
61 3 0.03
62 60 0.52
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (58 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAAATTAGGTTAG
Found at i:33921917 original size:38 final size:38
Alignment explanation
Indices: 33921868--33922017 Score: 129
Period size: 38 Copynumber: 3.7 Consensus size: 38
33921858 TAGGGTCTTT
33921868 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
1 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
* * * *
33921906 AATTAAGTTAGGGTTAGGGTATTTAATTAGGGTTTAGGTTAGGGTTTTT
1 AATTAAATTAGGATTAGGG--TTT--TTAGGGTTT---TTA----ATTA
*
33921955 AATTAAATTGGGATTAGGGTTTTTAGGGTTTTTAATTA
1 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
** *
33921993 AATTAGGTTAGGGTTAGGGTTTTTA
1 AATTAAATTAGGATTAGGGTTTTTA
33922018 ATTAGGGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
38 40 0.45
40 3 0.03
42 12 0.14
45 12 0.14
47 3 0.03
49 18 0.20
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (38 bp):
AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
Found at i:33921956 original size:87 final size:88
Alignment explanation
Indices: 33921804--33922025 Score: 317
Period size: 87 Copynumber: 2.6 Consensus size: 88
33921794 GTTAACTTAC
* * * ** * *
33921804 TTTAGGGTTTTTAAATAATTTAGGTTAAGGTT-TTGAATTAAATTA-GG-TTAGGGTTAGGGTCT
1 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAGGGTTTAGGGTTAGGGTCT
33921866 TTAATTAAATTAGGATTAGGGTT
66 TTAATTAAATTAGGATTAGGGTT
* *
33921889 TTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTATTTAATTAGGGTTTA-GGTTAGGGTTT
1 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAGGGTTTAGGGTTAGGGTCT
*
33921953 TTAATTAAATTGGGATTAGGGTT
66 TTAATTAAATTAGGATTAGGGTT
*
33921976 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGT
1 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAGGGT
33922026 ATTTAATTAG
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
85 28 0.23
86 9 0.07
87 82 0.67
88 3 0.02
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (88 bp):
TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTATTTAATTAGGGTTTAGGGTTAGGGTCT
TTAATTAAATTAGGATTAGGGTT
Found at i:33922024 original size:13 final size:13
Alignment explanation
Indices: 33922006--33922047 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
33921996 TAGGTTAGGG
33922006 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
33922019 TTAGGGTATTTAA
1 TTAGGGTTTTTAA
33922032 TTA-GGTTTTTGAA
1 TTAGGGTTTTT-AA
33922045 TTA
1 TTA
33922048 ATTTAGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:33922039 original size:87 final size:87
Alignment explanation
Indices: 33921857--33922054 Score: 301
Period size: 87 Copynumber: 2.3 Consensus size: 87
33921847 TAGGTTAGGG
*
33921857 TTAGGGTCTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTA
1 TTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTA
*
33921922 GGGTATTTAATTAGGGTTTAGG
66 GGGTATTTAATTAGGGTTTAGA
* *
33921944 TTAGGGTTTTTAATTAAATTGGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
1 TTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTA
*
33922009 GGGTTTTTAATTAGGGTATTTA-A
66 GGGTATTTAATTAGGG--TTTAGA
*
33922032 TTA-GGTTTTTGAATTAATTTAGG
1 TTAGGGTTTTT-AATTAAATTAGG
33922055 TTACGATTAG
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
87 84 0.83
88 13 0.13
89 4 0.04
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (87 bp):
TTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTA
GGGTATTTAATTAGGGTTTAGA
Found at i:33922069 original size:67 final size:66
Alignment explanation
Indices: 33921994--33922268 Score: 359
Period size: 61 Copynumber: 4.1 Consensus size: 66
33921984 TTTTAATTAA
*
33921994 ATTA-GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTGAATTAATTTAGGTTA
1 ATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGATTTTGAATTAATTTAGGTTA
33922058 CG
66 -G
*
33922060 ATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTATGG-TTTTGAATTAATT
1 ---A---TTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA-GGATTTTGAATTAATT
33922124 TA-G---G
59 TAGGTTAG
*
33922128 -TTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGATTTTGAATTAATTTAGGTTA
1 ATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGATTTTGAATTAATTTAGGTTA
33922192 TG
66 -G
*
33922194 GTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGATTTTGAATTAA-TTAGGTTA
1 ATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGATTTTGAATTAATTTAGGTTA
33922258 GG
66 -G
*
33922260 GTTAGGGTT
1 ATTAGGGTT
33922269 TTTAATTAGG
Statistics
Matches: 191, Mismatches: 3, Indels: 27
0.86 0.01 0.12
Matches are distributed among these distances:
60 2 0.01
61 56 0.29
62 1 0.01
66 19 0.10
67 54 0.28
68 1 0.01
69 1 0.01
72 4 0.02
73 51 0.27
74 2 0.01
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (66 bp):
ATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGATTTTGAATTAATTTAGGTTA
G
Found at i:33922072 original size:6 final size:6
Alignment explanation
Indices: 33922061--33922086 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33922051 TAGGTTACGA
33922061 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
33922087 TTTAATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:33922079 original size:73 final size:73
Alignment explanation
Indices: 33921998--33922170 Score: 258
Period size: 73 Copynumber: 2.4 Consensus size: 73
33921988 AATTAAATTA
33921998 GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA-GGTTTTTGAATTAATTTAGGTTACGAT
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTATGG-TTTTGAATTAATTTAGGTTACGAT
33922062 TAGGGTTAG
65 TAGGGTTAG
* * *
33922071 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTATGGTTTTGAATTAATTTAGGTTAGGGTT
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTATGGTTTTGAATTAATTTAGGTTACGATT
33922136 AGGGTTAG
66 AGGGTTAG
****
33922144 GGTTTTTAATTAGGGTTTTTAATTAGG
1 GG-TTAGGGTTAGGGTTTTTAATTAGG
33922171 ATTTTGAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
73 69 0.76
74 22 0.24
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (73 bp):
GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTATGGTTTTGAATTAATTTAGGTTACGATT
AGGGTTAG
Found at i:33922097 original size:13 final size:13
Alignment explanation
Indices: 33922079--33922181 Score: 72
Period size: 13 Copynumber: 8.2 Consensus size: 13
33922069 AGGGTTAGGG
33922079 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
33922092 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
* *
33922105 TTATGGTTTTGAA
1 TTAGGGTTTTTAA
* *
33922118 TTA----ATTTAGG
1 TTAGGGTTTTTA-A
****
33922128 TTAGGG-TTAGGG
1 TTAGGGTTTTTAA
33922140 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
33922153 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
* *
33922166 TTAGGATTTTGAA
1 TTAGGGTTTTTAA
33922179 TTA
1 TTA
33922182 ATTTAGGTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
9 3 0.04
10 3 0.04
12 7 0.10
13 57 0.81
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:33922165 original size:134 final size:125
Alignment explanation
Indices: 33921977--33922404 Score: 546
Period size: 121 Copynumber: 3.5 Consensus size: 125
33921967 ATTAGGGTTT
* *
33921977 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTT
1 TTAGGATTTTGAATT-AATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTT
33922042 GAATTAATTTAGGTTACGATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAA
65 GAATTAATTTAGGTT--GATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAA
*
33922105 TTATGG-TTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTA
1 TTA-GGATTTTGAATT-A---A--TTA-GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTA
* *
33922169 GGATTTTGAATTAATTTAGGTT-A-T--GGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTATT
58 GGTTTTTGAATTAATTTAGGTTGATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTT
33922230 TAA
123 TAA
*
33922233 TTAGGATTTTGAATTAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTGG
1 TTAGGATTTTGAATTAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTG
* *
33922298 AATTAATTTA-G--G-TTAGGGTTAGAGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAA
66 AATTAATTTAGGTTGATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAA
* *
33922354 TTA--ATTTAG-GTT-A--AGGTTAGGGTTAGGGTTTTTAATTAGGGT-TTTGAATTA
1 TTAGGATTTTGAATTAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTT-AATTA
33922405 ATTTAGGTTA
Statistics
Matches: 275, Mismatches: 12, Indels: 39
0.84 0.04 0.12
Matches are distributed among these distances:
114 3 0.01
115 34 0.12
117 1 0.00
118 2 0.01
119 6 0.02
120 1 0.00
121 92 0.33
122 3 0.01
124 1 0.00
127 3 0.01
128 64 0.23
129 2 0.01
130 1 0.00
131 2 0.01
133 3 0.01
134 57 0.21
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (125 bp):
TTAGGATTTTGAATTAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTG
AATTAATTTAGGTTGATTAGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAA
Found at i:33922221 original size:54 final size:54
Alignment explanation
Indices: 33922092--33922624 Score: 299
Period size: 54 Copynumber: 9.4 Consensus size: 54
33922082 GGGTTTTTAA
* *
33922092 TTAGGGTTTTTAATTATGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
* * * * ** *
33922146 TTTTTAATTAGGGTTTTTAATTAGGATTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
1 ---TT-A--GGGTTTTTAATTAGGGTTTT-GAATTAATTTAGGTTATGGTTAGGGTTAGGG
* * *
33922207 TTAGGGTTTTTAATTAGGGTATTT-AATTAGGATTTTGAATTA--ATTA-GGTTAGGG
1 TTAGGGTTTTTAATTAGGGT-TTTGAATTA--ATTTAG-GTTATGGTTAGGGTTAGGG
* *
33922261 TTAGGGTTTTTAATTAGGGTATTT-AATTAGGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTA
1 TTAGGGTTTTTAATTAGGGT-TTTGAATTA-ATTTAGG--TT-A--T-GGTTA--G---G-GTTA
33922325 GGG
52 GGG
33922328 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTA-----A-GGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
33922376 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
* * * * *
33922430 CTAGGATTTTTAATTAGGGTATTT-AATTAGGTTTTTGAATTAAT--TTA-GGTTAGGG
1 TTAGGGTTTTTAATTAGGGT-TTTGAATTA--ATTTAG-GTT-ATGGTTAGGGTTAGGG
* **** *
33922485 TTAGTG-TTAGGGTTAGGGTTTTGAATTAGGGTTTTAAATTAGGGTT-TAGGTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTG-A--A-----TTAATTTA-GGTTAT-GGTTAGGGTTAGGG
* * ****
33922547 TTAGGGTTTTTAATTAAGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGG-TTAGGG
33922602 TTAGGGTTTTTAATTAGGGTTTT
1 TTAGGGTTTTTAATTAGGGTTTT
33922625 TATTTAGGTT
Statistics
Matches: 372, Mismatches: 52, Indels: 106
0.70 0.10 0.20
Matches are distributed among these distances:
48 46 0.12
49 1 0.00
53 10 0.03
54 96 0.26
55 61 0.16
56 15 0.04
57 9 0.02
58 6 0.02
60 21 0.06
61 34 0.09
62 17 0.05
63 13 0.03
64 2 0.01
66 9 0.02
67 32 0.09
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (54 bp):
TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGG
Found at i:33922225 original size:13 final size:13
Alignment explanation
Indices: 33922207--33922295 Score: 58
Period size: 13 Copynumber: 6.8 Consensus size: 13
33922197 AGGGTTAGGG
33922207 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
33922220 TTAGGGTATTTAA
1 TTAGGGTTTTTAA
*
33922233 TTAGGATTTTGAATTAA
1 TTAGG-GTTT---TTAA
****
33922250 TTA-GG-TTAGGG
1 TTAGGGTTTTTAA
33922261 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
33922274 TTAGGGTATTTAA
1 TTAGGGTTTTTAA
33922287 TTA-GGTTTT
1 TTAGGGTTTT
33922296 GGAATTAATT
Statistics
Matches: 56, Mismatches: 14, Indels: 13
0.67 0.17 0.16
Matches are distributed among these distances:
11 3 0.05
12 7 0.12
13 34 0.61
14 4 0.07
16 1 0.02
17 7 0.12
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:33922420 original size:48 final size:48
Alignment explanation
Indices: 33922274--33922429 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
33922264 GGGTTTTTAA
*
33922274 TTAGGGTATTTAATTA-GGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTT-GAATTAATTTAGGTTA----T-G-GTTAGGG
*
33922328 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAAGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGG
33922376 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGG
33922424 TTAGGG
1 TTAGGG
33922430 CTAGGATTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
48 60 0.61
49 1 0.01
54 31 0.32
55 6 0.06
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (48 bp):
TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGG
Found at i:33922449 original size:67 final size:67
Alignment explanation
Indices: 33922376--33922531 Score: 240
Period size: 67 Copynumber: 2.3 Consensus size: 67
33922366 AAGGTTAGGG
* *
33922376 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAGGGTTAGGGCTAGGATTTTT
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTG
33922441 AA
66 AA
* * * * *
33922443 TTAGGGTATTTAATTAGGTTTTTGAATTAATTTAGGTTAGGGTTAGTGTTAGGGTTAGGGTTTTG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTG
33922508 AA
66 AA
*
33922510 TTAGGGTTTTAAATTAGGGTTT
1 TTAGGGTTTTTAATTAGGGTTT
33922532 AGGTTAGGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 79 1.00
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.47
Consensus pattern (67 bp):
TTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTAGGGCTAGGATTTTG
AA
Found at i:33922488 original size:6 final size:6
Alignment explanation
Indices: 33922477--33922554 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
33922467 AATTAATTTA
* * ** **
33922477 GGTTAG GGTTAG TGTTAG GGTTAG GGTTTTG AATTAG GGTTTTA- AATTAG
1 GGTTAG GGTTAG GGTTAG GGTTAG GG-TTAG GGTTAG GG--TTAG GGTTAG
33922527 GGTTTA- GGTTAG GGTTAG GGTTAG GGTT
1 GG-TTAG GGTTAG GGTTAG GGTTAG GGTT
33922555 TTTAATTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
5 6 0.11
6 39 0.72
7 6 0.11
8 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (6 bp):
GGTTAG
Found at i:33922495 original size:102 final size:103
Alignment explanation
Indices: 33922284--33922596 Score: 258
Period size: 102 Copynumber: 2.9 Consensus size: 103
33922274 TTAGGGTATT
* *
33922284 TAATTA-GGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTAGGGTTAGGGTTTTTAATTAGGGT
1 TAATTAGGGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTAGGGCTAGGATTTTTAATTAGGGT
* **
33922348 TTTGAATTAATTTAGGTTAAGGTTAGGGTTAGGGTTTT
66 TTTGAATTAATTTAGATTAAGGTTAGGGTTAGGGTTAG
* *
33922386 TAATTAGGGTTTT-GAATTAATTTAGGTTATGGTTAGGGTTAGGGCTAGGATTTTTAATTAGGGT
1 TAATTAGGGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTAGGGCTAGGATTTTTAATTAGGGT
* * *
33922450 ATTT-AATTAGGTTTTTGAATTAATTTAGGTTAGGGTTAGTGTTAG
66 -TTTGAATTA--ATTTAG-ATT-A---AGGTTAGGGTTAGGGTTAG
** * * * * *
33922495 -GGTTAGGGTTTTGAATTAGGGTTTTAAATTAGGGTTTA-GGTTAGGGTTAGGGTTAGGGTTTTT
1 TAATTAGGGTTTTGGA--A-----TTAATTTA-GG-TTAGGGTTAGAGTTAGGGCTAGGATTTTT
* * *
33922558 AATTAAGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTT
57 AATTAGGGTTTTGAATTAATTTAGATTAAGGTTAGGGTT
33922597 TTTAATTAGG
Statistics
Matches: 170, Mismatches: 21, Indels: 32
0.76 0.09 0.14
Matches are distributed among these distances:
102 58 0.34
103 9 0.05
104 4 0.02
105 2 0.01
106 1 0.01
108 10 0.06
109 17 0.10
110 10 0.06
111 1 0.01
113 1 0.01
114 2 0.01
115 4 0.02
116 10 0.06
117 38 0.22
118 3 0.02
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (103 bp):
TAATTAGGGTTTTGGAATTAATTTAGGTTAGGGTTAGAGTTAGGGCTAGGATTTTTAATTAGGGT
TTTGAATTAATTTAGATTAAGGTTAGGGTTAGGGTTAG
Found at i:33922515 original size:13 final size:13
Alignment explanation
Indices: 33922497--33922624 Score: 73
Period size: 13 Copynumber: 9.8 Consensus size: 13
33922487 AGTGTTAGGG
33922497 TTAGGGTTTTGAA
1 TTAGGGTTTTGAA
*
33922510 TTAGGGTTTTAAA
1 TTAGGGTTTTGAA
* *
33922523 TTAGGGTTTAG-G
1 TTAGGGTTTTGAA
* **
33922535 TTAGGG-TTAGGG
1 TTAGGGTTTTGAA
*
33922547 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
*
33922560 TTAAGGTTTTGAA
1 TTAGGGTTTTGAA
* * **
33922573 TTAATTTAGG-TTAGGG
1 TT-A---GGGTTTTGAA
*
33922589 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
*
33922602 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
33922615 TTAGGGTTTT
1 TTAGGGTTTT
33922625 TATTTAGGTT
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
11 4 0.04
12 15 0.17
13 61 0.68
14 1 0.01
15 1 0.01
16 5 0.06
17 3 0.03
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:33922539 original size:92 final size:91
Alignment explanation
Indices: 33922454--33922623 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 91
33922444 TAGGGTATTT
* *
33922454 AATTA-GGTTTTTGAATTAA-TTTAG-GTTAGGGTTAGTGTTAGGGTTAGGGTTTTGAATTAGGG
1 AATTAGGGTTTTT-AATTAAGTTTAGAATTA-AGTTAG-GTTAGGGTTAGGGTTTTGAATTAGGG
33922516 TTTTAAATTAGGGTTTAGGTTAGGGTTAG
63 TTTTAAATTAGGGTTTAGGTTAGGGTTAG
** * * *
33922545 GGTTAGGGTTTTTAATTAAGGTTTTGAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAGGGTT
1 AATTAGGGTTTTTAATTAA-GTTTAGAATTAAGTTAGGTTAGGGTTAGGGTTTTGAATTAGGGTT
*
33922610 TTTAATTAGGGTTT
65 TTAAATTAGGGTTT
33922624 TTATTTAGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
91 9 0.13
92 47 0.70
93 8 0.12
94 3 0.04
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (91 bp):
AATTAGGGTTTTTAATTAAGTTTAGAATTAAGTTAGGTTAGGGTTAGGGTTTTGAATTAGGGTTT
TAAATTAGGGTTTAGGTTAGGGTTAG
Found at i:33922634 original size:12 final size:13
Alignment explanation
Indices: 33922589--33922632 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
33922579 TAGGTTAGGG
33922589 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
33922602 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
33922615 TTAGGGTTTTTAT
1 TTAGGGTTTTTAA
33922628 TTAGG
1 TTAGG
33922633 TTAGAGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:33922676 original size:25 final size:25
Alignment explanation
Indices: 33922640--33922752 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 25
33922630 AGGTTAGAGT
33922640 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
33922665 TGTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
33922688 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
33922710 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
33922735 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
33922753 TATTTAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.03
21 11 0.15
22 2 0.03
23 2 0.03
24 11 0.15
25 43 0.61
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:33923188 original size:18 final size:18
Alignment explanation
Indices: 33923154--33923188 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33923144 CGGAAAAGGA
*
33923154 TACATATAAGCGTTAGGG
1 TACATATAAGCGCTAGGG
*
33923172 TACATATAAGGGCTAGG
1 TACATATAAGCGCTAGG
33923189 AAACGCACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
TACATATAAGCGCTAGGG
Found at i:33923851 original size:7 final size:7
Alignment explanation
Indices: 33923841--33923865 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33923831 TTATATACAT
33923841 AATACTA
1 AATACTA
33923848 AATACTA
1 AATACTA
33923855 AATACTA
1 AATACTA
33923862 AATA
1 AATA
33923866 TTAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33925074 original size:11 final size:11
Alignment explanation
Indices: 33925058--33925146 Score: 65
Period size: 11 Copynumber: 7.6 Consensus size: 11
33925048 TAATTTTAGA
33925058 AGGAAATTGAG
1 AGGAAATTGAG
*
33925069 AGGAAATTGAA
1 AGGAAATTGAG
*
33925080 ATGAAATATGAGTTTG
1 AGGAAAT-TGA----G
* *
33925096 AGAGAATTTTAG
1 AG-GAAATTGAG
33925108 AAGGAAATTGAG
1 -AGGAAATTGAG
33925120 A-GAAATTGAG
1 AGGAAATTGAG
33925130 A-GAAATTGAG
1 AGGAAATTGAG
33925140 AGGAAAT
1 AGGAAAT
33925147 ATTAGAGGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
10 20 0.32
11 22 0.35
12 11 0.18
13 2 0.03
16 3 0.05
17 4 0.06
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:33925076 original size:51 final size:51
Alignment explanation
Indices: 33925009--33925128 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
33924999 TTTAAAAACA
* * * *
33925009 GAAATTTAGAGAAAATTGAAATTAAATATG-GATTTGAAATAATTTTAGAAG
1 GAAATTGAGAGGAAATTGAAATGAAATATGAG-TTTGAAAGAATTTTAGAAG
*
33925060 GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAGAGAATTTTAGAAG
1 GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAAG
33925111 GAAATTGAGA-GAAATTGA
1 GAAATTGAGAGGAAATTGA
33925129 GAGAAATTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 8 0.13
51 54 0.86
52 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAAG
Found at i:33925126 original size:10 final size:10
Alignment explanation
Indices: 33925111--33925146 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
33925101 ATTTTAGAAG
33925111 GAAATTGAGA
1 GAAATTGAGA
33925121 GAAATTGAGA
1 GAAATTGAGA
33925131 GAAATTGAGA
1 GAAATTGAGA
33925141 GGAAAT
1 -GAAAT
33925147 ATTAGAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (10 bp):
GAAATTGAGA
Found at i:33926003 original size:19 final size:19
Alignment explanation
Indices: 33925976--33926017 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
33925966 TTCTCTCATC
* *
33925976 GCTGGTTCTTTGTTCCTCT
1 GCTGCTTCTTTGATCCTCT
33925995 GCTGCTTCTTTGATCCTCT
1 GCTGCTTCTTTGATCCTCT
33926014 GCTG
1 GCTG
33926018 GTGCTAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.29, G:0.21, T:0.48
Consensus pattern (19 bp):
GCTGCTTCTTTGATCCTCT
Found at i:33926028 original size:25 final size:25
Alignment explanation
Indices: 33926000--33926141 Score: 181
Period size: 25 Copynumber: 5.9 Consensus size: 25
33925990 CCTCTGCTGC
*
33926000 TTCTTTGATCCTCTGCTGGTGCTAG
1 TTCTTTGTTCCTCTGCTGGTGCTAG
*
33926025 TTCTTTGTTCTTCTGCTGGTGCTAG
1 TTCTTTGTTCCTCTGCTGGTGCTAG
*
33926050 TTCTTTGTTCTTCTGCTGGTGC-AGG
1 TTCTTTGTTCCTCTGCTGGTGCTA-G
33926075 TTCTTTGTTCCTCTGCTGGT--TA-
1 TTCTTTGTTCCTCTGCTGGTGCTAG
*
33926097 ---TTTGTTCCTCTGCTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTAG
*
33926119 TTCTTTCTTCCTCTGCTGGTGCT
1 TTCTTTGTTCCTCTGCTGGTGCT
33926142 TTGTTCCTCT
Statistics
Matches: 104, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
19 17 0.16
21 1 0.01
24 2 0.02
25 84 0.81
ACGTcount: A:0.04, C:0.23, G:0.24, T:0.49
Consensus pattern (25 bp):
TTCTTTGTTCCTCTGCTGGTGCTAG
Found at i:33926100 original size:19 final size:19
Alignment explanation
Indices: 33926073--33926113 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
33926063 TGCTGGTGCA
*
33926073 GGTTCTTTGTTCCTCTGCT
1 GGTTATTTGTTCCTCTGCT
33926092 GGTTATTTGTTCCTCTGCT
1 GGTTATTTGTTCCTCTGCT
33926111 GGT
1 GGT
33926114 GCTGGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.22, G:0.24, T:0.51
Consensus pattern (19 bp):
GGTTATTTGTTCCTCTGCT
Found at i:33926102 original size:44 final size:44
Alignment explanation
Indices: 33925979--33926151 Score: 195
Period size: 44 Copynumber: 3.8 Consensus size: 44
33925969 TCTCATCGCT
* * *
33925979 GGTTCTTTGTTCCTCTGCTGCTTCTTTGATCCTCTGCTGGTGCTA
1 GGTTCTTTGTTCCTCTGCTGGTTATTTGTTCCTCTGCTGGTGC-A
* *
33926024 -GTTCTTTGTTCTTCTGCTGGTGCTAGTTCTTTGTTCTTCTGCTGGTGCA
1 GGTTCTTTGTTCCTCTGCTGGT--TA----TTTGTTCCTCTGCTGGTGCA
*
33926073 GGTTCTTTGTTCCTCTGCTGGTTATTTGTTCCTCTGCTGGTGCT
1 GGTTCTTTGTTCCTCTGCTGGTTATTTGTTCCTCTGCTGGTGCA
* **
33926117 GGTTCTTTCTTCCTCTGCTGGTGCTTTGTTCCTCT
1 GGTTCTTTGTTCCTCTGCTGGTTATTTGTTCCTCT
33926152 TCTCCACTAC
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
44 69 0.63
46 1 0.01
48 2 0.02
49 1 0.01
50 37 0.34
ACGTcount: A:0.03, C:0.24, G:0.23, T:0.50
Consensus pattern (44 bp):
GGTTCTTTGTTCCTCTGCTGGTTATTTGTTCCTCTGCTGGTGCA
Found at i:33926137 original size:19 final size:19
Alignment explanation
Indices: 33926113--33926151 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33926103 CCTCTGCTGG
*
33926113 TGCTGGTTCTTTCTTCCTC
1 TGCTGGTGCTTTCTTCCTC
*
33926132 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTGCTTTCTTCCTC
33926151 T
1 T
33926152 TCTCCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.21, T:0.51
Consensus pattern (19 bp):
TGCTGGTGCTTTCTTCCTC
Found at i:33929388 original size:27 final size:25
Alignment explanation
Indices: 33929358--33929407 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
33929348 TTTATTAATA
*
33929358 ATTTTTTAATTTAATATTCTATAAATT
1 ATTTTATAATTT-ATATTC-ATAAATT
33929385 ATTTTATAATTTATATTCATAAA
1 ATTTTATAATTTATATTCATAAA
33929408 CATAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTATAATTTATATTCATAAATT
Found at i:33929416 original size:27 final size:27
Alignment explanation
Indices: 33929358--33929421 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
33929348 TTTATTAATA
* *
33929358 ATTTTTTAATTTAATATTCTATAAATT
1 ATTTTATAATTTAATATTCTATAAAAT
33929385 ATTTTATAATTT-ATATTC-ATAAACAT
1 ATTTTATAATTTAATATTCTATAAA-AT
*
33929411 AGTTT-TAATTT
1 ATTTTATAATTT
33929422 TGTGACTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 11 0.33
26 11 0.33
27 11 0.33
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTTATAATTTAATATTCTATAAAAT
Found at i:33929419 original size:25 final size:26
Alignment explanation
Indices: 33929361--33929421 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
33929351 ATTAATAATT
* *
33929361 TTTTAATTTAATATTCTATAAATTAT
1 TTTTAATTTAATATTCTATAAAATAG
33929387 TTTATAATTT-ATATTC-ATAAACATAG
1 TTT-TAATTTAATATTCTATAAA-ATAG
33929413 TTTTAATTT
1 TTTTAATTT
33929422 TGTGACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.35
26 14 0.45
27 6 0.19
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAATTTAATATTCTATAAAATAG
Found at i:33930196 original size:19 final size:19
Alignment explanation
Indices: 33930172--33930244 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
33930162 AATCTTCAGG
33930172 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33930191 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
33930210 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33930229 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33930245 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33930270 original size:22 final size:21
Alignment explanation
Indices: 33930172--33930270 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
33930162 AATCTTCAGG
*
33930172 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
33930191 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
33930210 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
33930229 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
33930251 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
33930271 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:33930899 original size:20 final size:20
Alignment explanation
Indices: 33930876--33930924 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33930866 ATGTACGTAT
*
33930876 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
33930896 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
33930916 ATATATAAT
1 ATATATAAT
33930925 CACTATCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:33930936 original size:100 final size:101
Alignment explanation
Indices: 33930813--33931023 Score: 327
Period size: 100 Copynumber: 2.1 Consensus size: 101
33930803 TTTTTAAGTT
* * * * * *
33930813 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
33930878 ATATA-ATACTTTCTATAC-ATATTTTATAATTTCTA
66 ATATATATACTTTCTAT-CTATATTTTATAATTTCTA
33930913 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
33930978 ATATATTATACTTTCTATCTATATTTTATAATTTCTA
66 ATATA-TATACTTTCTATCTATATTTTATAATTTCTA
*
33931015 TATGTATAT
1 TATATATAT
33931024 TTTTCTTTAT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
100 64 0.63
101 1 0.01
102 36 0.36
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (101 bp):
TATATATATAATCACTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
ATATATATACTTTCTATCTATATTTTATAATTTCTA
Found at i:33930962 original size:16 final size:16
Alignment explanation
Indices: 33930941--33930990 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
33930931 CTTTATGATC
*
33930941 TATATATTTATTAACT
1 TATATATATATTAACT
*
33930957 TATATATATATGT-ACG
1 TATATATATAT-TAACT
33930973 TATATATATATTATACT
1 TATATATATATTA-ACT
33930990 T
1 T
33930991 TCTATCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.82
17 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATATATATTAACT
Found at i:33931000 original size:20 final size:20
Alignment explanation
Indices: 33930977--33931015 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33930967 TGTACGTATA
*
33930977 TATATATTATACTTTCTATC
1 TATATATTATAATTTCTATC
*
33930997 TATATTTTATAATTTCTAT
1 TATATATTATAATTTCTAT
33931016 ATGTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATATTATAATTTCTATC
Found at i:33936675 original size:98 final size:98
Alignment explanation
Indices: 33936552--33936746 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
33936542 AAAAATCATG
* *
33936552 AAGGAAATGTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
33936617 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
* * *
33936650 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
33936715 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGT
33936747 TTTATTGTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
Found at i:33937358 original size:17 final size:17
Alignment explanation
Indices: 33937336--33937370 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33937326 AGTGAGAAGC
33937336 TATGCCTTCGTGAGGTT
1 TATGCCTTCGTGAGGTT
33937353 TATGCCTTCGTGAGGTT
1 TATGCCTTCGTGAGGTT
33937370 T
1 T
33937371 TTACCTCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.43
Consensus pattern (17 bp):
TATGCCTTCGTGAGGTT
Found at i:33948421 original size:132 final size:132
Alignment explanation
Indices: 33948184--33949104 Score: 1504
Period size: 132 Copynumber: 7.0 Consensus size: 132
33948174 AGGCAGACTA
* * *
33948184 AAGATT-TCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 AAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT
* *
33948248 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGG
65 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
33948313 TTG
130 TTG
* *
33948316 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
33948381 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33948446 TG
131 TG
* * * *
33948448 AGGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGGACGATGACTCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* * * * *
33948513 CTAAGATAGTTGAAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGAAGCAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33948578 TG
131 TG
* * * *
33948580 AAGATTATAGATCTTAGCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
*
33948645 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33948710 TG
131 TG
*
33948712 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* *
33948777 TCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCTTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33948842 TG
131 TG
*
33948844 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTC
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
33948909 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33948974 TG
131 TG
* * **
33948976 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGAAGCATATCGAAGACGGCAAATCTTATCTTT
1 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
* * * * * *
33949041 CCAAGATAGTAGGAAGCAGATTT-AGCCACCAAGCTTTGTCTCCCTAAGTAGTAGTGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
33949105 CGCATCCAAT
Statistics
Matches: 736, Mismatches: 52, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
131 36 0.05
132 699 0.95
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
TG
Found at i:33953752 original size:44 final size:44
Alignment explanation
Indices: 33953703--33953885 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
33953693 CCCTGGACAA
33953703 TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
1 TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
** * ** * * **
33953747 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT--GTGG
1 TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
* * * *
33953789 TTACAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGAA-CAA
1 -T--AGTGGAATAGATTGAAGATTTCAG--ATCT-TATC-TCCCT-AAGCAG
*
33953835 CAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
1 TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
33953879 TAGTGGA
1 TAGTGGA
33953886 GCAGATCGAA
Statistics
Matches: 101, Mismatches: 22, Indels: 32
0.65 0.14 0.21
Matches are distributed among these distances:
42 5 0.05
43 20 0.20
44 57 0.56
45 16 0.16
46 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
Found at i:33953795 original size:132 final size:132
Alignment explanation
Indices: 33953624--33954513 Score: 1525
Period size: 132 Copynumber: 6.8 Consensus size: 132
33953614 ACAGCGAAGT
* * *
33953624 AGATCGAAGATGGCAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
33953689 ACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
33953754 GC
131 GC
*
33953756 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
33953821 ACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
33953886 GC
131 GC
* *
33953888 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGACTACATTGAAGCTAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
33953953 ACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAATAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
33954018 GC
131 GC
*
33954020 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
33954085 ACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
*
33954150 GT
131 GC
* *
33954152 AGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
33954217 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
33954282 GC
131 GC
* * *
33954284 AGATCGAAGATGACAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
33954349 ACTTCCCTTGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
33954414 GC
131 GC
33954416 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TC-
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* ** *
33954479 A-TCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
66 ACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
33954514 GTAAGTCCTA
Statistics
Matches: 721, Mismatches: 36, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
129 1 0.00
130 27 0.04
131 2 0.00
132 691 0.96
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:33954047 original size:44 final size:44
Alignment explanation
Indices: 33953735--33954048 Score: 109
Period size: 44 Copynumber: 7.1 Consensus size: 44
33953725 CAGATCTTAT
** *
33953735 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
** ** * * * *** ** *
33953779 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAG-TAATTCTAC
1 CTCCCT-AAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
* ** * ** * * *
33953823 TTCCCTGAA-CAACAGTGGAATAGATTGAAGATTTCAGATCTTAT
1 CTCCCT-AAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
**
33953867 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
** ** * * * * ** *
33953911 CTCCCTGTGGTTACAGTGGA-CTACATTGAAGCTAG-TAATTCTAC
1 CTCCCT-AAGCAACAGTGGAGC-AGATCGAAGATGGCGGATTTTAC
* ** * ** * *
33953955 TTCCCT-AGACAACAGTGGAATAGATTGAAGATTTCAGG-TCTTAT
1 CTCCCTAAG-CAACAGTGGAGCAGATCGAAGATGGC-GGATTTTAC
*
33953999 CTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
33954043 CTCCCT
1 CTCCCT
33954049 GTGGTTACAG
Statistics
Matches: 181, Mismatches: 78, Indels: 22
0.64 0.28 0.08
Matches are distributed among these distances:
42 1 0.01
43 38 0.21
44 108 0.60
45 34 0.19
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
CTCCCTAAGCAACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
Found at i:33954179 original size:44 final size:45
Alignment explanation
Indices: 33954100--33954312 Score: 116
Period size: 44 Copynumber: 4.8 Consensus size: 45
33954090 CTTGGACAAC
* * ** * *
33954100 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGT
1 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTAAGACAGT
* ** **
33954144 AGTGGAGTAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCT-AAGACAGT
* * * * * * **
33954189 AGTGGAGTACATTG-A-A-GCCAGTAATTCTACTTCCCT-GGACAAC
1 AGTGGAGTAGATCGAAGATGACAG--ATTTTACCTCCCTAAGACAGT
* * ** * *
33954232 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGT
1 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTAAGACAGT
*
33954276 AGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCT
1 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCT
33954313 GTGGTTATAG
Statistics
Matches: 123, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
42 6 0.05
43 13 0.11
44 84 0.68
45 16 0.13
46 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTAAGACAGT
Found at i:33954864 original size:19 final size:19
Alignment explanation
Indices: 33954840--33954950 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
33954830 AATCTTCAGG
33954840 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33954859 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
33954878 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33954897 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
33954916 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33954935 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33954951 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33954890 original size:38 final size:38
Alignment explanation
Indices: 33954847--33954950 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
33954837 AGGGATATGC
33954847 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
33954885 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
33954923 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
33954951 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:33955602 original size:20 final size:20
Alignment explanation
Indices: 33955579--33955736 Score: 81
Period size: 20 Copynumber: 7.6 Consensus size: 20
33955569 TATATGTACG
33955579 TATATATATATTATACTTTC
1 TATATATATATTATACTTTC
* * *
33955599 TATACATATTTTATAATTTC
1 TATATATATATTATACTTTC
*
33955619 TATATATATATGTAATCATTTTC
1 TATATATATAT-T-AT-ACTTTC
*
33955642 TTTATGATCTATATATT-TA-TTAAC
1 --TAT-A--TATATATTATACTT-TC
* * *
33955666 T-TATATATATATGTAC-GTA
1 TATATATATAT-TATACTTTC
33955685 TATATATATATTATACTTTC
1 TATATATATATTATACTTTC
** * *
33955705 TATCCATATTTTATAATTTC
1 TATATATATATTATACTTTC
*
33955725 TATATGTATATT
1 TATATATATATT
33955737 TTTCTTTATT
Statistics
Matches: 103, Mismatches: 21, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
18 7 0.07
19 6 0.06
20 63 0.61
21 2 0.02
22 3 0.03
23 7 0.07
24 2 0.02
25 4 0.04
26 1 0.01
27 1 0.01
28 7 0.07
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATATATATTATACTTTC
Found at i:33955705 original size:106 final size:101
Alignment explanation
Indices: 33955522--33955735 Score: 322
Period size: 106 Copynumber: 2.1 Consensus size: 101
33955512 TTTTTAAGTT
* *
33955522 TATATATGTAATTATTATTTTTATGATTTATATATTATTACCTTATATATATGTACGTATATATA
1 TATATATGTAATCATTATTTTTATGATCTATATATTATTACCTTATATATATGTACGTATATATA
33955587 TATTATACTTTCTATACATATTTTATAATTTCTATA
66 TATTATACTTTCTATACATATTTTATAATTTCTATA
*
33955623 TATATATGTAATCATT-TTCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATA
1 TATATATGTAATCATTATT-TTTATGATCTATATA-TTATT-ACCT-TATATATATGTACG--TA
*
33955687 TATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
60 TATATATATTATACTTTCTATACATATTTTATAATTTCTATA
*
33955729 TGTATAT
1 TATATAT
33955736 TTTTCTTTAT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
100 2 0.02
101 29 0.28
102 5 0.05
103 3 0.03
104 14 0.14
106 49 0.48
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (101 bp):
TATATATGTAATCATTATTTTTATGATCTATATATTATTACCTTATATATATGTACGTATATATA
TATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:33955785 original size:18 final size:19
Alignment explanation
Indices: 33955762--33955799 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33955752 GAATGTATTA
33955762 TATATAAA-TATATATTTT
1 TATATAAATTATATATTTT
*
33955780 TATATAAATTTTATATTTT
1 TATATAAATTATATATTTT
33955799 T
1 T
33955800 TTCCATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATAAATTATATATTTT
Found at i:33959230 original size:20 final size:21
Alignment explanation
Indices: 33959207--33959257 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
33959197 AATGTTTTCT
33959207 TTATACA-ACTTTGTCTAAGC
1 TTATACAGACTTTGTCTAAGC
33959227 TTATACATGTGACTTTGTCTAAGC
1 TTATACA---GACTTTGTCTAAGC
33959251 TTATACA
1 TTATACA
33959258 TGTGATTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
24 20 0.74
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
TTATACAGACTTTGTCTAAGC
Found at i:33959246 original size:24 final size:24
Alignment explanation
Indices: 33959214--33959262 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33959204 TCTTTATACA
33959214 ACTTTGTCTAAGCTTATACATGTG
1 ACTTTGTCTAAGCTTATACATGTG
33959238 ACTTTGTCTAAGCTTATACATGTG
1 ACTTTGTCTAAGCTTATACATGTG
33959262 A
1 A
33959263 TTGTGAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (24 bp):
ACTTTGTCTAAGCTTATACATGTG
Found at i:33961853 original size:22 final size:22
Alignment explanation
Indices: 33961818--33961860 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
33961808 TAGAAAAATT
33961818 ATTTTTTTAATAAAATATTTATG
1 ATTTTTTTAATAAAAT-TTTATG
*
33961841 ATTTTTTT-TTAAAATTTTAT
1 ATTTTTTTAATAAAATTTTAT
33961861 CAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAAAATTTTATG
Found at i:33962022 original size:14 final size:13
Alignment explanation
Indices: 33962001--33962027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33961991 TTAGCATTAT
33962001 TTTTAAAAAGTGC
1 TTTTAAAAAGTGC
33962014 TTTTAAAAAGTGC
1 TTTTAAAAAGTGC
33962027 T
1 T
33962028 GTGAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTAAAAAGTGC
Found at i:33963346 original size:29 final size:27
Alignment explanation
Indices: 33963314--33963375 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
33963304 TTACTTATAG
*
33963314 TATTTAATTTCAATAATGT-TTAAATTTAT
1 TATTTAATTT-AA-AATGTAATAAA-TTAT
*
33963343 TATTATAGTTTAAAATGTAATAAATTAT
1 TATT-TAATTTAAAATGTAATAAATTAT
33963371 TATTT
1 TATTT
33963376 TTCCGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 13 0.45
29 10 0.34
30 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTTAATTTAAAATGTAATAAATTAT
Found at i:33970732 original size:129 final size:129
Alignment explanation
Indices: 33970497--33970773 Score: 455
Period size: 129 Copynumber: 2.1 Consensus size: 129
33970487 TCGGTGAAGT
*
33970497 CACATGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
1 CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
* *
33970562 GCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* * *
33970626 CACAAGTCCTATATCCTTGGTCATCAGTGGAATAGGTTGGGAAATTATAGATCTTGTCTCCCTAA
1 CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
* * *
33970691 GTAGTAGCGGGGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
66 GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
* *
33970755 CACAAATCCTATCTCCCTG
1 CACAAGTCCTATATCCCTG
33970774 AAGTTGTAGT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 136 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (129 bp):
CACAAGTCCTATATCCCTGGTCATCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCCTAA
GCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
Found at i:33970821 original size:44 final size:44
Alignment explanation
Indices: 33970758--33971257 Score: 368
Period size: 44 Copynumber: 11.6 Consensus size: 44
33970748 TTTAAGCCAC
* * *
33970758 AAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* * * * *
33970802 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGCATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* * * * *
33970843 AAATCTTATCTTCCTGAGGTTGCAGTGGAGCAGATTGAAGGCGAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAGCAAT
* * *
33970888 -AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* * * ** *
33970931 AGATCTTATCTCTCTGAAGTTGCAGTAGATTGGA-T--AGCATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* *
33970972 AAATCTTATCTCCCTG-AGATTGCAGTGGAGCAGATTGAAAGCGAT
1 AAATCTTATCTCCCTGAAG-TTGCAGTGGAGCGGATT-AAAGCAAT
* ** *
33971017 -AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* ** * * * *
33971060 AGATCTTATCTTTCTGAAGTTGCAGTAGAGTGGA-T--CGCATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* * *
33971101 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG-CAAT
* * * * * *
33971146 -AATCCTATCTCCCTGAAGTTGTAGTTGAGTGAATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* * * * * *
33971189 AGATTTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGC-AT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
* *
33971229 CAAGTCTTATCTCCCTGAAGTTACAGTGG
1 -AAATCTTATCTCCCTGAAGTTGCAGTGG
33971258 GGCAGACTGA
Statistics
Matches: 348, Mismatches: 90, Indels: 39
0.73 0.19 0.08
Matches are distributed among these distances:
40 4 0.01
41 113 0.32
42 3 0.01
43 18 0.05
44 198 0.57
45 12 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAT
Found at i:33970838 original size:129 final size:128
Alignment explanation
Indices: 33970742--33971263 Score: 767
Period size: 129 Copynumber: 4.0 Consensus size: 128
33970732 AGTGTAAGGA
* *
33970742 AGCAGATTTAAGCCACAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAAATC
1 AGCAGATTGAAGCCA-AAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
33970807 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAAATCTTATCTTCCTGAGGTTGCAGTGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* *
33970871 AGCAGATTGAAGGCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAA-GCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * * *
33970936 TTATCTCTCTGAAGTTGCAGTAGATTGGATAGCATTAAATCTTATCTCCCTGAGATTGCAGTGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* * * **
33971000 AGCAGATTGAAAGCGATAATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGTAATAGATC
1 AGCAGATTG-AAGCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
33971065 TTATCTTTCTGAAGTTGCAGTAGAGTGGATCGCATTAAATCTTATCTCCCTGAGGTTGCAGTGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
* * * *
33971129 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTTGAGTGAATTAAAGTAATAGATT
1 AGCAGATTGAAGCCAA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * *
33971194 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TCAAGTCTTATCTCCCTGAAGTTACAGTGG
65 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACT-AAATCTTATCTCCCTGAGGTTGCAGTGG
*
33971258 GGCAGA
1 AGCAGA
33971264 CTGAGAATAG
Statistics
Matches: 361, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
128 6 0.02
129 350 0.97
130 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (128 bp):
AGCAGATTGAAGCCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCT
TATCTCTCTGAAGTTGCAGTAGAGTGGATCGCACTAAATCTTATCTCCCTGAGGTTGCAGTGG
Found at i:33970859 original size:85 final size:85
Alignment explanation
Indices: 33970758--33971176 Score: 350
Period size: 85 Copynumber: 4.9 Consensus size: 85
33970748 TTTAAGCCAC
* * * * *
33970758 AAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTATCTCTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTT
*
33970823 GCAGTAGAGTGGATCGCATT
66 GCAGTAGAGTGGATAGCATT
* * * * *
33970843 AAATCTTATCTTCCTGAGGTTGCAGTGGAGCAGATTGAAGGCGAT-AATCCTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCAATAAATCTTATCTCCCTGAAGT
* * * * *
33970907 TGTAGTGGAGCGGATTAAAGTAAT
65 TGCAGTAGAGTGGA-T--AGCATT
* * * *** *
33970931 AGATCTTATCTCTCTGAAGTTGCAGTAGATTGGA-T--AGCATTAAATCTTATCTCCCTG-AGAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAG-T
* *
33970992 TGCAGTGGAGCAGATTGAAAGCGA-T
65 TGCAGT--AG-AG-TGGATAGC-ATT
* * * * **
33971017 -AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGTAATAGATCTTATCTTTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTT
*
33971081 GCAGTAGAGTGGATCGCATT
66 GCAGTAGAGTGGATAGCATT
* * *
33971101 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAAT-AATCCTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAAATCTTATCTCCCTGAAGT
* *
33971165 TGTAGTTGAGTG
65 TGCAGTAGAGTG
33971177 AATTAAAGTA
Statistics
Matches: 255, Mismatches: 61, Indels: 36
0.72 0.17 0.10
Matches are distributed among these distances:
83 1 0.00
84 11 0.04
85 166 0.65
86 15 0.06
87 3 0.01
88 55 0.22
89 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (85 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAATCTTATCTCCCTGAAGTT
GCAGTAGAGTGGATAGCATT
Found at i:33971377 original size:50 final size:50
Alignment explanation
Indices: 33971312--33971488 Score: 192
Period size: 50 Copynumber: 3.5 Consensus size: 50
33971302 GAACAGCTTG
* * *
33971312 AAGCTACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
* * * ** * ** *
33971362 AAGCCATAACAGCGAATCTTACTTCCCTGGCGGTGCAATGGAACAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
* * * * *
33971412 AAGCTACAACGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTA
1 AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
*
33971462 AAGCCACAACTGCGAATCTTACTTCCC
1 AAGCCACAACAGCGAATCTTACTTCCC
33971489 TTGCTGTGCA
Statistics
Matches: 97, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (50 bp):
AAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTA
Found at i:33971451 original size:100 final size:100
Alignment explanation
Indices: 33971278--33971549 Score: 357
Period size: 100 Copynumber: 2.7 Consensus size: 100
33971268 GAATAGCAAT
* * * * * * * *
33971278 TCTTACCTCCCAGGCGGTACAGTGGAACAGCTTGAAGCTACAACAGCGAATCTTGCTTCCCCGAC
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
*
33971343 ATTACAGTTAAAAAGATTAAAGCCATAACAGCGAA
66 ATTACAGTTAAAAAGATTAAAGCCACAACAGCGAA
*
33971378 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCAAC
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
* *
33971443 ATTGCAGTTAAAAAGATTAAAGCCACAACTGCGAA
66 ATTACAGTTAAAAAGATTAAAGCCACAACAGCGAA
* * * * * *
33971478 TCTTACTTCCCTTGCTGTGCAATGAAATAGATTAAAGCTACGAA-GGCAAATCTTGTTTCCCCAA
1 TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTAC-AACGGCGAATCTTGCTTCCCCAA
*
33971542 CACTACAG
65 CATTACAG
33971550 CAAAACAGAA
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 148 0.99
101 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (100 bp):
TCTTACTTCCCTGGCGGTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCAAC
ATTACAGTTAAAAAGATTAAAGCCACAACAGCGAA
Found at i:33971510 original size:50 final size:50
Alignment explanation
Indices: 33971352--33971515 Score: 168
Period size: 50 Copynumber: 3.3 Consensus size: 50
33971342 CATTACAGTT
* * *
33971352 AAAAAGATTAAAGCCATAACAGCGAATCTTACTTCCCTGGCGGTGCAATG
1 AAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCTAGCTGTGCAATG
* * * * * * * * * *
33971402 GAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCAACAT-TGCAGTT
1 AAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCTAGC-TGTGCAATG
* *
33971452 AAAAAGATTAAAGCCACAACTGCGAATCTTACTTCCCTTGCTGTGCAATG
1 AAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCTAGCTGTGCAATG
*
33971502 AAATAGATTAAAGC
1 AAAAAGATTAAAGC
33971516 TACGAAGGCA
Statistics
Matches: 87, Mismatches: 25, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
49 1 0.01
50 86 0.99
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (50 bp):
AAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCTAGCTGTGCAATG
Found at i:33973153 original size:29 final size:27
Alignment explanation
Indices: 33973121--33973182 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
33973111 TTACTTATAG
*
33973121 TATTTAATTTCAATAATGT-TTAAATTTAT
1 TATTTAATTT-AA-AATGTAATAAA-TTAT
*
33973150 TATTATAGTTTAAAATGTAATAAATTAT
1 TATT-TAATTTAAAATGTAATAAATTAT
33973178 TATTT
1 TATTT
33973183 TAGTCCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 13 0.45
29 10 0.34
30 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTTAATTTAAAATGTAATAAATTAT
Found at i:33978508 original size:27 final size:28
Alignment explanation
Indices: 33978478--33978537 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
33978468 CAAGGGATAA
*
33978478 TCTTTCATAATTCACCAC-GAGGCTTAT
1 TCTTTCATAATTCACCACAAAGGCTTAT
*
33978505 TCTTTCATAGTTCACCACAAAGGCTTAT
1 TCTTTCATAATTCACCACAAAGGCTTAT
33978533 TCTTT
1 TCTTT
33978538 TCTAACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (28 bp):
TCTTTCATAATTCACCACAAAGGCTTAT
Found at i:33979299 original size:49 final size:49
Alignment explanation
Indices: 33979223--33979319 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
33979213 TTATGCTATG
* *
33979223 CATTTCTAAACTTGGTCGTCCATTGTCTACACTCTTATCACTATTTATA
1 CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTATA
*
33979272 CATTTCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTAT
33979320 CCCTTCTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (49 bp):
CATTTCTAAACTTAGTCGTCCACTGTCTACACTCTTATCACTATTTATA
Found at i:33983994 original size:29 final size:29
Alignment explanation
Indices: 33983931--33983998 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
33983921 TAATCAACCG
33983931 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33983960 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33983989 CGCACACTTA
1 CGCACACTTA
33983999 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33984111 original size:174 final size:174
Alignment explanation
Indices: 33983820--33984147 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
33983810 AACTCAAGGT
* *
33983820 ACTTACCTTTTCCGCTGTCCAAAATTGACTCAGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCAGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
33983885 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
33983950 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
33983994 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCAGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
33984059 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
33984124 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
33984148 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCAGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:33984139 original size:29 final size:30
Alignment explanation
Indices: 33984100--33984178 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33984090 CTTAATAATC
33984100 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33984130 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33984159 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33984179 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33986619 original size:26 final size:25
Alignment explanation
Indices: 33986589--33986650 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
33986579 TAATAAAACA
33986589 TAAATAGTAAT-AATTATATTATAAAT
1 TAAATA-TAATAAATT-TATTATAAAT
33986615 TAAATATGAATAAATTTATTATAAAT
1 TAAATAT-AATAAATTTATTATAAAT
33986641 T--ATATAATAA
1 TAAATATAATAA
33986651 TGGAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 1 0.03
26 20 0.59
27 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
TAAATATAATAAATTTATTATAAAT
Found at i:33988016 original size:56 final size:54
Alignment explanation
Indices: 33987882--33988025 Score: 162
Period size: 56 Copynumber: 2.6 Consensus size: 54
33987872 GCGATATATG
* * ** * *
33987882 AATGTATGTAAGACCATGACCTTAAGATCCATGGAAAGATCGATATAATTGAACG
1 AATGCATGTAAGACCATAAGGTTAAGACCCAT-GAAAGATCGATATAATTGAACA
* *
33987937 AATGCATGTAAGACCATAAGGTTAAGACCCATGACAAGATCTGATATTATTGAATA
1 AATGCATGTAAGACCATAAGGTTAAGACCCATGA-AAGATC-GATATAATTGAACA
* * *
33987993 AATGTATGTAAGACTATATGGTTAAGACCCATG
1 AATGCATGTAAGACCATAAGGTTAAGACCCATG
33988026 GCATTATATG
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
54 2 0.03
55 33 0.43
56 41 0.54
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (54 bp):
AATGCATGTAAGACCATAAGGTTAAGACCCATGAAAGATCGATATAATTGAACA
Found at i:33988050 original size:56 final size:56
Alignment explanation
Indices: 33987882--33988053 Score: 143
Period size: 56 Copynumber: 3.1 Consensus size: 56
33987872 GCGATATATG
* ** * * * * **
33987882 AATGTATGTAAGACCATGACCTTAAGATCCATGGA-AAGAT-CGATATAATTGAACG
1 AATGTATGTAAGACCATAAGGTTAAGACCCAT-GACAAGATATGAAATTATTGAATA
* * *
33987937 AATGCATGTAAGACCATAAGGTTAAGACCCATGACAAGATCTGATATTATTGAATA
1 AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAATTATTGAATA
* * * ** *
33987993 AATGTATGTAAGACTATATGGTTAAGACCCATGGCATTATATGAAATGT-TTGTATA
1 AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAAT-TATTGAATA
33988049 AATGT
1 AATGT
33988054 TCATTGCGTA
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 2 0.02
55 32 0.33
56 61 0.64
57 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (56 bp):
AATGTATGTAAGACCATAAGGTTAAGACCCATGACAAGATATGAAATTATTGAATA
Found at i:33990783 original size:26 final size:26
Alignment explanation
Indices: 33990747--33990799 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33990737 TAGACTCAAT
33990747 AATGTTCGTTTTAGATTTTGTTTTTA
1 AATGTTCGTTTTAGATTTTGTTTTTA
33990773 AATGTTCGTTTTAGATTTTGTTTTTA
1 AATGTTCGTTTTAGATTTTGTTTTTA
33990799 A
1 A
33990800 CTTGGAATAT
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:0.21, C:0.04, G:0.15, T:0.60
Consensus pattern (26 bp):
AATGTTCGTTTTAGATTTTGTTTTTA
Found at i:33990797 original size:13 final size:13
Alignment explanation
Indices: 33990755--33990798 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
33990745 ATAATGTTCG
33990755 TTTTAGATTTTGT
1 TTTTAGATTTTGT
* *
33990768 TTTTAAATGTTCG-
1 TTTTAGAT-TTTGT
33990781 TTTTAGATTTTGT
1 TTTTAGATTTTGT
33990794 TTTTA
1 TTTTA
33990799 ACTTGGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTGT
Found at i:33991808 original size:3 final size:3
Alignment explanation
Indices: 33991800--33991827 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33991790 TTAACTTTTA
33991800 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
33991828 AATGTGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:33992154 original size:19 final size:20
Alignment explanation
Indices: 33992129--33992173 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
33992119 AATTATAAAA
33992129 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* *
33992149 -ATAAAAATCATTAAACTTT
1 AATAAAAATCAATAAAATTT
33992168 AATAAA
1 AATAAA
33992174 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:33992186 original size:13 final size:13
Alignment explanation
Indices: 33992168--33992194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33992158 ATTAAACTTT
33992168 AATAAATATTTAA
1 AATAAATATTTAA
33992181 AATAAATATTTAA
1 AATAAATATTTAA
33992194 A
1 A
33992195 TTTTACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATATTTAA
Found at i:33992447 original size:9 final size:9
Alignment explanation
Indices: 33992433--33992654 Score: 58
Period size: 9 Copynumber: 23.2 Consensus size: 9
33992423 GGCATGATAA
33992433 TTATAATTT
1 TTATAATTT
33992442 TTATAATTCTT
1 TTATAA-T-TT
33992453 TTATGAA-TT
1 TTAT-AATTT
*
33992462 TTATATTTCT
1 TTATAATT-T
* *
33992472 TTACATTTT
1 TTATAATTT
*
33992481 TTATCATTTT
1 TTAT-AATTT
* *
33992491 CTTATGA-CT
1 -TTATAATTT
*
33992500 TTATAAAATT
1 TTAT-AATTT
33992510 TTATATATTT
1 TTATA-ATTT
* *
33992520 TCTCT-ATAT
1 T-TATAATTT
33992529 TTATAATTT
1 TTATAATTT
**
33992538 TTAGGATTT
1 TTATAATTT
33992547 TTATAATCTTTT
1 TTATAA---TTT
*
33992559 TTCTAATTT
1 TTATAATTT
***
33992568 TTAATAAAAA
1 TT-ATAATTT
*
33992578 TTAAATATTT
1 TTATA-ATTT
*
33992588 CTTATATTTT
1 -TTATAATTT
*
33992598 TTATTAAAATT
1 TTA-T-AATTT
*
33992609 TAATAATTT
1 TTATAATTT
33992618 TTATAATTT
1 TTATAATTT
*
33992627 TTATTGATTT
1 TTA-TAATTT
33992637 TTAT--TTT
1 TTATAATTT
*
33992644 TTATCATTT
1 TTATAATTT
33992653 TT
1 TT
33992655 TGTCACATGT
Statistics
Matches: 156, Mismatches: 34, Indels: 46
0.66 0.14 0.19
Matches are distributed among these distances:
7 7 0.04
8 7 0.04
9 69 0.44
10 42 0.27
11 21 0.13
12 10 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:33992512 original size:29 final size:29
Alignment explanation
Indices: 33992479--33992534 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
33992469 TCTTTACATT
33992479 TTTTAT-CATTTTCT-TATGACTTTATAAAA
1 TTTTATACATTTTCTCTAT-A-TTTATAAAA
*
33992508 TTTTATATATTTTCTCTATATTTATAA
1 TTTTATACATTTTCTCTATATTTATAA
33992535 TTTTTAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 13 0.54
30 8 0.33
31 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTATACATTTTCTCTATATTTATAAAA
Found at i:33992599 original size:30 final size:30
Alignment explanation
Indices: 33992556--33992629 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
33992546 TTTATAATCT
*
33992556 TTTTTCTAATTTTTAATAAAAATTAAAT-A
1 TTTTTATAATTTTTAATAAAAATTAAATAA
* * *
33992585 TTTCTTAT-ATTTTTTATTAAAATTTAATAA
1 TTT-TTATAATTTTTAATAAAAATTAAATAA
33992615 TTTTTATAATTTTTA
1 TTTTTATAATTTTTA
33992630 TTGATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTATAATTTTTAATAAAAATTAAATAA
Found at i:33992639 original size:29 final size:27
Alignment explanation
Indices: 33992556--33992654 Score: 74
Period size: 29 Copynumber: 3.5 Consensus size: 27
33992546 TTTATAATCT
* * *
33992556 TTTTTCTAATTTTTAATAAAAATTAAATA
1 TTTTTATAATTTTT-ATTAAAATT-TATA
*
33992585 TTTCTTATATTTTTTATTAAAATTTAATAA
1 TTT-TTATAATTTTTATTAAAATTT-AT-A
* **
33992615 TTTTTATAATTTTTATTGATTTTTAT-
1 TTTTTATAATTTTTATTAAAATTTATA
*
33992641 TTTTTATCATTTTT
1 TTTTTATAATTTTT
33992655 TGTCACATGT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 13 0.22
28 2 0.03
29 30 0.52
30 13 0.22
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTTATAATTTTTATTAAAATTTATA
Found at i:33992640 original size:10 final size:10
Alignment explanation
Indices: 33992595--33992641 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
33992585 TTTCTTATAT
33992595 TTTTTATTAA
1 TTTTTATTAA
** *
33992605 AATTTAATAA
1 TTTTTATTAA
33992615 TTTTTA-TAA
1 TTTTTATTAA
*
33992624 TTTTTATTGA
1 TTTTTATTAA
33992634 TTTTTATT
1 TTTTTATT
33992642 TTTTATCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:33994973 original size:23 final size:25
Alignment explanation
Indices: 33994942--33994988 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
33994932 ATTCAGTTCC
*
33994942 TTTTATTTTAATCATTCAA-TTTTA
1 TTTTATTTTAATCACTCAACTTTTA
*
33994966 TTTT-TTTTAGTCACTCAACTTTT
1 TTTTATTTTAATCACTCAACTTTT
33994989 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTATTTTAATCACTCAACTTTTA
Found at i:33995245 original size:20 final size:20
Alignment explanation
Indices: 33995208--33995251 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33995198 TTAAAAATAT
*
33995208 TTTTATATTTATGTTTTAAA
1 TTTTATATTTATGATTTAAA
*
33995228 TTTTATAATTTAT-ATTTACA
1 TTTTAT-ATTTATGATTTAAA
33995248 TTTT
1 TTTT
33995252 TCTCATCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATATTTATGATTTAAA
Found at i:33995673 original size:18 final size:19
Alignment explanation
Indices: 33995650--33995685 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33995640 TATTTTTACA
33995650 TTTTC-TTTTTTTAAAAAG
1 TTTTCTTTTTTTTAAAAAG
33995668 TTTTCTTTTTTTTAAAAA
1 TTTTCTTTTTTTTAAAAA
33995686 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTCTTTTTTTTAAAAAG
Found at i:33995727 original size:11 final size:11
Alignment explanation
Indices: 33995711--33995735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33995701 TTATAATTTT
33995711 AATATTTTTAA
1 AATATTTTTAA
33995722 AATATTTTTAA
1 AATATTTTTAA
33995733 AAT
1 AAT
33995736 TTCTATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTTTAA
Found at i:33996031 original size:3 final size:3
Alignment explanation
Indices: 33996023--33996053 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33996013 TACCCAAAAG
33996023 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33996054 AGAAGATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:34003586 original size:225 final size:227
Alignment explanation
Indices: 34003175--34003604 Score: 634
Period size: 225 Copynumber: 1.9 Consensus size: 227
34003165 GAAAATTTAT
* * *
34003175 TTTTGTTTGCTGAAAACTCTTCATCTTCTTCCTCAACACCTGACTATGTTCCAATGTTTGCTTCT
1 TTTTGTTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCT
* * * *
34003240 CTTGTATAGTCTCAGTCACATCACTCTATCTCTCCTAATAGAGATGCCGACATACGAAGTCCTGC
66 CTTGTACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTCCTAC
* * * * * * * *
34003305 AGTTTAGTCTTATGGTACCTTAGACTTGCCATTTTTGGAAATTGATGTCAGTGCCTTGGGTC-CA
131 AGTTTAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGACAGTGCCTTAGATCACA
*
34003369 GTAGCAACACCTCTCCCCCCACACTTGAGTTG
196 GTAACAACACCTCTCCCCCCACACTTGAGTTG
* *
34003401 TTTT-TTTGCTGAGAACTCTTCATCTTCTACCTCAACACCTGACTGTGTTCCAACGTTTGCTCCT
1 TTTTGTTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCT
*
34003465 CTTGTACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGTCGACATACAAAG-CTCTA
66 CTTGTACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTC-CTA
*
34003529 CAGTTTAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGAT-ACGGGTGCCTTAGATCA
130 CAGTTTAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGAC-AGTGCCTTAGATCA
34003593 CAGTAACAACAC
194 CAGTAACAACAC
34003605 TTCTTCCCAC
Statistics
Matches: 181, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
224 2 0.01
225 164 0.91
226 15 0.08
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (227 bp):
TTTTGTTTGCTGAAAACTCTTCATCTTCTACCTCAACACCTGACTATGTTCCAACGTTTGCTCCT
CTTGTACAGTCTCAGTCACATCACTCTATCTCTCCTAAAAGAGATGCCGACATACAAAGTCCTAC
AGTTTAGTCTCATGATACCATAGACTCGCCATTTTTGGAAAGTGATGACAGTGCCTTAGATCACA
GTAACAACACCTCTCCCCCCACACTTGAGTTG
Found at i:34008205 original size:7 final size:7
Alignment explanation
Indices: 34008193--34008218 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34008183 CTATAATTTC
34008193 AGTTTGT
1 AGTTTGT
34008200 AGTTTGT
1 AGTTTGT
34008207 AGTTTGT
1 AGTTTGT
34008214 AGTTT
1 AGTTT
34008219 TTAGGCTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
AGTTTGT
Found at i:34025957 original size:41 final size:39
Alignment explanation
Indices: 34025897--34026051 Score: 186
Period size: 41 Copynumber: 3.8 Consensus size: 39
34025887 CGACCTTTCG
*
34025897 GGGCTTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTG-GAAAGCGCCGCTAATGCTC
*
34025938 GGAGCTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 GG-GCTTTAGCGGCGTTTTTGG-AAAGCGCCGCTAATGCTC
* * *
34025979 GGGGCTTTAGCGGCATTTTCT-AAGAAGCGCCGCTAATGCTTA
1 -GGGCTTTAGCGGCGTTTT-TGGA-AAGCGCCGCTAATGC-TC
34026021 GGGCTTTAGCGGCGTTTTTGGAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGGAAAGCGCCGC
34026052 AAAAATATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
40 12 0.12
41 81 0.82
42 6 0.06
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (39 bp):
GGGCTTTAGCGGCGTTTTTGGAAAGCGCCGCTAATGCTC
Found at i:34026036 original size:82 final size:82
Alignment explanation
Indices: 34025894--34026051 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 82
34025884 TTTCGACCTT
* * *
34025894 TCGGGGCTTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCGGAGCTTTAGCAGCGTTTTTG
1 TCGGGGCTTTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTAGGAGCTTTAGCAGCGTTTTTG
34025959 GAAAAGCGCCGCTAATGC
66 G-AAAGCGCCGCTAATGC
* *
34025977 TCGGGGC-TTTAGCGGCATTTTCTAAG-AAGCGCCGCTAATGCTTAGG-GCTTTAGCGGCGTTTT
1 TCGGGGCTTTTAGCGGCATTTT-TAAGAAAGCACCGCTAATGC-TAGGAGCTTTAGCAGCGTTTT
34026039 TGGAAAGCGCCGC
64 TGGAAAGCGCCGC
34026052 AAAAATATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
81 10 0.15
82 45 0.66
83 13 0.19
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (82 bp):
TCGGGGCTTTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTAGGAGCTTTAGCAGCGTTTTTG
GAAAGCGCCGCTAATGC
Found at i:34026772 original size:15 final size:15
Alignment explanation
Indices: 34026754--34026783 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34026744 TTATGATTTA
34026754 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
34026769 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
34026784 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (15 bp):
GGGTTTAGGAGATAG
Found at i:34028963 original size:30 final size:31
Alignment explanation
Indices: 34028909--34028969 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
34028899 TATGTGATAG
*
34028909 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
34028940 AGTCTCGTCTGTGTTTG-TTTTAACCCAGGT
1 AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
34028970 GCTTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (31 bp):
AGTCTCGTCTGTGTTTGTTTTTAACCCAGGT
Found at i:34030932 original size:42 final size:42
Alignment explanation
Indices: 34030872--34030998 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 42
34030862 AATAATTTTT
* * *
34030872 TAAAGATTATGTT-TTTAGCGGCGTTTTTGCTAGAAGCGCCGC
1 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGC
* * *
34030914 TAAAGGTTTGTTCTTTAGCGGTGTTTGTGATAAAAGCGCTGC
1 TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGC
* * * **
34030956 TAAAGGTAGTGGTCTTTAGCGGCATTTGTGGGAGAAGCGCCGC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGC
34030999 AGTCTTTAGC
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
41 4 0.06
42 38 0.55
43 27 0.39
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (42 bp):
TAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGC
Found at i:34031139 original size:43 final size:43
Alignment explanation
Indices: 34031000--34031139 Score: 183
Period size: 43 Copynumber: 3.3 Consensus size: 43
34030990 AAGCGCCGCA
* * * * *
34031000 GTCTTTAGCGGCGTTTGTGGGAAAAGTGCCACTAAAGGTCAAG-
1 GTCTTTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTC-AGC
* * *
34031043 GTCTATCGCGATGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGC
1 GTCTTTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGC
*
34031086 GTCTTTAGCGGTGTTTATAGGAGAAGCGCCGCTAAAGGTCAGC
1 GTCTTTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGC
34031129 GTCTTTAGCGG
1 GTCTTTAGCGG
34031140 CGCTTTTCCA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 2 0.02
43 82 0.98
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (43 bp):
GTCTTTAGCGGTGTTTGTAGGAGAAGCGCCGCTAAAGGTCAGC
Done.