Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
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: 3098974
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:7374 original size:19 final size:18
Alignment explanation
Indices: 7341--7385 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
7331 ACAGATGTTT
*
7341 TCTCTTATCCTGTTCTGA
1 TCTCTGATCCTGTTCTGA
7359 TCTCTGATCACTGTTCTGA
1 TCTCTGATC-CTGTTCTGA
*
7378 TTTCTGAT
1 TCTCTGAT
7386 ATCTCTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.13, C:0.24, G:0.13, T:0.49
Consensus pattern (18 bp):
TCTCTGATCCTGTTCTGA
Found at i:7552 original size:66 final size:66
Alignment explanation
Indices: 7446--7575 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
7436 GGTATGAAGA
** *
7446 CTCTGGCAGGTTCAGTCGTTGCGGGTAATTCTTTGTATAGGTTTTGTACCGACTGGTAATTCCTA
1 CTCTGGCAGGTTCAGTCGTTGCGGGTAATTCTTTGTATAGGTTCAGCACCGACTGGTAATTCCTA
7511 T
66 T
* ** *
7512 CTCTGGCAGGTTCAGTTGTTGTTGGTAATTCCTTT-TATAGGTTCAGCACTGACTGGTAATTCCT
1 CTCTGGCAGGTTCAGTCGTTGCGGGTAATT-CTTTGTATAGGTTCAGCACCGACTGGTAATTCCT
7576 TATGGACCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (66 bp):
CTCTGGCAGGTTCAGTCGTTGCGGGTAATTCTTTGTATAGGTTCAGCACCGACTGGTAATTCCTA
T
Found at i:12370 original size:114 final size:115
Alignment explanation
Indices: 12159--12372 Score: 385
Period size: 114 Copynumber: 1.9 Consensus size: 115
12149 TTAATTATCA
* *
12159 TGAATTTTTAAATATTATCATTTCACTGTATCTATGCATCAAGTTATGATTAAATATTAAAATAA
1 TGAATTTTTAAATATTATCATTTCACTATATCTATGCATCAAGTTATAATTAAATATTAAAATAA
*
12224 AATTAATAACTATATTTTTTGTCTCATAAAAAATAGTTAACAATAATAGT
66 AATTAATAACTAGATTTTTTGTCTCATAAAAAATAGTTAACAATAATAGT
12274 TGAA-TTTTAAATATTATCATTTCACTATATCTATGCATCAAGTTATAATTAAATATTAAAATAA
1 TGAATTTTTAAATATTATCATTTCACTATATCTATGCATCAAGTTATAATTAAATATTAAAATAA
12338 AATTAATAACTAGAGTTTTTTGTCTCATAAAAAAT
66 AATTAATAACTAGA-TTTTTTGTCTCATAAAAAAT
12373 TTAATTTAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
114 71 0.75
115 24 0.25
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (115 bp):
TGAATTTTTAAATATTATCATTTCACTATATCTATGCATCAAGTTATAATTAAATATTAAAATAA
AATTAATAACTAGATTTTTTGTCTCATAAAAAATAGTTAACAATAATAGT
Found at i:20341 original size:23 final size:23
Alignment explanation
Indices: 20294--20342 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
20284 AACAACATAT
* **
20294 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
20317 TAGGTAACGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
20340 TAG
1 TAG
20343 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:20403 original size:87 final size:87
Alignment explanation
Indices: 20257--20419 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
20247 TATGTTATAT
*
20257 CATTTAACCGAAAATATTATCAAGCACAACAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGCACAACAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
*
20322 AACGCTTATATAATAAAATAGA
66 AACACTTATATAATAAAATAGA
* * * * *
20344 CATTTAACCGAAAATATTATTAAGTACAATAATAAATTAGGTAGCGTTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGCACAACAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
*
20409 AGCACTTATAT
66 AACACTTATAT
20420 TGATCTATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGCACAACAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
AACACTTATATAATAAAATAGA
Found at i:20870 original size:200 final size:197
Alignment explanation
Indices: 20441--20892 Score: 450
Period size: 197 Copynumber: 2.3 Consensus size: 197
20431 TTCATAAAAT
* * * * * * * *
20441 CGGTAAATTTAAACCGGTTACATT-ATAAATTGACATATTATATTAT-GTATATCGGTTTCGATG
1 CGGTATATTTTAACCGGTTACATTGA-AAATTTACCTATTACATAATAAT-TATCGATTTCGATG
* * * * *
20504 TTTTCAGGATCGATACAATTTTAAATGTATTGACACTTTATGCGTGCAATTCGTTTGTGCTTTAT
64 TTTTCAGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCAT
* * * * * *
20569 TTTGGAAAAACGTATCGATACATATTTAAAGAGTGTCGATACATAATATAGACCTATTTGCTAAT
129 TTTGAAAAAACGTATCGACACAAATTAAAAAAGTGTCGATACATAATATAGACATATTTGCTAAT
*
20634 TAAC
194 GAAC
* * *
20638 CGGTATATTTTAACCTGTTACATTGAAAATTTATCTGTTACATAATAATTATCGATTTCGATG-T
1 CGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATAATAATTATCGATTTCGATGTT
* * * *
20702 TTCGAGGATCGATAC-TTTTTACAAATGTATCGATATTTTATGCGTACACCTCGTTT-TCCATTC
66 TTC-AGGATCGATACAATTTT--AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-TTC
* * * * *
20765 ATTTTGAAAAAATGTATCGACACAAATTAAACAAAGTGTCGATACTTTATGTTGACATATTCT-C
127 ATTTTGAAAAAACGTATCGACACAAATTAAA-AAAGTGTCGATACATAATATAGACATATT-TGC
*
20829 TCATGAACC
190 TAATGAA-C
* *
20838 CGGTATATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGA
1 CGGTATATTT-TAACCGGTTACATTGAAAATTTACCTATTACATAATAATTATCGA
20893 CACAAAATCT
Statistics
Matches: 207, Mismatches: 38, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
196 8 0.04
197 61 0.29
198 58 0.28
199 29 0.14
200 50 0.24
201 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (197 bp):
CGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATAATAATTATCGATTTCGATGTT
TTCAGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTT
TGAAAAAACGTATCGACACAAATTAAAAAAGTGTCGATACATAATATAGACATATTTGCTAATGA
AC
Found at i:24232 original size:21 final size:22
Alignment explanation
Indices: 24206--24252 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
24196 TAGTATGGAC
*
24206 ATAAAGTGTCGACACA-AATGT
1 ATAAAGTATCGACACATAATGT
* *
24227 ATAAAGTATCGATACATTATGT
1 ATAAAGTATCGACACATAATGT
24249 ATAA
1 ATAA
24253 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (22 bp):
ATAAAGTATCGACACATAATGT
Found at i:24362 original size:197 final size:197
Alignment explanation
Indices: 24007--24907 Score: 956
Period size: 193 Copynumber: 4.5 Consensus size: 197
23997 CGTAATTTTA
* * *
24007 AAAAGTATCGACACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTATGTCATAA-AAC
1 AAAAGTATCGACACAAATGTATAAAGTGTCGATACATTA-TGTATACCT-TT-T-TTATAATAAC
* * * * ** * * *
24070 CAGTATATTTCAACCGGTTACATTGTAAAGTGGCCTATTACATTATCATTACGGGTTTCGATGTT
62 CGGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTT
* * * * ** *
24135 TTTAGGATAGACACTTTTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTAGT
127 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATT
24200 ATGGAC
192 ATGGAC
* * * *
24206 ATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATAACTTTTTTTTAATAACCGG
1 A-AAAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTTTTATAATAACCGG
*
24271 TATGTTTAAACCGGTTACATTGTTATGTTACCTATTACATTAT-ATTATGTGTTTCGATGTTTTT
65 TATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTT
* * **
24335 GGGATCGACACTGGTTATAAATGTATCGACACATTTTCGTGAACTTGTTTGGAAAATTTTATTAT
130 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAA-TACATTAT
24400 GGAC
194 GGAC
* * *
24404 ---A-TGTCGACACAAATGTAT-AAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACC-
1 AAAAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACC-TT-TTTTATAATAACCG
* *
24463 GTATATTTAGACCGGTTATATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
64 GTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTT
*
24528 TGGGATCGAC-CTTGTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGG-AAATACATT
129 TGGGATCGACACTTGTTATAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATACATT
24591 ATGGAC
192 ATGGAC
* * * *
24597 AACATGTATCGGCACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCATAA-AA
1 AA-AAGTATCGACACAAATGTATAAAGTGTCGATACATTA-TGTATACCT-TTTT-T-ATAATAA
** * * * * *
24660 CATGTAAATTTAAACC-GTTACATTGTAAAGTGACCTATTACATTAT-AGT-TG-GTTTCGATGT
61 CCGGTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGT
* * *
24721 TTTTGGGATCGACACTTGATATAAAATGTGTCAACACTTATTT-GTGAACTTGTTTTGGTTGGAA
126 TTTTGGGATCGACACTTGTTAT-AAATGTATCGACACTT-TTTCGTGAACTTG---T--TTGGAA
24785 AATACATTATGGAC
184 AATACATTATGGAC
* * * * *
24799 ACAAAGTATCGACACAAATGTATAAAGTGTCGACACTTTATGTATACCTCTTTTCTCATAAACCG
1 A-AAAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTTTTATAAT-AACCG
* * *
24864 GTATATTTAGACTGGTTACATTGTTATTTTACCTATTACATTAT
64 GTATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTAT
24908 GTTGAGTTAA
Statistics
Matches: 599, Mismatches: 69, Indels: 65
0.82 0.09 0.09
Matches are distributed among these distances:
192 23 0.04
193 91 0.15
194 59 0.10
195 6 0.01
196 24 0.04
197 91 0.15
198 91 0.15
199 56 0.09
200 54 0.09
201 22 0.04
202 79 0.13
203 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (197 bp):
AAAAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTTTTATAATAACCGGT
ATATTTAAACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTG
GGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGG
AC
Found at i:24770 original size:391 final size:397
Alignment explanation
Indices: 24009--24907 Score: 994
Period size: 391 Copynumber: 2.3 Consensus size: 397
23999 TAATTTTAAA
* * * * *
24009 AAGTATCGACACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTATGTCATAA-AACCA
1 AAGTATCGACACAAATGTATAAAGTGTCGATACATTA-TGTATACCT-TTCTTTTATAATAACCA
* * ** *
24072 GTATATTTCA-ACCGGTTACATTGTAAAGTGGCCTATTACATTATCATTACGGGTTTCGATGTTT
64 GTATATTT-AGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTT
* **
24136 TTAGGATAGACACTTTTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTAGTA
128 TTAGGATAGACACTTGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATACAGTA
* * * *
24201 TGGACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATAACTTTTTTTTAATA
193 TGGACATAAAGTATCGACACAAATGAATAAAGTATCGATACATTATGTAGAACTTTTTTATAATA
* ** * * * *
24266 ACCGGTATGTTTAAACCGGTTACATTGTTATGTTACCTATTACATTATATTATGTGTTTCGATGT
258 ACAGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTATGTGTTTCGATGT
* * *
24331 TTTTGGGATCGACACTGGTTATAAATGTATCGACACATTTTCGTGAACTTG-T-TTGGAAAATTT
323 TTTTGGGATCGACACTGGATATAAATGTATCAACACATTTTCGTGAACTTGTTGTTGGAAAA-TA
*
24394 TATTATGG-AC
387 CATTATGGAAC
* * *
24404 -A-TGTCGACACAAATGTAT-AAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACC-GT
1 AAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTCTTTTATAATAACCAGT
* * * *
24465 ATATTTAGACCGGTTATATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTG
66 ATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTA
* * * *
24530 GGATCGAC-CTTGTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGG-AAATACATTAT
131 GGATAGACACTTGTTATAAATGTATCGACAC-TTTTTCATGAACTT-GTTTGGAAAATACAGTAT
* * * *
24593 GGACA-ACATGTATCGGCACAAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCAT
194 GGACATA-AAGTATCGACACAAATGAATAAAGTATCGATACATTA-TGTAGAACT-TTTT-T-AT
*
24656 AA-AACATGTAAATTTAAACC-GTTACATTGTAAAGTGACCTATTACATTATAGT-TG-GTTTCG
254 AATAACAGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTATGTGTTTCG
* * *
24717 ATGTTTTTGGGATCGACACTTGATATAAAATGTGTCAACAC-TTATTTGTGAACTTGTTTTGGTT
319 ATGTTTTTGGGATCGACACTGGATAT-AAATGTATCAACACATT-TTCGTGAACTTG--TT-GTT
24781 GGAAAATACATTATGGACAC
379 GGAAAATACATTATGGA-AC
* * * * *
24801 AAAGTATCGACACAAATGTATAAAGTGTCGACACTTTATGTATACC--TCTTTTCTCATAAACCG
1 -AAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTCTTTTATAAT-AACCA
* *
24864 GTATATTTAGACTGGTTACATTGTTATTTTACCTATTACATTAT
64 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTAT
24908 GTTGAGTTAA
Statistics
Matches: 423, Mismatches: 56, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
390 57 0.13
391 156 0.37
392 63 0.15
393 32 0.08
394 5 0.01
395 8 0.02
396 8 0.02
397 2 0.00
399 10 0.02
400 20 0.05
401 62 0.15
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (397 bp):
AAGTATCGACACAAATGTATAAAGTGTCGATACATTATGTATACCTTTCTTTTATAATAACCAGT
ATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTA
GGATAGACACTTGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATACAGTATGG
ACATAAAGTATCGACACAAATGAATAAAGTATCGATACATTATGTAGAACTTTTTTATAATAACA
GGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTATGTGTTTCGATGTTTT
TGGGATCGACACTGGATATAAATGTATCAACACATTTTCGTGAACTTGTTGTTGGAAAATACATT
ATGGAAC
Found at i:25653 original size:18 final size:17
Alignment explanation
Indices: 25600--25647 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
25590 TTGGACTCCT
*
25600 AGTGCATCG-TGCACTAA
1 AGTGCATCGATGCA-TGA
25617 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
25635 AGTGCATTCGATG
1 AGTGCA-TCGATG
25648 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 17 0.63
19 4 0.15
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:25713 original size:45 final size:42
Alignment explanation
Indices: 25616--25722 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 42
25606 TCGTGCACTA
* *
25616 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAAT
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAAT
* *
25658 AGCCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAT
1 AG---AGTGCATCGATGCATCAAATGCATTCGATGTTTGAA--AAAT
*
25705 CAGAGTGCATAGATGCAT
1 -AGAGTGCATCGATGCAT
25723 GAAGAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.04
45 45 0.85
47 4 0.08
48 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAAT
Found at i:25742 original size:19 final size:19
Alignment explanation
Indices: 25706--25744 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25696 TAATTAAATC
*
25706 AGAGTGCATAGATGCATGA
1 AGAGTGCATAGATACATGA
* *
25725 AGAGTGCATCGGTACATGA
1 AGAGTGCATAGATACATGA
25744 A
1 A
25745 ATGCATTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (19 bp):
AGAGTGCATAGATACATGA
Found at i:25796 original size:21 final size:21
Alignment explanation
Indices: 25770--25809 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25760 CAATTTATTC
25770 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
25791 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
25810 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:33569 original size:64 final size:63
Alignment explanation
Indices: 33492--33655 Score: 197
Period size: 64 Copynumber: 2.6 Consensus size: 63
33482 TTGGTGCAGT
* *
33492 AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AGCCTGGTGCATCGATGCAT
1 AAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG---AGTGCATCGATGCAT
33555 G
63 G
**** * *
33556 GCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATG
1 AAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-TAAATCAGAGTGCATCGATGCATG
*
33620 AAGAGTGCATCGGTGCATGAAATGCATTCGATGTTT
1 AAGAGTGCATCGATGCATGAAATGCATTCGATGTTT
33656 CAATTTATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
64 77 0.93
66 4 0.05
67 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (63 bp):
AAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAGAGTGCATCGATGCATG
Found at i:33626 original size:19 final size:19
Alignment explanation
Indices: 33602--33652 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
33592 TAATTAAATC
33602 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
33621 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCGATGCATGA
33640 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
33653 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:33692 original size:21 final size:21
Alignment explanation
Indices: 33666--33705 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33656 CAATTTATTC
33666 ATTGATACATCGATGCATGGT
1 ATTGATACATCGATGCATGGT
* *
33687 ATTGATGCATCGGTGCATG
1 ATTGATACATCGATGCATG
33706 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATACATCGATGCATGGT
Found at i:35713 original size:198 final size:198
Alignment explanation
Indices: 34996--35860 Score: 1434
Period size: 198 Copynumber: 4.4 Consensus size: 198
34986 TCAGGTCAAT
*
34996 GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACCCCTGTTTTCTCATAAA
1 GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAAA
*
35061 CCGGTGTATTTAGACCAGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATGT
66 CCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATGT
35126 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
131 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
*
35191 CTG
196 CTA
*
35194 GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACATGTTTTCTCATAAA
1 GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAAA
* * *
35259 CCGATGTATTTAGA-CGGTTAGATTGATAATTTTCCTATTACATTATAATTATGGGTCTCGATGT
66 CCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATGT
*
35323 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTAACCTTGGTAAGGAAATCATT
131 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
35388 CTA
196 CTA
35391 GTA-ACAAAGTATC-ACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAA
1 G-ACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAA
*
35454 ACCAGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATG
65 ACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATG
35519 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCAT
130 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCAT
35584 TCTA
195 TCTA
* * * *
35588 GACACAAAGTATCGACACAAATTTAAAAAGTATCGATACTTCGTGTACACCTATTTTCTCATAAA
1 GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAAA
* *
35653 CCGGTGTATTTAGACCGGTTATATTGATAATTTACCTATAACATTATAATTATAGGTCTCGATGT
66 CCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATGT
* **
35718 TTTTGGGATCGATACTTTGTATAAATGTATCGACACATT-TCCATG-CACTTGGTAAGGAAATCA
131 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTAT-GGTGAC-CTTGGTAAGGAAATCA
*
35781 TTCTG
194 TTCTA
* *
35786 GACACAAAGTATGGGATCGACACAAATTAAACAAGTGTCGATACTTTATGTACACCTGTTTTCTC
1 GACACAAAG--T---ATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTC
35851 ATAAACCGGT
61 ATAAACCGGT
35861 ATACTTGGAC
Statistics
Matches: 625, Mismatches: 31, Indels: 17
0.93 0.05 0.03
Matches are distributed among these distances:
196 63 0.10
197 252 0.40
198 255 0.41
200 1 0.00
203 54 0.09
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (198 bp):
GACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCATAAA
CCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATAACATTATAATTATGGGTCTCGATGT
TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
CTA
Found at i:37307 original size:17 final size:17
Alignment explanation
Indices: 37285--37320 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
37275 GAATCATTAG
*
37285 GATTAATATCTTTTCAT
1 GATTAAGATCTTTTCAT
37302 GATTAAGATCTTTTCAT
1 GATTAAGATCTTTTCAT
37319 GA
1 GA
37321 AATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
GATTAAGATCTTTTCAT
Found at i:38053 original size:9 final size:9
Alignment explanation
Indices: 38039--38063 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38029 CTTCTTCCCT
38039 CTCCTCTGC
1 CTCCTCTGC
38048 CTCCTCTGC
1 CTCCTCTGC
38057 CTCCTCT
1 CTCCTCT
38064 ACGTCCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.56, G:0.08, T:0.36
Consensus pattern (9 bp):
CTCCTCTGC
Found at i:38329 original size:22 final size:24
Alignment explanation
Indices: 38301--38356 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
38291 AACCTGTATT
38301 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
38323 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
*
38347 TATAAAAAAA
1 TATAATAAAA
38357 CAAAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 14 0.52
25 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:41441 original size:44 final size:46
Alignment explanation
Indices: 41391--41500 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
41381 GTAACCATGC
* *
41391 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
* * * *
41435 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAA
41482 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
41501 GGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.37
46 1 0.02
47 35 0.61
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
Found at i:43134 original size:6 final size:6
Alignment explanation
Indices: 43123--43147 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43113 AAGACCTATG
43123 GGTCAT GGTCAT GGTCAT GGTCAT G
1 GGTCAT GGTCAT GGTCAT GGTCAT G
43148 ACACAAGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GGTCAT
Found at i:48588 original size:44 final size:46
Alignment explanation
Indices: 48538--48647 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
48528 GTAACCATGC
* *
48538 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
* * * *
48582 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAA
48629 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
48648 TGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.37
46 1 0.02
47 35 0.61
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
Found at i:50331 original size:20 final size:20
Alignment explanation
Indices: 50285--50331 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50275 ACCGGTAGCG
50285 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
50305 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
50326 -TTTACC
1 CTTTACC
50332 TATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:50513 original size:20 final size:20
Alignment explanation
Indices: 50467--50513 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
50457 ACCGGTAGCG
*
50467 CTTTACCGGTTTTGTCATTT
1 CTTTACCGATTTTGTCATTT
**
50487 CGATACCGATTTTGTCATATT
1 CTTTACCGATTTTGTCAT-TT
50508 -TTTACC
1 CTTTACC
50514 TATTCTATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCGATTTTGTCATTT
Found at i:50559 original size:182 final size:182
Alignment explanation
Indices: 50248--51394 Score: 1916
Period size: 182 Copynumber: 6.3 Consensus size: 182
50238 TACGCGTACT
*
50248 TATTAAAATACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
* *
50313 GTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTAGCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
*
50378 TTTTAGGCGCTATAACTTATTCTCTTTTAAATTACGAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
50430 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
*
50495 ATTTTGTCATATTTTTACCTATTCTATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
50560 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
50612 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
* *
50677 GTTTTGTCATATTTTTACCTATTATATTATTATGGATCGATACATTTGTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
50742 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
*
50794 TATTAAAGTACTGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
* *
50859 GTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATATATTTGTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
*
50924 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGCCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
*
50976 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCG
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
51041 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
* *
51106 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATGCTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
** * * * * * ** * * *
51158 TATTAATTTATCGATACTTTCAATATATCTGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCT
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
* * * * * *
51223 ATTTTGTCATATTATTACATGTTATATTGCTATGGATCGACACATTTTTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
* *
51288 TTTTCGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
** * * ** * *
51340 TATTAATTTATCGACACTTTCAATATATTCAGTAGCGCTTTACCGGTTTTATCAT
1 TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCAT
51395 ATTTTTAGCT
Statistics
Matches: 921, Mismatches: 44, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 921 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTACCGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCG
ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATTTGTATAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTA
Found at i:50695 original size:20 final size:20
Alignment explanation
Indices: 50649--50695 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50639 ACCGGTAGCG
50649 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
50669 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
50690 -TTTACC
1 CTTTACC
50696 TATTATATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:50877 original size:20 final size:20
Alignment explanation
Indices: 50831--50877 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50821 ACCGGTAGCG
50831 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
50851 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
50872 -TTTACC
1 CTTTACC
50878 TATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:52689 original size:156 final size:154
Alignment explanation
Indices: 52331--52689 Score: 459
Period size: 156 Copynumber: 2.3 Consensus size: 154
52321 GTTACATAGG
* * * * * * *
52331 TATTCTATTGTGGTATATGAGCATGTTGTTCAAATTTAGTAAAAGAATGACTTAAAATAAATCAC
1 TATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAA-AA-AACTTAAAATAAATCAC
* *
52396 AAATTGAAGGAATAAGAAAATTATGAAAAATTGAACGACTATGAAAAATAAAAAAAATTGTTATC
64 AAATTGAAGAAATAAGAAAATTATGAAAAATTGAACGACTATGAAAAATAAAAAAAATTATTATC
*
52461 AAAAAGAGAAATTGAAAGTACACATG
129 AAAAAGAGAAATTGAAAGTACACATA
* * ** * * **
52487 TATTCTACTATGGTTTAGGAGAACGTGACTCAAATTTGGTAAAAAAAACTTAAAATAAGTGATGA
1 TATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAACTTAAAATAAATCACAA
* * * * *
52552 ATTGAATAAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAAT-AAAAAATTTATTAT
66 ATTGAAGAAATAAGAAAATTATGAAAAATTGAACGACT--A-TGAAAAATAAAAAAAATTATTAT
52616 CAAAAAGAGAAATTGAAAGTACACATA
128 CAAAAAGAGAAATTGAAAGTACACATA
52643 TATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAA
1 TATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAA
52690 TGGAATGAAC
Statistics
Matches: 173, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
154 47 0.27
155 2 0.01
156 116 0.67
157 8 0.05
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (154 bp):
TATTCTACTATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAACTTAAAATAAATCACAA
ATTGAAGAAATAAGAAAATTATGAAAAATTGAACGACTATGAAAAATAAAAAAAATTATTATCAA
AAAGAGAAATTGAAAGTACACATA
Found at i:56756 original size:29 final size:29
Alignment explanation
Indices: 56713--56805 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
56703 TAAATGGCTA
* *
56713 AAATAGTAAAAACAGAAACTTAAGGGTCT
1 AAATAATAAAAACAGAAACTTAAGGGACT
* * * *
56742 AAATAATAAATACAGACATTTAAAGGACT
1 AAATAATAAAAACAGAAACTTAAGGGACT
* *
56771 AGAATAACAAAAATAGAAACTTAAGGGACT
1 A-AATAATAAAAACAGAAACTTAAGGGACT
56801 AAATA
1 AAATA
56806 GCAAAAATAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
29 28 0.55
30 23 0.45
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (29 bp):
AAATAATAAAAACAGAAACTTAAGGGACT
Found at i:56810 original size:29 final size:29
Alignment explanation
Indices: 56606--56856 Score: 141
Period size: 30 Copynumber: 8.4 Consensus size: 29
56596 GTAAGTACTT
*
56606 GAAA-TTACAAGGACCAAATAGCAAAAACA
1 GAAACTTA-AAGGACTAAATAGCAAAAACA
* * * * *
56635 TAAACTCAAAGGACCAAAATAGTACAAACA
1 GAAACTTAAAGGA-CTAAATAGCAAAAACA
* * *
56665 TG-AATTTAAAGGACTAAAATGGAAAAAAACAA
1 -GAAACTTAAAGGACT-AAATAG-CAAAAAC-A
* *
56697 AAAACTTAAATGG-CTAAAATAGTAAAAACA
1 GAAACTTAAA-GGACT-AAATAGCAAAAACA
* * ** *
56727 GAAACTTAAGGGTCTAAATAATAAATACA
1 GAAACTTAAAGGACTAAATAGCAAAAACA
* * * *
56756 GACATTTAAAGGACTAGAATAACAAAAATA
1 GAAACTTAAAGGACTA-AATAGCAAAAACA
* *
56786 GAAACTTAAGGGACTAAATAGCAAAAATA
1 GAAACTTAAAGGACTAAATAGCAAAAACA
* * * *
56815 TAAAGTTAAAGGACCAAAATAGCACAAACA
1 GAAACTTAAAGGA-CTAAATAGCAAAAACA
*
56845 -AAATTTAAAGGA
1 GAAACTTAAAGGA
56857 TTGAATCATA
Statistics
Matches: 173, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
29 68 0.39
30 76 0.44
31 11 0.06
32 16 0.09
33 2 0.01
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.18
Consensus pattern (29 bp):
GAAACTTAAAGGACTAAATAGCAAAAACA
Found at i:59253 original size:29 final size:30
Alignment explanation
Indices: 59193--59285 Score: 179
Period size: 30 Copynumber: 3.1 Consensus size: 30
59183 ACATTTTAAT
59193 TAATAAAAAGTTTTAAATAAATAATATAAA
1 TAATAAAAAGTTTTAAATAAATAATATAAA
59223 TAATAAAAAGTTTTAAATAAATAATA-AAA
1 TAATAAAAAGTTTTAAATAAATAATATAAA
59252 TAATAAAAAGTTTTAAATAAATAATATAAA
1 TAATAAAAAGTTTTAAATAAATAATATAAA
59282 TAAT
1 TAAT
59286 TACATAATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 29 0.47
30 33 0.53
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (30 bp):
TAATAAAAAGTTTTAAATAAATAATATAAA
Found at i:67526 original size:19 final size:18
Alignment explanation
Indices: 67498--67540 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
67488 TTTGGTTCAC
* *
67498 GGAATGTAAGATTATCAG
1 GGAATATAAGATTAACAG
67516 TGGAATATAAGATTAACAG
1 -GGAATATAAGATTAACAG
67535 GGAATA
1 GGAATA
67541 AGATTACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (18 bp):
GGAATATAAGATTAACAG
Found at i:67760 original size:33 final size:37
Alignment explanation
Indices: 67691--67761 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 37
67681 GTTGGAAAAT
* *
67691 ATTTATATATATTTTTAAAAAAATTTAAATTAATAAA
1 ATTTATATATATTTTTAAAAAAATTGAAAATAATAAA
*
67728 ATTTATAT-T-TTTTT-ACAAAATTGAAAAT-ATAAA
1 ATTTATATATATTTTTAAAAAAATTGAAAATAATAAA
67761 A
1 A
67762 AAGTTTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 6 0.19
34 11 0.35
35 5 0.16
36 1 0.03
37 8 0.26
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATATTTTTAAAAAAATTGAAAATAATAAA
Found at i:68499 original size:16 final size:16
Alignment explanation
Indices: 68478--68515 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
68468 GTTAAATATA
68478 CATTCCAATAATCTTT
1 CATTCCAATAATCTTT
68494 CATTCCAATAATCTTT
1 CATTCCAATAATCTTT
*
68510 TATTCC
1 CATTCC
68516 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (16 bp):
CATTCCAATAATCTTT
Found at i:68610 original size:33 final size:36
Alignment explanation
Indices: 68573--68650 Score: 90
Period size: 40 Copynumber: 2.1 Consensus size: 36
68563 CAAAATACAA
68573 TATTCCCA-GTAATC-CTATTCC-CTGGTAATCTTT
1 TATTCCCACGTAATCTCTATTCCACTGGTAATCTTT
*
68606 TATTCCCACTGGTAATCTTTTATTCCTACTGGTAATCTTT
1 TATTCCCAC--GTAATC-TCTATTCC-ACTGGTAATCTTT
68646 TATTC
1 TATTC
68651 TCACTGGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 8 0.22
36 6 0.16
38 6 0.16
40 17 0.46
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.46
Consensus pattern (36 bp):
TATTCCCACGTAATCTCTATTCCACTGGTAATCTTT
Found at i:68619 original size:20 final size:20
Alignment explanation
Indices: 68594--68664 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
68584 ATCCTATTCC
68594 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
68614 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTTTATTCCCA
*
68634 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTTTATTCCCA
68654 CTGGTAATCTT
1 CTGGTAATCTT
68665 ACATTCCGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:76955 original size:14 final size:14
Alignment explanation
Indices: 76924--76961 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
76914 GGGGTGTAGT
76924 AATTTTCAAAAATG
1 AATTTTCAAAAATG
76938 -ATTTTCAAAAATG
1 AATTTTCAAAAATG
76951 AATTTT-AAAAA
1 AATTTTCAAAAA
76962 GAAAATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTTTCAAAAATG
Found at i:77011 original size:94 final size:94
Alignment explanation
Indices: 76891--77065 Score: 332
Period size: 94 Copynumber: 1.9 Consensus size: 94
76881 TGATTTAACA
*
76891 AAAAAAGGGGAGAATAAAGTAAGGGGGTGTAGTAATTTTCAAAAATGATTTTCAAAAATGAATTT
1 AAAAAAGGGGAGAATAAAGTAAGGGGGAGTAGTAATTTTCAAAAATGATTTTCAAAAATGAATTT
76956 TAAAAAGAAAATCTTAGTTTTGTTATATC
66 TAAAAAGAAAATCTTAGTTTTGTTATATC
*
76985 AAAAAGGGGGAGAATAAAGTAAGGGGGAGTAGTAATTTTCAAAAATGATTTTCAAAAATGAATTT
1 AAAAAAGGGGAGAATAAAGTAAGGGGGAGTAGTAATTTTCAAAAATGATTTTCAAAAATGAATTT
77050 TAAAAAGAAAATCTTA
66 TAAAAAGAAAATCTTA
77066 AAATTACTTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (94 bp):
AAAAAAGGGGAGAATAAAGTAAGGGGGAGTAGTAATTTTCAAAAATGATTTTCAAAAATGAATTT
TAAAAAGAAAATCTTAGTTTTGTTATATC
Found at i:77049 original size:14 final size:14
Alignment explanation
Indices: 77018--77055 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
77008 GGGGAGTAGT
77018 AATTTTCAAAAATG
1 AATTTTCAAAAATG
77032 -ATTTTCAAAAATG
1 AATTTTCAAAAATG
77045 AATTTT-AAAAA
1 AATTTTCAAAAA
77056 GAAAATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTTTCAAAAATG
Found at i:77994 original size:102 final size:98
Alignment explanation
Indices: 77784--78035 Score: 308
Period size: 102 Copynumber: 2.5 Consensus size: 98
77774 ATCACATCAG
* * *
77784 GGATGAACACAGATGAACATGGGTTGAATTTTGGGTGTTTGATCGAAAACAAATATAGTGTTTGG
1 GGATGAACACAGATGAACAAGGGTTG-ATTTTGGGTGTTTGATCGAAAA-AAAGATAGAGTTTGG
* *
77849 GTTTGGTGTTTGTAAAGATCAAGAGAGGGGTTTGA
64 GTTTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
* * *
77884 GGATGAACACAAATGAACAAGGGTTGCATTTTTGGTGTTTGGTCGAAAAAACAGGATAGAGTTTG
1 GGATGAACACAGATGAACAAGGGTTG-ATTTTGGGTGTTTGATCGAAAAAA-A-GATAGAGTTTG
**
77949 GGTTTTGGTGTTTGTAAAGATCAA-AGAAGAGTTTTT
63 GG-TTTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
** *
77985 GGAATGAACATGGATGAACAAGGGTTGAATTTGGTGTGTTTGATCGAAAAA
1 GG-ATGAACACAGATGAACAAGGGTTGATTTTGG-GTGTTTGATCGAAAAA
78036 TCAAACGATT
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
99 2 0.02
100 45 0.35
101 26 0.20
102 57 0.44
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (98 bp):
GGATGAACACAGATGAACAAGGGTTGATTTTGGGTGTTTGATCGAAAAAAAGATAGAGTTTGGGT
TTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
Found at i:78063 original size:102 final size:98
Alignment explanation
Indices: 77784--78065 Score: 268
Period size: 102 Copynumber: 2.8 Consensus size: 98
77774 ATCACATCAG
* *
77784 GGATGAACACAGATGAACATGGGTTGAATTTTGG-GTGTTTGATCG-AAAACAAATATAGTGTTT
1 GGATGAACACAGATGAACAAGGGTTGAA-TTTGGTGTGTTTGATCGAAAAAC-AA-AGA-T-TTT
* *
77847 GGG-TTTGGTGTTTGTAAAGATCAAGAGAGGGGTTTGA
61 GGGTTTTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
* * * * *
77884 GGATGAACACAAATGAACAAGGGTTGCATTT-TTGGTGTTTGGTCGAAAAAACAGGATAGAGTTT
1 GGATGAACACAGATGAACAAGGGTTGAATTTGGT-GTGTTTGATCG-AAAAACA--A-AGATTTT
**
77948 GGGTTTTGGTGTTTGTAAAGATCAA-AGAAGAGTTTTT
61 GGGTTTTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
**
77985 GGAATGAACATGGATGAACAAGGGTTGAATTTGGTGTGTTTGATCGAAAAATCAAACGATTTCTG
1 GG-ATGAACACAGATGAACAAGGGTTGAATTTGGTGTGTTTGATCGAAAAA-CAAA-GATTT-TG
*
78050 GGTTTTAGATGTTTGT
62 GGTTTT-GGTGTTTGT
78066 GGATGAGATT
Statistics
Matches: 150, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
99 4 0.03
100 40 0.27
101 30 0.20
102 71 0.47
103 5 0.03
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (98 bp):
GGATGAACACAGATGAACAAGGGTTGAATTTGGTGTGTTTGATCGAAAAACAAAGATTTTGGGTT
TTGGTGTTTGTAAAGATCAAGAGAAGAGTTTGA
Found at i:78138 original size:18 final size:19
Alignment explanation
Indices: 78115--78157 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
78105 AAACAGAGTG
*
78115 TAGAAA-GAGAGCAAAAAT
1 TAGAAATGAGAACAAAAAT
78133 TAGAAAATGAGAACAAAAAT
1 TAG-AAATGAGAACAAAAAT
78153 T-GAAA
1 TAGAAA
78158 ATGATCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.63, C:0.05, G:0.19, T:0.14
Consensus pattern (19 bp):
TAGAAATGAGAACAAAAAT
Found at i:78157 original size:19 final size:20
Alignment explanation
Indices: 78121--78161 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
78111 AGTGTAGAAA
*
78121 GAGAGCAAAAATTAGAAAAT
1 GAGAACAAAAATTAGAAAAT
78141 GAGAACAAAAATT-GAAAAT
1 GAGAACAAAAATTAGAAAAT
78160 GA
1 GA
78162 TCGAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.15
Consensus pattern (20 bp):
GAGAACAAAAATTAGAAAAT
Found at i:78420 original size:29 final size:29
Alignment explanation
Indices: 78383--78497 Score: 108
Period size: 29 Copynumber: 3.8 Consensus size: 29
78373 TTATAAACTC
*
78383 TATATTTTATATTAATAAACTATAGTTTA
1 TATAGTTTATATTAATAAACTATAGTTTA
78412 TATAGTTTATATTAATAAACTATATAGTTTA
1 TATAGTTTATATTAATAAAC--TATAGTTTA
* * * *
78443 TACATAGTATATA-TAATTTATAC-ATAATATA
1 T--ATAGTTTATATTAA--TAAACTATAGTTTA
*
78474 TATAGTTTATATTAATAAATTATA
1 TATAGTTTATATTAATAAACTATA
78498 TAGTTTTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
28 3 0.04
29 31 0.44
30 3 0.04
31 17 0.24
32 3 0.04
33 9 0.13
34 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (29 bp):
TATAGTTTATATTAATAAACTATAGTTTA
Found at i:78435 original size:22 final size:20
Alignment explanation
Indices: 78410--78573 Score: 125
Period size: 22 Copynumber: 7.8 Consensus size: 20
78400 AACTATAGTT
78410 TATATAGTTTATATTAATAAA
1 TATATAGTTTATA-TAATAAA
* *
78431 CTATATAGTTTATA-CATAGTA
1 -TATATAGTTTATATAATA-AA
* *
78452 TATATAATTTATA-CATAATA
1 TATATAGTTTATATAATAA-A
78472 TATATAGTTTATATTAATAAA
1 TATATAGTTTATA-TAATAAA
* **
78493 TTATATAGTTTTTATATATAGT
1 -TATATAGTTTATATA-ATAAA
*
78515 TCATATAATTTATATTAATAAA
1 T-ATATAGTTTATA-TAATAAA
* *
78537 CTATATAGTTCATATATATATA
1 -TATATAGTTTATATA-ATAAA
78559 TATATAGTTTATATA
1 TATATAGTTTATATA
78574 GTTTATATAT
Statistics
Matches: 115, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
20 32 0.28
21 21 0.18
22 59 0.51
23 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (20 bp):
TATATAGTTTATATAATAAA
Found at i:78457 original size:20 final size:20
Alignment explanation
Indices: 78410--78597 Score: 96
Period size: 22 Copynumber: 8.8 Consensus size: 20
78400 AACTATAGTT
*
78410 TATATAGTTTATA-TTAATAAA
1 TATATAGTTTATACATAAT--A
*
78431 CTATATAGTTTATACATAGTA
1 -TATATAGTTTATACATAATA
*
78452 TATATAATTTATACATAATA
1 TATATAGTTTATACATAATA
*
78472 TATATAGTTTATA-TTAATAAA
1 TATATAGTTTATACATAAT--A
* *
78493 TTATATAGTTTTTATAT-ATA
1 -TATATAGTTTATACATAATA
* *
78513 GTTCATATAATTTATA-TTAATAAA
1 --T-ATATAGTTTATACATAAT--A
* *
78537 CTATATAGTTCATATATATATA
1 -TATATAGTTTATACATA-ATA
* *
78559 TATATAGTTTATATAGTTTATA
1 TATATAGTTTATACA--TAATA
*
78581 TATATAGTATATACATA
1 TATATAGTTTATACATA
78598 TAGTTTATAT
Statistics
Matches: 132, Mismatches: 20, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.03
20 32 0.24
21 19 0.14
22 66 0.50
23 8 0.06
24 3 0.02
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (20 bp):
TATATAGTTTATACATAATA
Found at i:78485 original size:13 final size:13
Alignment explanation
Indices: 78469--78704 Score: 147
Period size: 13 Copynumber: 18.2 Consensus size: 13
78459 TTTATACATA
78469 ATATATATAGTTT
1 ATATATATAGTTT
**
78482 ATAT-TA-A-TAA
1 ATATATATAGTTT
78492 AT-TATATAGTTT
1 ATATATATAGTTT
*
78504 TTATATATAGTTCAT
1 ATATATATAGTT--T
*
78519 ATAATTTATA-TTAAT
1 AT-ATATATAGTT--T
*
78534 AAACTATATAGTTCAT
1 ATA-TATATAGTT--T
78550 ATATATATA-TATAT
1 ATATATATAGT-T-T
*
78564 AGTTTATATAGTTT
1 A-TATATATAGTTT
*
78578 ATATATATAGTAT
1 ATATATATAGTTT
*
78591 ATACATATAGTTT
1 ATATATATAGTTT
78604 ATATATATAG--T
1 ATATATATAGTTT
*
78615 -T-TATATAGATT
1 ATATATATAGTTT
78626 ATA-ATATAGTTT
1 ATATATATAGTTT
*
78638 ATATACATAGTTT
1 ATATATATAGTTT
*
78651 ATATATATA-TAT
1 ATATATATAGTTT
78663 ATATATATAGTTT
1 ATATATATAGTTT
*
78676 ACAT-TAATAGTTT
1 ATATAT-ATAGTTT
* *
78689 AAATATGTAGTTT
1 ATATATATAGTTT
78702 ATA
1 ATA
78705 CACAACAACA
Statistics
Matches: 176, Mismatches: 27, Indels: 40
0.72 0.11 0.16
Matches are distributed among these distances:
9 8 0.05
10 6 0.03
11 4 0.02
12 28 0.16
13 82 0.47
14 8 0.05
15 27 0.15
16 13 0.07
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (13 bp):
ATATATATAGTTT
Found at i:78521 original size:44 final size:43
Alignment explanation
Indices: 78452--78572 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 43
78442 ATACATAGTA
* * * *
78452 TATATAATTTATACATA-ATATATATAGTTTATATTAATAAAT
1 TATATAGTTCATATATATATATATATAGTTTATATTAATAAAC
** *
78494 TATATAGTTTTTATATATAGT-TCATATAATTTATATTAATAAAC
1 TATATAGTTCATATATATA-TAT-ATATAGTTTATATTAATAAAC
78538 TATATAGTTCATATATATATATATATAGTTTATAT
1 TATATAGTTCATATATATATATATATAGTTTATAT
78573 AGTTTATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
42 14 0.21
43 15 0.22
44 38 0.57
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (43 bp):
TATATAGTTCATATATATATATATATAGTTTATATTAATAAAC
Found at i:78553 original size:2 final size:2
Alignment explanation
Indices: 78548--78671 Score: 90
Period size: 2 Copynumber: 59.5 Consensus size: 2
78538 TATATAGTTC
* *
78548 AT AT AT AT AT AT AT AT AGT TT AT AT AGT TT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT A-T AT
* * * *
78591 AT AC AT AT AGT TT AT AT AT AT AGT TT AT AT AG AT -T AT A- AT AT
1 AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * *
78633 AGT TT AT AT AC AT AGT TT AT AT AT AT AT AT AT AT AT AT A
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A
78672 GTTTACATTA
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
1 2 0.02
2 85 0.89
3 8 0.08
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78571 original size:9 final size:9
Alignment explanation
Indices: 78559--78642 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
78549 TATATATATA
78559 TATATAGTT
1 TATATAGTT
78568 TATATAGTT
1 TATATAGTT
*
78577 TATATA-TA
1 TATATAGTT
*
78585 TAGTATA-TA
1 TA-TATAGTT
*
78594 CATATAG-T
1 TATATAGTT
78602 T-TATA---
1 TATATAGTT
78607 TATATAGTT
1 TATATAGTT
78616 TATATAGATT
1 TATATAG-TT
78626 ATAATATAGTT
1 -T-ATATAGTT
78637 TATATA
1 TATATA
78643 CATAGTTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
5 1 0.02
6 4 0.06
7 4 0.06
8 7 0.11
9 34 0.55
10 3 0.05
11 3 0.05
12 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.50
Consensus pattern (9 bp):
TATATAGTT
Found at i:79192 original size:2 final size:2
Alignment explanation
Indices: 79187--79297 Score: 53
Period size: 2 Copynumber: 51.5 Consensus size: 2
79177 TTATATAGGT
* * *
79187 TA TA TA TA TA TA TA TA TA GTT TA TA TA GTT TA TA TA TA TA GCA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
79230 TA TA TA GTT TA TA TA TA TA GCA TA TA TA GTT TA TA TA GT- TA TT
1 TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA TA
* *
79273 TCA TA TG TA AA CTA TA TA TA TA TA T
1 T-A TA TA TA TA -TA TA TA TA TA TA T
79298 TATGAAGATA
Statistics
Matches: 81, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
1 1 0.01
2 71 0.88
3 9 0.11
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:79223 original size:22 final size:22
Alignment explanation
Indices: 79170--79266 Score: 135
Period size: 22 Copynumber: 4.5 Consensus size: 22
79160 ATATAAAAAG
**
79170 TAGTTTAT-TATATAGGTTATA
1 TAGTTTATATATATAGCATATA
* **
79191 TA-TATATATATATAGTTTATA
1 TAGTTTATATATATAGCATATA
79212 TAGTTTATATATATAGCATATA
1 TAGTTTATATATATAGCATATA
79234 TAGTTTATATATATAGCATATA
1 TAGTTTATATATATAGCATATA
79256 TAGTTTATATA
1 TAGTTTATATA
79267 GTTATTTCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
20 4 0.06
21 16 0.23
22 49 0.71
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TAGTTTATATATATAGCATATA
Found at i:79586 original size:2 final size:2
Alignment explanation
Indices: 79579--79880 Score: 113
Period size: 2 Copynumber: 148.0 Consensus size: 2
79569 CTATAAAGTT
* * *
79579 TA TA TA TA TA GTA TT TA GTT TA TA TA TA AA T- TA TA TA -A TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * *
79621 TA AA TA GTT TA TA CA TA -A TA TA AA AA AA TA GA CTA TA TA GTT
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
*
79663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
79705 TA TG TA AA CTA TA TA TA CTA TA AA CTA TA TA GA AA CTA TA TA -A
1 TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * *
79748 TA TA TA AA CTA TG TA -A TT TA TA TT TA TA TA TA TA TA TGA -A CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA
* * * * *
79791 TA TA T- TA TG TA TA AA T- TA TA TA TA CTA TG TA TA -A AA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
79831 TA GTT TA TA TA TA GTA TA TA AA TA TA AA CTA TA TA TA TA TA TA
1 TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
79874 TA T- TA TA
1 TA TA TA TA
79881 ATTGTTTCAA
Statistics
Matches: 220, Mismatches: 52, Indels: 56
0.67 0.16 0.17
Matches are distributed among these distances:
1 11 0.05
2 188 0.85
3 21 0.10
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:79613 original size:7 final size:8
Alignment explanation
Indices: 79600--79755 Score: 52
Period size: 9 Copynumber: 18.1 Consensus size: 8
79590 TATTTAGTTT
79600 ATATATAA
1 ATATATAA
79608 AT-TATATA
1 ATATATA-A
79616 ATATATAA
1 ATATATAA
*
79624 ATAGTTTATAC
1 ATA---TATAA
79635 ATAATATAA
1 AT-ATATAA
* *
79644 AAAAATAGA
1 ATATATA-A
* *
79653 CTATATAGT
1 ATATATA-A
*
79662 TTATATATA
1 ATATATA-A
*
79671 TATATATAT
1 -ATATATAA
*
79680 ATATATAT
1 ATATATAA
79688 ATATATAA
1 ATATATAA
79696 ACTATAT-A
1 A-TATATAA
*
79704 ATATGTAA
1 ATATATAA
79712 ACTATAT--
1 A-TATATAA
79719 ATACTATAA
1 ATA-TATAA
79728 ACTATATAGA
1 A-TATATA-A
79738 A-ACTATATA
1 ATA-TATA-A
79747 ATATATAA
1 ATATATAA
79755 A
1 A
79756 CTATGTAATT
Statistics
Matches: 113, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
6 2 0.02
7 12 0.11
8 36 0.32
9 45 0.40
10 11 0.10
11 6 0.05
12 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.39
Consensus pattern (8 bp):
ATATATAA
Found at i:79734 original size:43 final size:41
Alignment explanation
Indices: 79664--79759 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 41
79654 TATATAGTTT
* * *
79664 ATATATATA-TATATATATATATATATATATAAACTATATA
1 ATATATAAACTATATATATATAAATATATAGAAACTATATA
*
79704 ATATGTAAACTATATATACTATAAACTATATAGAAACTATATA
1 ATATATAAACTATATATA-TATAAA-TATATAGAAACTATATA
79747 ATATATAAACTAT
1 ATATATAAACTAT
79760 GTAATTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 7 0.15
41 8 0.17
42 5 0.10
43 28 0.58
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (41 bp):
ATATATAAACTATATATATATAAATATATAGAAACTATATA
Found at i:85293 original size:37 final size:37
Alignment explanation
Indices: 85245--85321 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
85235 ATTTCGACCA
* * *
85245 ACCTGACCCGACCCAAAAAATTTATATCCTTCACCCG
1 ACCTGACCCGACCCAAAAAATATATACCCTCCACCCG
* *
85282 ACCTGACCCGACTCGAAAAATATATACCCTCCACCCG
1 ACCTGACCCGACCCAAAAAATATATACCCTCCACCCG
85319 ACC
1 ACC
85322 CGAACTCGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.40, G:0.09, T:0.18
Consensus pattern (37 bp):
ACCTGACCCGACCCAAAAAATATATACCCTCCACCCG
Found at i:87635 original size:37 final size:37
Alignment explanation
Indices: 87580--87655 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
87570 AGTTATATTA
*
87580 TTCGTAAGATCCCAACCAGCACACCTGTATGTCAGAT
1 TTCGCAAGATCCCAACCAGCACACCTGTATGTCAGAT
*
87617 TTCGCAAGATCCCAACCAGCACTCCTGTATGTCAGAT
1 TTCGCAAGATCCCAACCAGCACACCTGTATGTCAGAT
87654 TT
1 TT
87656 AGTTAGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (37 bp):
TTCGCAAGATCCCAACCAGCACACCTGTATGTCAGAT
Found at i:95527 original size:3 final size:3
Alignment explanation
Indices: 95519--95576 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
95509 AAATAGACTC
95519 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95567 AAT AAT AAT A
1 AAT AAT AAT A
95577 TAGACAGATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:95608 original size:4 final size:4
Alignment explanation
Indices: 95576--95709 Score: 85
Period size: 4 Copynumber: 33.0 Consensus size: 4
95566 TAATAATAAT
* * * * *
95576 ATAG ACAG ATAG GTAG ATAG GTAG GTAG ATAG ATAG ATAG ATAA ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* * * *
95624 ATAG ATAG ATAG ATAG GTCG GTA- AGTAG ATA- AGTAG ATAG GTA- AGTAG
1 ATAG ATAG ATAG ATAG ATAG ATAG A-TAG ATAG A-TAG ATAG ATAG A-TAG
* * * *
95672 GTAAG TTTAG ATAA ATAG ATAG ATGG ATAG ATAG ATAG
1 AT-AG -ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
95710 TGTGAAATTA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
3 1 0.01
4 93 0.92
5 6 0.06
6 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:99920 original size:20 final size:21
Alignment explanation
Indices: 99884--99926 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
99874 ATCTATTCAC
*
99884 TTTTATAATATGTTATTTTAT
1 TTTTATAATATGTTATTATAT
99905 TTTTAT-ATAT-TATATTATAT
1 TTTTATAATATGT-TATTATAT
99925 TT
1 TT
99927 GTTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.65
21 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATAATATGTTATTATAT
Found at i:105261 original size:20 final size:20
Alignment explanation
Indices: 105236--105277 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
105226 TAAGAATTTG
105236 TATTGAAATGTTAAGACCTT
1 TATTGAAATGTTAAGACCTT
*
105256 TATTGAAATGTTAGGACCTT
1 TATTGAAATGTTAAGACCTT
105276 TA
1 TA
105278 AATGAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (20 bp):
TATTGAAATGTTAAGACCTT
Found at i:105285 original size:21 final size:20
Alignment explanation
Indices: 105239--105286 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
105229 GAATTTGTAT
*
105239 TGAAATGTTAAGACCTTTAT
1 TGAAATGTTAAGACCTTTAA
*
105259 TGAAATGTTAGGACCTTTAAA
1 TGAAATGTTAAGACCTTT-AA
105280 TGAAATG
1 TGAAATG
105287 ACTTAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (20 bp):
TGAAATGTTAAGACCTTTAA
Found at i:105854 original size:24 final size:23
Alignment explanation
Indices: 105804--105854 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
105794 TTAGGCATGA
* *
105804 TTTAAAAAAATTAAAGTTTAAAT
1 TTTAAAAAAATTAAAATTTAAAG
* *
105827 TTTAAAACTAATTAAAATTTATAG
1 TTTAAAA-AAATTAAAATTTAAAG
105851 TTTA
1 TTTA
105855 TGTACTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
TTTAAAAAAATTAAAATTTAAAG
Found at i:111034 original size:32 final size:31
Alignment explanation
Indices: 110995--111073 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
110985 TTCGGAGCCA
* *
110995 CAGGGCCTACCTAAGAACACATCTTAGGGTCG
1 CAGGGCCTACCTAAGAA-ACATCTCAGGGCCG
** **
111027 CAGGGCCTACCCGAGAATGATCTCAGGGCCG
1 CAGGGCCTACCTAAGAAACATCTCAGGGCCG
*
111058 CAGAGCCTACCTAAGA
1 CAGGGCCTACCTAAGA
111074 GTCACATTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 23 0.61
32 15 0.39
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (31 bp):
CAGGGCCTACCTAAGAAACATCTCAGGGCCG
Found at i:114063 original size:29 final size:29
Alignment explanation
Indices: 114021--114076 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
114011 TCCCGGGGGT
*
114021 AGGTCGCCATGCACGCTCAGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
114050 AGGTCGCCATGCACGCCCAGCGACCTA
1 AGGTCGCCATGCACGCCCAGCGACCTA
114077 GGTAGGTCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.41, G:0.25, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:114313 original size:42 final size:42
Alignment explanation
Indices: 114266--114353 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
114256 CATGGCGGCT
*
114266 TGGCAACGTGGCATGGGTCTGGGTGAGGTTGGAGTCTCTGCA
1 TGGCAACGTGGCATGGGTCTGGGCGAGGTTGGAGTCTCTGCA
114308 TGGCAACGTGGCATGGGTCTGGGCGAGGTTGGAGTCTCTGCA
1 TGGCAACGTGGCATGGGTCTGGGCGAGGTTGGAGTCTCTGCA
114350 TGGC
1 TGGC
114354 TGTGCATGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.14, C:0.18, G:0.43, T:0.25
Consensus pattern (42 bp):
TGGCAACGTGGCATGGGTCTGGGCGAGGTTGGAGTCTCTGCA
Found at i:114411 original size:29 final size:28
Alignment explanation
Indices: 114378--114461 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
114368 TGCACCGTGG
114378 GTAGGTCGCCAGGGAATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
114407 GTAGGTCGCCAGGGCATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
* *
114436 GTAGGTCACCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAGCGAC
114462 CTATGCCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAGCGACATT
Found at i:114544 original size:12 final size:11
Alignment explanation
Indices: 114524--114559 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
114514 GAAATCAGCT
114524 GCATTATTGCA
1 GCATTATTGCA
*
114535 GCACTTATTGCT
1 GCA-TTATTGCA
114547 GCATTATTGCA
1 GCATTATTGCA
114558 GC
1 GC
114560 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:114903 original size:28 final size:27
Alignment explanation
Indices: 114864--114916 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
114854 TATATTAAAA
114864 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
114892 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
114917 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:114922 original size:27 final size:29
Alignment explanation
Indices: 114863--114927 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
114853 ATATATTAAA
114863 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
114892 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
114918 AAATAGTTAA
1 AAATAATTAA
114928 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:115066 original size:18 final size:18
Alignment explanation
Indices: 115043--115097 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
115033 AATAATTATT
115043 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
115061 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
115073 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
115090 TAAATTAG
1 TAAATTAG
115098 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:115150 original size:21 final size:21
Alignment explanation
Indices: 115125--115164 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
115115 GTTAATTAGT
115125 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
115146 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
115165 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:115411 original size:30 final size:30
Alignment explanation
Indices: 115343--115446 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
115333 ATTAGTTAAT
* *
115343 TAGTTTTTTAGTAGTAAATTATAATTAAA-AA
1 TAGTTTATTAGT-TTAAATTAT-ATTAAAGAA
*
115374 TTA-TTTATTAGTTTAATTTATATTAAAGAA
1 -TAGTTTATTAGTTTAAATTATATTAAAGAA
*
115404 TAGTTTATTAG-TTAACGTTATATTAAAGAA
1 TAGTTTATTAGTTTAA-ATTATATTAAAGAA
115434 TAGTTTATTAGTT
1 TAGTTTATTAGTT
115447 GTTTAAGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
29 12 0.19
30 41 0.64
31 9 0.14
32 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATATTAAAGAA
Found at i:117777 original size:14 final size:14
Alignment explanation
Indices: 117758--117805 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
117748 TTCAAGTCGT
117758 AAATCATTACTATC
1 AAATCATTACTATC
117772 AAATCATTAC--T-
1 AAATCATTACTATC
*
117783 AAATCATTAATATC
1 AAATCATTACTATC
117797 AAATCATTA
1 AAATCATTA
117806 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:117785 original size:25 final size:25
Alignment explanation
Indices: 117757--117805 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
117747 GTTCAAGTCG
*
117757 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
117782 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
117806 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:117840 original size:60 final size:60
Alignment explanation
Indices: 117773--118146 Score: 619
Period size: 60 Copynumber: 6.2 Consensus size: 60
117763 ATTACTATCA
* *
117773 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
117833 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* * *
117892 AATCATTACTAAATCATTATTATCAAATCATTAAAAATTATTAATGATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
117952 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
***
118012 AATCATTACTAAATCATTACTATCAAATCATGGTAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
118072 AATCATTACT--ATCAAATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
1 AATCATTACTAAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
118132 AATCATTACTAAATC
1 AATCATTACTAAATC
118147 TTATAAATAC
Statistics
Matches: 293, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
58 3 0.01
59 57 0.19
60 230 0.78
62 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:117842 original size:10 final size:10
Alignment explanation
Indices: 117827--117853 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
117817 TAATTTCATT
117827 ATTACTAATC
1 ATTACTAATC
117837 ATTACTAATC
1 ATTACTAATC
117847 ATTACTA
1 ATTACTA
117854 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:117908 original size:11 final size:11
Alignment explanation
Indices: 117886--118033 Score: 50
Period size: 11 Copynumber: 12.6 Consensus size: 11
117876 TAATTTCATT
117886 ATTACT-AATC
1 ATTACTAAATC
117896 ATTACTAAATC
1 ATTACTAAATC
*
117907 ATTATTATCAAATC
1 ATTA--CT-AAATC
* *
117921 ATTA-AAAATT
1 ATTACTAAATC
* **
117931 ATTAATGATTTC
1 ATTACT-AAATC
*
117943 ATTATTACTAATC
1 ATTACTA--AATC
117956 ATTACTAAATC
1 ATTACTAAATC
117967 ATTACTATCAAATC
1 ATTAC--T-AAATC
* *
117981 ATTA-AAAATT
1 ATTACTAAATC
* * *
117991 AATAATAATTTC
1 ATTACTAA-ATC
*
118003 ATTATTACTAATC
1 ATTACTA--AATC
118016 ATTACTAAATC
1 ATTACTAAATC
118027 ATTACTA
1 ATTACTA
118034 TCAAATCATG
Statistics
Matches: 102, Mismatches: 21, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
10 21 0.21
11 31 0.30
12 13 0.13
13 18 0.18
14 19 0.19
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTACTAAATC
Found at i:117972 original size:21 final size:21
Alignment explanation
Indices: 117946--118033 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
117936 TGATTTCATT
117946 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
117967 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTACTAAATC
* * * *
117988 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
118006 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
118027 ATTACTA
1 ATTACTA
118034 TCAAATCATG
Statistics
Matches: 48, Mismatches: 12, Indels: 14
0.65 0.16 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.25
20 6 0.12
21 20 0.42
22 9 0.19
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:121251 original size:28 final size:28
Alignment explanation
Indices: 121217--121270 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
121207 ATAATCTAAT
*
121217 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
121245 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
121271 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:121277 original size:28 final size:28
Alignment explanation
Indices: 121213--121277 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
121203 TTATATAATC
*
121213 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
121241 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
121269 TAATTTATA
1 TAATATATA
121278 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:121280 original size:21 final size:21
Alignment explanation
Indices: 121247--121295 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
121237 TTAATATAAT
121247 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
121268 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
121289 ATTAACT
1 A-TAACT
121296 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:121989 original size:29 final size:29
Alignment explanation
Indices: 121939--122024 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
121929 CATGCTCTAT
* * *
121939 AAGGTCGCCGGGATTGTTTGGCGACCTAC
1 AAGGTCGCTGGGAGTGCTTGGCGACCTAC
* **
121968 AAGGTCGCTGGGAGTGCATGGCGACCTTG
1 AAGGTCGCTGGGAGTGCTTGGCGACCTAC
* *
121997 TAGGTCGCTTGGAGTGCTTGGCGACCTA
1 AAGGTCGCTGGGAGTGCTTGGCGACCTA
122025 TGGTTGGGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.24
Consensus pattern (29 bp):
AAGGTCGCTGGGAGTGCTTGGCGACCTAC
Found at i:136710 original size:2 final size:2
Alignment explanation
Indices: 136698--136733 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
136688 TAGTTTACCC
136698 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
136734 TATTTTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:139745 original size:2 final size:2
Alignment explanation
Indices: 139738--139778 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
139728 GAAGGTTTGC
139738 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
139779 AAGAGGTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:143555 original size:22 final size:22
Alignment explanation
Indices: 143523--143566 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
143513 TTGTTGGGGG
*
143523 TTTAAATTAGATAAATGCATGC
1 TTTAAACTAGATAAATGCATGC
*
143545 TTTAAACTAGATAAATTCATGC
1 TTTAAACTAGATAAATGCATGC
143567 ATATAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
TTTAAACTAGATAAATGCATGC
Found at i:143915 original size:31 final size:31
Alignment explanation
Indices: 143880--143957 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
143870 TTAAAAAACA
*
143880 TAAGTTTTGGTCACTTACGTTATCGTTTTAT
1 TAAGTTTTGGTCACTTACGCTATCGTTTTAT
* * *
143911 TAAGTTATGATCACTTACGCTATTGTTTTAT
1 TAAGTTTTGGTCACTTACGCTATCGTTTTAT
*
143942 TAATTTTTGGTCACTT
1 TAAGTTTTGGTCACTT
143958 GGACGTTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.51
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACGCTATCGTTTTAT
Found at i:148304 original size:13 final size:13
Alignment explanation
Indices: 148286--148310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148276 TTTTATTTTT
148286 TAAAAAATAAAAA
1 TAAAAAATAAAAA
148299 TAAAAAATAAAA
1 TAAAAAATAAAA
148311 CGATAGACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:148688 original size:2 final size:2
Alignment explanation
Indices: 148681--148728 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
148671 CGACCCGACA
148681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
148723 AT AT AT
1 AT AT AT
148729 GAAAAATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:152243 original size:6 final size:7
Alignment explanation
Indices: 152218--152242 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
152208 GAAATATCCG
152218 AAAAATT
1 AAAAATT
152225 AAAAATT
1 AAAAATT
152232 AAAAATT
1 AAAAATT
152239 AAAA
1 AAAA
152243 TGATATTATT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:156280 original size:31 final size:31
Alignment explanation
Indices: 156245--156316 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
156235 ATACAAAATG
* *
156245 ACCCTTGAATTTTACAAATTTGGTCAAATTA
1 ACCCTTGAATTTAACAAACTTGGTCAAATTA
*
156276 ACCCTTGAATTTAATAAACTTGGTCAAATTA
1 ACCCTTGAATTTAACAAACTTGGTCAAATTA
*
156307 ACCCCTGAAT
1 ACCCTTGAAT
156317 ATTGTTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (31 bp):
ACCCTTGAATTTAACAAACTTGGTCAAATTA
Found at i:158476 original size:4 final size:4
Alignment explanation
Indices: 158469--158594 Score: 252
Period size: 4 Copynumber: 31.5 Consensus size: 4
158459 TACATACATT
158469 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
158517 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
158565 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
158595 CATGCTTGCA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 122 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:159567 original size:35 final size:35
Alignment explanation
Indices: 159521--159594 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
159511 TCATTTATAT
*
159521 TCTACTTACACATGTGAAGAAGAAAATGAAAAATA
1 TCTACTTACACATGTGAAAAAGAAAATGAAAAATA
159556 TCTACTTACACATGTGAAAAAGAAAATGAAAAATA
1 TCTACTTACACATGTGAAAAAGAAAATGAAAAATA
159591 TCTA
1 TCTA
159595 TGTATAACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (35 bp):
TCTACTTACACATGTGAAAAAGAAAATGAAAAATA
Found at i:164176 original size:17 final size:17
Alignment explanation
Indices: 164154--164209 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
164144 AATTACCATG
*
164154 TGCACAAGTTGGCCACT
1 TGCACAACTTGGCCACT
* *
164171 TGCACAACTTGTCAACT
1 TGCACAACTTGGCCACT
*
164188 TGCCCCAACTTGGCCACT
1 TG-CACAACTTGGCCACT
164206 TGCA
1 TGCA
164210 AGCCACTTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (17 bp):
TGCACAACTTGGCCACT
Found at i:164206 original size:18 final size:18
Alignment explanation
Indices: 164156--164208 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
164146 TTACCATGTG
*
164156 CACAAGTTGGCCACTTG-
1 CACAACTTGGCCACTTGC
* *
164173 CACAACTTGTCAACTTGC
1 CACAACTTGGCCACTTGC
*
164191 CCCAACTTGGCCACTTGC
1 CACAACTTGGCCACTTGC
164209 AAGCCACTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.25
Consensus pattern (18 bp):
CACAACTTGGCCACTTGC
Found at i:164216 original size:11 final size:11
Alignment explanation
Indices: 164200--164224 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
164190 CCCCAACTTG
164200 GCCACTTGCAA
1 GCCACTTGCAA
164211 GCCACTTGCAA
1 GCCACTTGCAA
164222 GCC
1 GCC
164225 TTCAACTTGC
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:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (11 bp):
GCCACTTGCAA
Found at i:169017 original size:196 final size:198
Alignment explanation
Indices: 168683--169076 Score: 652
Period size: 196 Copynumber: 2.0 Consensus size: 198
168673 ACAACAAATG
*
168683 TGTTGAGTTAATCGATCGATGAATATGGCCAAGAGGGGGTGAATTGGCAAATAAAAATTCCGGTG
1 TGTTGAGTTAATCGATCGAGGAATATGGCCAAGAGGGGGTGAATTGGCAAATAAAAATTCCGGTG
* *
168748 GAAGCTTATGTAGAAAATTGAAAGTAATTGCTCAGCGATTTAGAGTGGTTCGACTTTCTCAACCA
66 GAAGCTTATGCAGAAAATTGAAAGTAATTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAACCA
* *
168813 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCC-ACAAATTCACTAATTTG-TC
131 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAAAAAATTCACTAATTTGTTC
168876 TTT
196 TTT
* * *
168879 TGTTGAGTTAATCGATTGACGGAAT-TGGCCAAGAGGGGGGTGAATTGGCAATTAAAAATT-TGG
1 TGTTGAGTTAATCGATCGA-GGAATATGGCCAAGA-GGGGGTGAATTGGCAAATAAAAATTCCGG
* *
168942 TGGAAGCTTTTGCAGAAAATTGAAAGTAATTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAAT
64 TGGAAGCTTATGCAGAAAATTGAAAGTAATTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAAC
169007 CAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAAAAAATTCACTAATTTGT
129 CAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAAAAAATTCACTAATTTGT
169072 TCTTT
194 TCTTT
169077 CTTTTGAGGC
Statistics
Matches: 184, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
196 135 0.73
197 44 0.24
198 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (198 bp):
TGTTGAGTTAATCGATCGAGGAATATGGCCAAGAGGGGGTGAATTGGCAAATAAAAATTCCGGTG
GAAGCTTATGCAGAAAATTGAAAGTAATTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAACCA
AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAAAAAATTCACTAATTTGTTC
TTT
Found at i:171903 original size:23 final size:24
Alignment explanation
Indices: 171872--171919 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
171862 CGATTCCCTC
171872 AAGGAGGGAATCAGTTCCCATTCA
1 AAGGAGGGAATCAGTTCCCATTCA
* *
171896 AAGG-GGGAATCGGTTCCCCTTCA
1 AAGGAGGGAATCAGTTCCCATTCA
171919 A
1 A
171920 GGGTATCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (24 bp):
AAGGAGGGAATCAGTTCCCATTCA
Found at i:178484 original size:13 final size:14
Alignment explanation
Indices: 178460--178489 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
178450 TTTAGTAATT
178460 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
178474 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
178487 TTA
1 TTA
178490 CTCCCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:184584 original size:22 final size:21
Alignment explanation
Indices: 184542--184581 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
184532 GAGATTATTT
*
184542 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
184563 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
184582 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:191776 original size:336 final size:336
Alignment explanation
Indices: 191163--191837 Score: 1287
Period size: 336 Copynumber: 2.0 Consensus size: 336
191153 GTGAAATGGA
191163 TGTCATTTGTCTTATGGAGTCTAGGATTAGAAGAGATAATTCTGCTAAATTCTCTTTTGTTCTTT
1 TGTCATTTGTCTTATGGAGTCTAGGATTAGAAGAGATAATTCTGCTAAATTCTCTTTTGTTCTTT
191228 TTGTTGACTGAAATCTGGTTGAAAACTATAATTGTGTGGAAGGGGGAAGATTGTGGATTCTTTGA
66 TTGTTGACTGAAATCTGGTTGAAAACTATAATTGTGTGGAAGGGGGAAGATTGTGGATTCTTTGA
*
191293 AAGAAGCAGCTGTCATTTGCTATTTTGAAAAGATGTGACCAGACCATTTCTATTATTGGAATCAT
131 AAGAAGCAGATGTCATTTGCTATTTTGAAAAGATGTGACCAGACCATTTCTATTATTGGAATCAT
191358 TGATGGGCATAGAACACGAATTACTGTTGTTTATGGAAGCAATAATGATGCTACTAGAAGAGGTC
196 TGATGGGCATAGAACACGAATTACTGTTGTTTATGGAAGCAATAATGATGCTACTAGAAGAGGTC
*
191423 TTTGGGAGCATTTGAGGATTGTAGAGAATGATCTTGGTTCCTCCCTTTGGGTGATTAGTGGGGAC
261 TTTGGGAGCATTTGAGGATTGTAGAGAATGATCTTGGTTCCTCCCTTTAGGTGATTAGTGGGGAC
191488 TTCAATATCAT
326 TTCAATATCAT
191499 TGTCATTTGTCTTATGGAGTCTAGGATTAGAAGAGATAATTCTGCTAAATTCTCTTTTGTTCTTT
1 TGTCATTTGTCTTATGGAGTCTAGGATTAGAAGAGATAATTCTGCTAAATTCTCTTTTGTTCTTT
*
191564 TTGTTGACTGAAATCTGGTTGAAAACTATAATTGTGTGGAAGGGGGAAGATTGTGGATTCTTTGG
66 TTGTTGACTGAAATCTGGTTGAAAACTATAATTGTGTGGAAGGGGGAAGATTGTGGATTCTTTGA
*
191629 AAGAAGCATATGTCATTTGCTATTTTGAAAAGATGTGACCAGACCATTTCTATTATTGGAATCAT
131 AAGAAGCAGATGTCATTTGCTATTTTGAAAAGATGTGACCAGACCATTTCTATTATTGGAATCAT
* *
191694 TGATGGGCATAGAACACGAATTATTGTTGTTTATGGAAGCAATAATGGTGCTACTAGAAGAGGTC
196 TGATGGGCATAGAACACGAATTACTGTTGTTTATGGAAGCAATAATGATGCTACTAGAAGAGGTC
*
191759 TTTGGGAGCATTTGAGGATTGTAGAGAATGATCTTGGTTCCTCCCTTTAGGTGATTGGTGGGGAC
261 TTTGGGAGCATTTGAGGATTGTAGAGAATGATCTTGGTTCCTCCCTTTAGGTGATTAGTGGGGAC
191824 TTCAATATCAT
326 TTCAATATCAT
191835 TGT
1 TGT
191838 TAGAGTAGAG
Statistics
Matches: 332, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
336 332 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (336 bp):
TGTCATTTGTCTTATGGAGTCTAGGATTAGAAGAGATAATTCTGCTAAATTCTCTTTTGTTCTTT
TTGTTGACTGAAATCTGGTTGAAAACTATAATTGTGTGGAAGGGGGAAGATTGTGGATTCTTTGA
AAGAAGCAGATGTCATTTGCTATTTTGAAAAGATGTGACCAGACCATTTCTATTATTGGAATCAT
TGATGGGCATAGAACACGAATTACTGTTGTTTATGGAAGCAATAATGATGCTACTAGAAGAGGTC
TTTGGGAGCATTTGAGGATTGTAGAGAATGATCTTGGTTCCTCCCTTTAGGTGATTAGTGGGGAC
TTCAATATCAT
Found at i:197021 original size:2 final size:2
Alignment explanation
Indices: 196962--197003 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
196952 TATCCACGAG
*
196962 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
197004 CACACAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:205631 original size:2 final size:2
Alignment explanation
Indices: 205624--205669 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
205614 TATGAAAAGA
205624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
205666 AT AT
1 AT AT
205670 CTTAGAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:206716 original size:18 final size:18
Alignment explanation
Indices: 206682--206733 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
206672 CAAAGACACC
*
206682 CTTCTTCTCTT-TATTTCT
1 CTTCTTCT-TTCTTTTTCT
206700 CTTCTTCTTTCTTTTTCT
1 CTTCTTCTTTCTTTTTCT
*
206718 TTTCTATCTTTCTTTT
1 CTTCT-TCTTTCTTTT
206734 ATAGAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 18 0.60
19 10 0.33
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTCTTCTTTCTTTTTCT
Found at i:207397 original size:20 final size:22
Alignment explanation
Indices: 207361--207408 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
207351 AATAAATCCC
207361 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
* *
207383 TATTTTT-TT-AATAAATATAT
1 TATTTTTATTGAATAAAAATAA
207403 TATTTT
1 TATTTT
207409 GAATCGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 2 0.08
22 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:210620 original size:9 final size:9
Alignment explanation
Indices: 210572--210626 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
210562 CTTGTATTAA
210572 ATATTAAAT
1 ATATTAAAT
*
210581 ATAATAAA-
1 ATATTAAAT
210589 ATTATTAAAT
1 A-TATTAAAT
* *
210599 AGATCAAAT
1 ATATTAAAT
210608 ATATTAAAT
1 ATATTAAAT
*
210617 ATATCAAAT
1 ATATTAAAT
210626 A
1 A
210627 CTTTGTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
ATATTAAAT
Found at i:210622 original size:18 final size:18
Alignment explanation
Indices: 210572--210626 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
210562 CTTGTATTAA
*
210572 ATATTAAATATAATAAAAT
1 ATATTAAATAT-ATCAAAT
*
210591 -TATTAAATAGATCAAAT
1 ATATTAAATATATCAAAT
210608 ATATTAAATATATCAAAT
1 ATATTAAATATATCAAAT
210626 A
1 A
210627 CTTTGTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (18 bp):
ATATTAAATATATCAAAT
Found at i:217691 original size:29 final size:28
Alignment explanation
Indices: 217648--217702 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
217638 TACTTACGAA
217648 AATTATTTAAATATA-ACTTTAATATACT
1 AATTATTTAAATATATA-TTTAATATACT
*
217676 AATTATATTAATTATATATTTAATATA
1 AATTAT-TTAAATATATATTTAATATA
217703 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 17 0.71
30 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTATTTAAATATATATTTAATATACT
Found at i:218007 original size:18 final size:18
Alignment explanation
Indices: 217986--218023 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
217976 GAACCAAACA
217986 CACTCTTAATACCATACG
1 CACTCTTAATACCATACG
218004 CACTCTTAATACCATACG
1 CACTCTTAATACCATACG
218022 CA
1 CA
218024 GTGTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.26
Consensus pattern (18 bp):
CACTCTTAATACCATACG
Found at i:228591 original size:22 final size:23
Alignment explanation
Indices: 228565--228609 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
228555 TTAATTTTTA
228565 AATTCCATA-AAATATAATAAAT
1 AATTCCATATAAATATAATAAAT
* * *
228587 AATTCTATATAATTCTAATAAAT
1 AATTCCATATAAATATAATAAAT
228610 TAAATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTCCATATAAATATAATAAAT
Found at i:228701 original size:2 final size:2
Alignment explanation
Indices: 228694--228725 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
228684 TAATATTATG
228694 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
228726 AATAATTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:236552 original size:35 final size:34
Alignment explanation
Indices: 236467--236553 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
236457 AAAATAATTT
* *
236467 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
236501 TAAATAATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
236539 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
236554 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:237184 original size:18 final size:18
Alignment explanation
Indices: 237150--237184 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
237140 AAAGGAGACG
*
237150 GCATCATATATGACTGCA
1 GCATCATAAATGACTGCA
*
237168 GCATCATAAATGGCTGC
1 GCATCATAAATGACTGC
237185 GGTGGCTCTT
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:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (18 bp):
GCATCATAAATGACTGCA
Found at i:238968 original size:117 final size:117
Alignment explanation
Indices: 238798--239089 Score: 444
Period size: 117 Copynumber: 2.5 Consensus size: 117
238788 TTTCCCGAAA
**
238798 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGCAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* * * * *
238862 TAACGTCTCCATCCAGTCGCT-TTCATCACTACAATGTGTAGGTTCCTCATAAC
65 TAACGTCCCCATCCAGTCACTCTAC-TCACTACAATGTGTAGGTTCCCCAGAAC
* *
238915 CATACACCCACCTGCACACCAGTAAAGACTTACCCTAAGCACACAGCAAAGGAGTCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
*
238980 AACTTCCCCATCCAGTCACTCTACTCACTACAATGTGTAGGTTCCCCAGAAC
66 AACGTCCCCATCCAGTCACTCTACTCACTACAATGTGTAGGTTCCCCAGAAC
* *
239032 CATACACCCACCTGCATACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
239090 AAATACTTTC
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
116 1 0.01
117 156 0.98
118 2 0.01
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACGTCCCCATCCAGTCACTCTACTCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:240200 original size:29 final size:29
Alignment explanation
Indices: 240022--240200 Score: 132
Period size: 29 Copynumber: 6.2 Consensus size: 29
240012 CATTTTACAT
* **
240022 AAATAGCACCCCTTTTTTAAA-TAATAACCA
1 AAATAGCA-CCC-TTTTCAAATTAATTCCCA
* * *
240052 TAATAGCACCCTTTTTAAATTAATTACCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
**
240081 AAATAGCACCCTTTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
* *
240110 AAATA--A-CATATTTCGAATTAATTCCCA
1 AAATAGCACCCT-TTTCAAATTAATTCCCA
* * ** *
240137 GAATATCACCCTTTTCGAAAACAATTACCA
1 AAATAGCACCCTTTTC-AAATTAATTCCCA
* *
240167 AAATAGCACCCATTTCCAATTAATTCCCA
1 AAATAGCACCCTTTTCAAATTAATTCCCA
*
240196 GAATA
1 AAATA
240201 TCACTGGTCA
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.02
27 21 0.17
28 8 0.07
29 60 0.49
30 31 0.25
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATAGCACCCTTTTCAAATTAATTCCCA
Found at i:242872 original size:30 final size:29
Alignment explanation
Indices: 242806--242874 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
242796 TACAATCCTT
* *
242806 AGAAAAATTGGAGATCATTTCGTAAGTTT
1 AGAAAAATTGGAGATCATTTCGTAAATTC
*
242835 TGAAAAATTGGAGATCAATTT-GTAAATTCC
1 AGAAAAATTGGAGATC-ATTTCGTAAATT-C
242865 AGAAAAATTG
1 AGAAAAATTG
242875 AGGGATTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (29 bp):
AGAAAAATTGGAGATCATTTCGTAAATTC
Found at i:244076 original size:11 final size:11
Alignment explanation
Indices: 244060--244085 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
244050 AATTAGTGGC
244060 ATGTAATTATT
1 ATGTAATTATT
244071 ATGTAATTATT
1 ATGTAATTATT
244082 ATGT
1 ATGT
244086 TTTATTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (11 bp):
ATGTAATTATT
Found at i:249201 original size:40 final size:40
Alignment explanation
Indices: 249146--249227 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 40
249136 TGCAGGTTTA
249146 TAATACATTACGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACATTACGGTGTATATGGTGGGCACGACCTTATGTG
249186 TAATACACTT-CGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACA-TTACGGTGTATATGGTGGGCACGACCTTATGTG
249226 TA
1 TA
249228 GCACTACGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACATTACGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:254766 original size:117 final size:117
Alignment explanation
Indices: 254596--254886 Score: 424
Period size: 117 Copynumber: 2.5 Consensus size: 117
254586 TTTCCTGAAA
**
254596 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGCAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* * * * *
254660 TAACGTCTCCATCCAGTCGCTTTCA-TCACTACAATGTGTAGGTTCCTCATAAC
65 TAACGTCCCCATCCAGTCAC-TCCATTCACTACAATGTGTAGGTTCCCCAAAAC
* *
254713 CATACACCCACCTGCACACCAGTAAAGACTTACCCTAAGCACACAGCAAAGGAGTCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
* *
254778 AACTTCCCCATCTAGTCACTCCATTCACTACAATGTGTAGGTTCCCCAAAAC
66 AACGTCCCCATCCAGTCACTCCATTCACTACAATGTGTAGGTTCCCCAAAAC
* * *
254830 CATACACCCACCTACACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCT
254887 AAAATACTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
116 4 0.03
117 152 0.97
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACGTCCCCATCCAGTCACTCCATTCACTACAATGTGTAGGTTCCCCAAAAC
Done.