Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 91 of 204
Found at i:27749214 original size:21 final size:20
Alignment explanation
Indices: 27749163--27749232 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
27749153 ATTCATAAAA
*
27749163 AAAATATAACCAAAAATCATT
1 AAAATATAA-AAAAAATCATT
27749184 ACAAATTATAAAAAAAATCATAT
1 A-AAA-TATAAAAAAAATCAT-T
**
27749207 AAAATATATTTAAAAATCATT
1 AAAATATA-AAAAAAATCATT
27749228 AAAAT
1 AAAAT
27749233 CATTAATGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 11 0.26
22 24 0.57
23 7 0.17
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATAAAAAAAATCATT
Found at i:27766980 original size:15 final size:15
Alignment explanation
Indices: 27766931--27766972 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27766921 CTTGAACTTC
*
27766931 ATTATTACTATTACT
1 ATTATTACTATTAAT
*
27766946 ATTATTAATATTAAT
1 ATTATTACTATTAAT
27766961 ATTATTACTATT
1 ATTATTACTATT
27766973 GTTATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTACTATTAAT
Found at i:27770520 original size:19 final size:19
Alignment explanation
Indices: 27770496--27770535 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27770486 ATATATGTAA
27770496 TTTGTTTTAT-GTAAAGATT
1 TTTGTTTTATAGTAAAG-TT
*
27770515 TTTGTTTTCTAGTAAAGTT
1 TTTGTTTTATAGTAAAGTT
27770534 TT
1 TT
27770536 CTAAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (19 bp):
TTTGTTTTATAGTAAAGTT
Found at i:27779513 original size:132 final size:130
Alignment explanation
Indices: 27778978--27779527 Score: 531
Period size: 132 Copynumber: 4.1 Consensus size: 130
27778968 AGCGAAGATA
* * * * *
27778978 GCAGATCCTATCTCCCTAAGAAGTAGTTGAGCAGATCGAAGACGACAAATCTTATCTTCCCAAGG
1 GCAGAT-CTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGG
* * * * *
27779043 TAATAGAGAAGCAGATTTAAGCCACTA---AATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGAA
65 TAGTAGGGAAGCAGATTTAAGCCACTATCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTAAAGAA
27779105 T
130 T
* * * * **
27779106 GTAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA-TA-GTTAATCTTATCTTCTTAA
1 GCAGATCT-GTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACG--AATCTTATCTTCCCAA
* *
27779169 GGTAGTAGGGAAGCAGATTTAAACCACTAATCCTATCTTCCTGAGCAGCAGCGGAGTAGGTTAAA
63 GGTAGTAGGGAAGCAGATTTAAGCCACT-ATCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTAAA
*
27779234 TAAT
127 GAAT
* * *
27779238 GTAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAA-ACAAAAAATGGCGAATCTTATCTT
1 GCAGATC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-------GACGAATCTTATCTT
* *
27779302 CCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTAT-TTCCCTGAGCAGGAGTGGAGTAG
58 CCCAAGGTAGTAGGGAAGCAGATTTAAGCCA-CTATCCTATCTT-CCTGAGCAGCAGTGGAGTAG
* *
27779366 GTTGAAGATT
121 GTTAAAGAAT
* * *
27779376 GCAGATCATGTTTCCTTGAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGG
1 GCAGATC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGG
* * * * * *
27779441 TAGTAGGGAAGAAGATTTAGGTCACTAGCCTTATC-TCTCTGAGCAGCAATGGAGTAGGTTAAAC
65 TAGTAGGGAAGCAGATTTAAGCCACTATCC-TATCTTC-CTGAGCAGCAGTGGAGTAGGTTAAAG
*
27779505 ATT
128 AAT
* *
27779508 ACAGATTCTATCTCCCTAAG
1 GCAGA-TCTGTCTCCCTAAG
27779528 TTGCAGTGGA
Statistics
Matches: 346, Mismatches: 52, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
127 3 0.01
128 73 0.21
129 1 0.00
131 6 0.02
132 149 0.43
133 3 0.01
137 2 0.01
138 105 0.30
139 3 0.01
140 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (130 bp):
GCAGATCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGT
AGTAGGGAAGCAGATTTAAGCCACTATCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTAAAGAAT
Found at i:27779524 original size:270 final size:265
Alignment explanation
Indices: 27779025--27779527 Score: 622
Period size: 270 Copynumber: 1.9 Consensus size: 265
27779015 GAAGACGACA
* *
27779025 AATCTTATCTTCCCAAGGTAATAGAGAAGCAGATTTAAGCCACTAAATCTTCCTGAGCAGTAGTG
1 AATCTTATCTTCCCAAGGTAATAGAGAAGCAGATTTAAGCCACCAAATCTTCCTGAGCAGGAGTG
* * *
27779090 GAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATAGTTAA
66 GAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAGAG-TAA
** * * *
27779155 TCTTATCTTCTTAAGGTAGTAGGGAAGCAGATTTAAACCACTAATCCTATCTTCCTGAGCAGCAG
130 TCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAAGCCTATCTTCCTGAGCAGCAA
* ** *
27779220 CGGAGTAGGTTAAATAATGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAACAAAAA
195 CGGAGTAGGTTAAACAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAACAAAAA
27779285 ATGGCG
260 ATGGCG
* *
27779291 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACC-AATCCTATTTCCCTGAGCAG
1 AATCTTATCTTCCCAAGGTAATAGAGAAGCAGATTTAAGCCACCAAAT-C---TT-CCTGAGCAG
* * * * *
27779355 GAGTGGAGTAGGTTGAAGATTGCAGATCAT-GTTTCCTTGAGCAGTAGTGGAGCAGATCAAAGAC
61 GAGTGGAGTAGGTTGAAGAATGCAGATC-TGGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGA-
***
27779419 GACG-AATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAGGTCACT-AGCCTTATC-TCTCT
124 GA-GTAATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAAGCC-TATCTTC-CT
* *
27779481 GAGCAGCAATGGAGTAGGTTAAACATTACAGAT-TCTATCTCCCTAAG
186 GAGCAGCAACGGAGTAGGTTAAACAATACAGATCT-TATCTCCCTAAG
27779528 TTGCAGTGGA
Statistics
Matches: 200, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
265 3 0.01
266 42 0.21
269 8 0.04
270 144 0.72
271 2 0.01
272 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (265 bp):
AATCTTATCTTCCCAAGGTAATAGAGAAGCAGATTTAAGCCACCAAATCTTCCTGAGCAGGAGTG
GAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAGAGTAAT
CTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAACCACTAAGCCTATCTTCCTGAGCAGCAAC
GGAGTAGGTTAAACAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAACAAAAAA
TGGCG
Found at i:27780601 original size:45 final size:46
Alignment explanation
Indices: 27780551--27780639 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 46
27780541 CTTGCAAATA
27780551 TTTTTTTAAGATTTGTTTTTACTTATATAGA-ACCCCAAAACGATT
1 TTTTTTTAAGATTTGTTTTTACTTATATAGACACCCCAAAACGATT
27780596 TTTTTTTAAGATTTGTTTTTACTTATATAGACACCCCAAAACGA
1 TTTTTTTAAGATTTGTTTTTACTTATATAGACACCCCAAAACGA
27780640 CGTCGTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 31 0.72
46 12 0.28
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (46 bp):
TTTTTTTAAGATTTGTTTTTACTTATATAGACACCCCAAAACGATT
Found at i:27781249 original size:15 final size:15
Alignment explanation
Indices: 27781200--27781241 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27781190 CTTGAACTTC
*
27781200 ATTATTACTATTACT
1 ATTATTACTATTAAT
*
27781215 ATTATTAATATTAAT
1 ATTATTACTATTAAT
27781230 ATTATTACTATT
1 ATTATTACTATT
27781242 GTTATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTACTATTAAT
Found at i:27792504 original size:25 final size:25
Alignment explanation
Indices: 27792476--27792525 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27792466 AACTCACAAG
27792476 TTAGTATACTTGTTCATGAAACATA
1 TTAGTATACTTGTTCATGAAACATA
27792501 TTAGTATACTTGTTCATGAAACATA
1 TTAGTATACTTGTTCATGAAACATA
27792526 AGAAATCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (25 bp):
TTAGTATACTTGTTCATGAAACATA
Found at i:27802345 original size:48 final size:49
Alignment explanation
Indices: 27802289--27802381 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
27802279 GGAGTCCTAA
* * * *
27802289 CCAAATGA-GTAG-GAAGAAACAAAGAAAATGATAATCCAGCTATGGCAG
1 CCAAATGAGGGAGAGAA-AAACAAAGAAAATAAAAATCCAACTATGGCAG
*
27802337 CCAAATGAGGGAGAGAAAAACAAAGGAAATAAAAATCCAACTATG
1 CCAAATGAGGGAGAGAAAAACAAAGAAAATAAAAATCCAACTATG
27802382 TTATTAACGC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
48 8 0.21
49 27 0.71
50 3 0.08
ACGTcount: A:0.52, C:0.14, G:0.22, T:0.13
Consensus pattern (49 bp):
CCAAATGAGGGAGAGAAAAACAAAGAAAATAAAAATCCAACTATGGCAG
Found at i:27809531 original size:15 final size:15
Alignment explanation
Indices: 27809513--27809543 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27809503 TATTCGATGT
*
27809513 ATGATCACTCGATTA
1 ATGATCAATCGATTA
27809528 ATGATCAATCGATTA
1 ATGATCAATCGATTA
27809543 A
1 A
27809544 GCCATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (15 bp):
ATGATCAATCGATTA
Found at i:27823038 original size:21 final size:21
Alignment explanation
Indices: 27822999--27823038 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27822989 AGAGCTATCA
* **
27822999 CACACGGGCGTGTGGGATTTC
1 CACACGGGCATGTACGATTTC
27823020 CACACGGGCATGTACGATT
1 CACACGGGCATGTACGATT
27823039 CGGCCGAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTACGATTTC
Found at i:27827003 original size:21 final size:21
Alignment explanation
Indices: 27826979--27827026 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
27826969 TTCTCATTTT
* **
27826979 CAACAACTTCTTCTTCTTTAG
1 CAACAACTTCCTCTTCTGCAG
27827000 CAACAACTTCCTCTTCTGCAG
1 CAACAACTTCCTCTTCTGCAG
27827021 CAACAA
1 CAACAA
27827027 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.31
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTGCAG
Found at i:27831235 original size:32 final size:33
Alignment explanation
Indices: 27831199--27831285 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
27831189 ACTTTTTCGA
* *
27831199 AAAATATTTT-CAGGAAATC-TGCCAAACAGCAG
1 AAAATATTTTACAGCAAATCAT-CCAAACACCAG
27831231 AAAATATTTTACA-CAAATTCATCCAAACACCAG
1 AAAATATTTTACAGCAAA-TCATCCAAACACCAG
* *
27831264 AAAATATTTTCCAGTAAATCAT
1 AAAATATTTTACAGCAAATCAT
27831286 TTTACAGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 13 0.28
33 30 0.64
34 4 0.09
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAGCAAATCATCCAAACACCAG
Found at i:27831282 original size:14 final size:15
Alignment explanation
Indices: 27831260--27831336 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
27831250 CATCCAAACA
27831260 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
27831274 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
27831289 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
27831309 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
27831323 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
27831337 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:27831301 original size:20 final size:20
Alignment explanation
Indices: 27831276--27831315 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27831266 AATATTTTCC
*
27831276 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
27831296 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
27831316 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:27831321 original size:34 final size:35
Alignment explanation
Indices: 27831264--27831330 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27831254 CAAACACCAG
*
27831264 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
27831299 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27831331 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27831337 original size:14 final size:14
Alignment explanation
Indices: 27831299--27831338 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27831289 ACAGAAAAGT
*
27831299 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
27831313 AAATCATTTTACGG
1 AAAACATTTTACAG
27831327 AAAACATTTTAC
1 AAAACATTTTAC
27831339 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:27833104 original size:22 final size:22
Alignment explanation
Indices: 27833074--27833126 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
27833064 AATGGCTAAG
* * *
27833074 AGCCGTAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
27833096 AGCTATAAACAGAATGGCTACA
1 AGCCATAAACAGAATAGCTACA
27833118 AGCCATAAA
1 AGCCATAAA
27833127 TACAGTAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:27833171 original size:32 final size:32
Alignment explanation
Indices: 27833131--27833321 Score: 220
Period size: 32 Copynumber: 6.0 Consensus size: 32
27833121 CATAAATACA
* * * *
27833131 GTAATATGATTGGTACAAAGCCATAAGTAGTG
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
* *
27833163 GTAATATGATCGGCACACAGCCATCAGTAATA
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
* * * *
27833195 GTAGTATGATTGGCACAAAGCCATCAGTAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
*
27833227 GTAATATGATCGGCACATAGCCATCAGTAATG
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
* * * ** *
27833259 GTACTATGATCGGTACACAGTAATTAGTAATG
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
*
27833291 GTAATATGATCGGCACAAAGCCATTAGTAAT
1 GTAATATGATCGGCACAAAGCCATCAGTAAT
27833322 ATCGCAGCAA
Statistics
Matches: 133, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 133 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAATG
Found at i:27833213 original size:64 final size:64
Alignment explanation
Indices: 27833130--27833322 Score: 251
Period size: 64 Copynumber: 3.0 Consensus size: 64
27833120 CCATAAATAC
*
27833130 AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACACAGCCATCAGTAAT
1 AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACAAAGCCATCAGTAAT
* * * * *
27833194 AGTAGTATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACATAGCCATCAGTAAT
1 AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACAAAGCCATCAGTAAT
* * * * ** * * *
27833258 GGTACTATGATCGGTACACAGTAATTAGTAATGGTAATATGATCGGCACAAAGCCATTAGTAAT
1 AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACAAAGCCATCAGTAAT
27833322 A
1 A
27833323 TCGCAGCAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 111 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (64 bp):
AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACAAAGCCATCAGTAAT
Found at i:27833288 original size:96 final size:96
Alignment explanation
Indices: 27833130--27833319 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
27833120 CCATAAATAC
* * * *
27833130 AGTAATATGATTGGTACAAAGCCATAAGTAGTGGTAATATGATCGGCACACAGCCATCAGTAATA
1 AGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACAGCAATCAGTAATA
* *
27833195 GTAGTATGATTGGCACAAAGCCATCAGTAGT
66 GTAATATGATCGGCACAAAGCCATCAGTAGT
* * * * * * *
27833226 AGTAATATGATCGGCACATAGCCATCAGTAATGGTACTATGATCGGTACACAGTAATTAGTAATG
1 AGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACAGCAATCAGTAATA
*
27833291 GTAATATGATCGGCACAAAGCCATTAGTA
66 GTAATATGATCGGCACAAAGCCATCAGTA
27833320 ATATCGCAGC
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (96 bp):
AGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACAGCAATCAGTAATA
GTAATATGATCGGCACAAAGCCATCAGTAGT
Found at i:27833355 original size:26 final size:26
Alignment explanation
Indices: 27833321--27833375 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
27833311 CCATTAGTAA
* *
27833321 TATCGCAGCAAAGCTGGCAGCAACAG
1 TATCACAGCAAAGCTGCCAGCAACAG
*
27833347 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGCAACAG
27833373 TAT
1 TAT
27833376 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGCAACAG
Found at i:27833393 original size:27 final size:27
Alignment explanation
Indices: 27833363--27833422 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
27833353 AGCAAAGCTG
27833363 CCAGTAACAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
27833390 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
*
27833417 CTAGTA
1 CCAGTA
27833423 CACTACTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:27833537 original size:24 final size:24
Alignment explanation
Indices: 27833501--27833565 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
27833491 AAACAGTCAT
27833501 ACAAATCAATCATTTAAATCACAG
1 ACAAATCAATCATTTAAATCACAG
* * *
27833525 ACAAATCAGTCATTTACATCTCAG
1 ACAAATCAATCATTTAAATCACAG
*
27833549 ACAAATCAATAATTTAA
1 ACAAATCAATCATTTAA
27833566 CCCCAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.28
Consensus pattern (24 bp):
ACAAATCAATCATTTAAATCACAG
Found at i:27833636 original size:27 final size:27
Alignment explanation
Indices: 27833583--27833969 Score: 386
Period size: 27 Copynumber: 14.4 Consensus size: 27
27833573 GGGCAAAAAA
27833583 GTCATTTTACCCTAC-GGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
27833609 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
27833636 GTCATTTTATCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
27833663 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
27833690 ATCATTTTACCCTAGAGTAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** * * *
27833717 ATCATTCAACCTTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
27833744 GTTATTTTACCCTA-AGAGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
27833770 GTTATTTTACCCTACAAGAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
27833797 ATCATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
27833824 ATCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
27833851 ATCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
27833878 GTCATTTTACCGTACAGGGGCGTTGCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
27833905 ATCATTTTA-CCAATC-GAGGGTATTTCA
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * * *
27833932 ATCATTTTACCCTTCGGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
27833959 GTCATTTTACC
1 GTCATTTTACC
27833970 TTTCAAGGGT
Statistics
Matches: 303, Mismatches: 52, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
26 41 0.14
27 259 0.85
28 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:27833824 original size:134 final size:135
Alignment explanation
Indices: 27833598--27833915 Score: 404
Period size: 134 Copynumber: 2.4 Consensus size: 135
27833588 TTTACCCTAC
* * * * * *
27833598 GGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTACAGGGGTATTATG
1 GGGGCATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACG
* * * *
27833663 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTAGAGTAGCATTACGATCATTCAACC
66 ATCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGAGCATTACGATCATTCAACC
*
27833728 TTATA
131 TTACA
* * * *
27833733 GGGGCGTTACGGTTATTTTACCCTA-AGAGGCATTATGGTTATTTTACCCTACAAGAGCATTACG
1 GGGGCATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACG
* * * **
27833797 ATCATTTTACCCTATAAGGGCATTACGATCATTTTACCTTACAGGGGCATTACGATCATTTTACC
66 ATCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGAGCATTACGATCATTCAACC
27833862 TTACA
131 TTACA
* * * * *
27833867 GGGGCATTACGGTCATTTTACCGTACAGGGGCGTTGCGATCATTTTACC
1 GGGGCATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTACC
27833916 AATCGAGGGT
Statistics
Matches: 153, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
134 113 0.74
135 40 0.26
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (135 bp):
GGGGCATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACG
ATCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGAGCATTACGATCATTCAACC
TTACA
Found at i:27833851 original size:161 final size:161
Alignment explanation
Indices: 27833584--27833915 Score: 430
Period size: 161 Copynumber: 2.1 Consensus size: 161
27833574 GGCAAAAAAG
* * * * * *
27833584 TCATTTTACCCTACGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCT
1 TCATTTTACCCTAAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACGATCATTTTACCCT
* * * * * *
27833649 ACAGGGGTATTATGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTAGAGTAGCATT
66 ACAAGGGCATTACGATCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGAGCATT
* * *
27833714 ACGATCATTCAACCTTATAGGGGCGTTACGG
131 ACGATCATTCAACCGTACAGGGGCGTTACGA
* * *
27833745 TTATTTTACCCTAAGAGGCATTATGGTTATTTTACCCTACAAGAGCATTACGATCATTTTACCCT
1 TCATTTTACCCTAAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACGATCATTTTACCCT
* * * *
27833810 ATAAGGGCATTACGATCATTTTACCTTACAGGGGCATTACGATCATTTTACCTTACAGGGGCATT
66 ACAAGGGCATTACGATCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGAGCATT
* ** *
27833875 ACGGTCATTTTACCGTACAGGGGCGTTGCGA
131 ACGATCATTCAACCGTACAGGGGCGTTACGA
27833906 TCATTTTACC
1 TCATTTTACC
27833916 AATCGAGGGT
Statistics
Matches: 144, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
161 144 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (161 bp):
TCATTTTACCCTAAGAGGCATTACGGTCATTTTACCCTACAAGAGCATTACGATCATTTTACCCT
ACAAGGGCATTACGATCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGAGCATT
ACGATCATTCAACCGTACAGGGGCGTTACGA
Found at i:27834007 original size:54 final size:54
Alignment explanation
Indices: 27833906--27834009 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
27833896 GGCGTTGCGA
* * *
27833906 TCATTTTACCAATCGAGGGTATTTCAATCATTTTACCCTTCGGGGGTATTACGG
1 TCATTTTACCAATCAAGGGTATATCAATCATTTTACCCTTCGAGGGTATTACGG
** * * *
27833960 TCATTTTACCTTTCAAGGGTATATCTATCATTTTACCTTTTGAGGGTATT
1 TCATTTTACCAATCAAGGGTATATCAATCATTTTACCCTTCGAGGGTATT
27834010 CCAGTAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (54 bp):
TCATTTTACCAATCAAGGGTATATCAATCATTTTACCCTTCGAGGGTATTACGG
Found at i:27834009 original size:81 final size:81
Alignment explanation
Indices: 27833773--27833996 Score: 213
Period size: 81 Copynumber: 2.8 Consensus size: 81
27833763 CATTATGGTT
* * * * * * * *
27833773 ATTTTACCCTACAAGAGCATTACGATCATTTTACCCTATAAGGGCATTACGATCATTTTACC-TT
1 ATTTTACCTTACAGGGGCATTACGGTCATTTTACCGTACAAGGGCATTGCGATCATTTTACCAAT
* * *
27833837 AC-AGGGGCATTACGATC
66 -CGA-GGGTATTTCAATC
* *
27833854 ATTTTACCTTACAGGGGCATTACGGTCATTTTACCGTACAGGGGCGTTGCGATCATTTTACCAAT
1 ATTTTACCTTACAGGGGCATTACGGTCATTTTACCGTACAAGGGCATTGCGATCATTTTACCAAT
27833919 CGAGGGTATTTCAATC
66 CGAGGGTATTTCAATC
* * * * * *
27833935 ATTTTACCCTT-CGGGGGTATTACGGTCATTTTACCTTTCAAGGGTATAT-CTATCATTTTACC
1 ATTTTA-CCTTACAGGGGCATTACGGTCATTTTACCGTACAAGGGCAT-TGCGATCATTTTACC
27833997 TTTTGAGGGT
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
81 111 0.94
82 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTTTACCTTACAGGGGCATTACGGTCATTTTACCGTACAAGGGCATTGCGATCATTTTACCAAT
CGAGGGTATTTCAATC
Found at i:27834019 original size:27 final size:27
Alignment explanation
Indices: 27833906--27834021 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
27833896 GGCGTTGCGA
** * *
27833906 TCATTTTACCAATCGAGGGTATTTCAA
1 TCATTTTACCTTTCGAGGGTATTCCAG
* * * *
27833933 TCATTTTACCCTTCGGGGGTATTACGG
1 TCATTTTACCTTTCGAGGGTATTCCAG
* *
27833960 TCATTTTACCTTTCAAGGGTATATCTA-
1 TCATTTTACCTTTCGAGGGTAT-TCCAG
*
27833987 TCATTTTACCTTTTGAGGGTATTCCAG
1 TCATTTTACCTTTCGAGGGTATTCCAG
*
27834014 TAATTTTA
1 TCATTTTA
27834022 TATTTCGGTA
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 67 0.94
28 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.42
Consensus pattern (27 bp):
TCATTTTACCTTTCGAGGGTATTCCAG
Found at i:27834052 original size:27 final size:27
Alignment explanation
Indices: 27834022--27834092 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
27834012 AGTAATTTTA
* *
27834022 TATTTCGGTAATTTTATCCTTTGAGGG
1 TATTTCGGTAATTTTACCCTTTGAAGG
*
27834049 TATTTCGATAATTTTACCCTTTGAAGG
1 TATTTCGGTAATTTTACCCTTTGAAGG
* *
27834076 TATTTCAGTAATATTAC
1 TATTTCGGTAATTTTAC
27834093 AACCTTTTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (27 bp):
TATTTCGGTAATTTTACCCTTTGAAGG
Found at i:27834078 original size:70 final size:70
Alignment explanation
Indices: 27833952--27834087 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 70
27833942 CCTTCGGGGG
* * * * *
27833952 TATTACGGTCATTTTACCTTTCAAGGGTATATCTATCATTTTACCTTTTGAGGGTATTCCAGTAA
1 TATTACGGTAATTTTACCTTTCAAGGGTATATCGATAATTTTACCCTTTGAAGGTATTCCAGTAA
27834017 TTTTA
66 TTTTA
* * * *
27834022 TATTTCGGTAATTTTATCCTTT-GAGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTCAGTA
1 TATTACGGTAATTTTA-CCTTTCAAGGGTATATCGATAATTTTACCCTTTGAAGGTATTCCAGTA
27834086 AT
65 AT
27834088 ATTACAACCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 51 0.91
71 5 0.09
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.46
Consensus pattern (70 bp):
TATTACGGTAATTTTACCTTTCAAGGGTATATCGATAATTTTACCCTTTGAAGGTATTCCAGTAA
TTTTA
Found at i:27834578 original size:37 final size:37
Alignment explanation
Indices: 27834524--27834601 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
27834514 TTCCACAAAT
*
27834524 CAATAATTATCGCACCCTTGGTTCCCAGGCAATATGC
1 CAATAATCATCGCACCCTTGGTTCCCAGGCAATATGC
* *
27834561 CAATAATCATCGTACCCTTGGTTCCCAGGCAATGTGC
1 CAATAATCATCGCACCCTTGGTTCCCAGGCAATATGC
27834598 CAAT
1 CAAT
27834602 CAACCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATAATCATCGCACCCTTGGTTCCCAGGCAATATGC
Found at i:27842484 original size:54 final size:54
Alignment explanation
Indices: 27842421--27842563 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
27842411 CTTGTGTCTG
* * *
27842421 AAACTGTGTAACTCACT-ATGTTGGGTCACATGGCCGTCTCGCAAGCCATGTGCC
1 AAACCGTGTAACTCACTGA-CTTGGGACACATGGCCGTCTCGCAAGCCATGTGCC
* * * *
27842475 AAACCGTGTATCTCTCTGACTTGTGACACATGTCCGTCTCGCAAGCCATGTGCC
1 AAACCGTGTAACTCACTGACTTGGGACACATGGCCGTCTCGCAAGCCATGTGCC
* * *
27842529 AAACCGTGTATCTCTCTGACTTGTGACACATGGCC
1 AAACCGTGTAACTCACTGACTTGGGACACATGGCC
27842564 ATGTCGCAGG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 79 0.99
55 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (54 bp):
AAACCGTGTAACTCACTGACTTGGGACACATGGCCGTCTCGCAAGCCATGTGCC
Found at i:27842499 original size:27 final size:27
Alignment explanation
Indices: 27842469--27842553 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
27842459 TCGCAAGCCA
27842469 TGTGCCAAACCGTGTATCTCTCTGACT
1 TGTGCCAAACCGTGTATCTCTCTGACT
* * * *** * * * *
27842496 TGTGACACA-TGTCCGTCTCGCAAGCCA
1 TGTGCCAAACCGTGTATCTCTC-TGACT
27842523 TGTGCCAAACCGTGTATCTCTCTGACT
1 TGTGCCAAACCGTGTATCTCTCTGACT
27842550 TGTG
1 TGTG
27842554 ACACATGGCC
Statistics
Matches: 36, Mismatches: 20, Indels: 4
0.60 0.33 0.07
Matches are distributed among these distances:
26 7 0.19
27 22 0.61
28 7 0.19
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (27 bp):
TGTGCCAAACCGTGTATCTCTCTGACT
Found at i:27842571 original size:54 final size:54
Alignment explanation
Indices: 27842447--27842563 Score: 225
Period size: 54 Copynumber: 2.2 Consensus size: 54
27842437 TATGTTGGGT
27842447 CACATGGCCGTCTCGCAAGCCATGTGCCAAACCGTGTATCTCTCTGACTTGTGA
1 CACATGGCCGTCTCGCAAGCCATGTGCCAAACCGTGTATCTCTCTGACTTGTGA
*
27842501 CACATGTCCGTCTCGCAAGCCATGTGCCAAACCGTGTATCTCTCTGACTTGTGA
1 CACATGGCCGTCTCGCAAGCCATGTGCCAAACCGTGTATCTCTCTGACTTGTGA
27842555 CACATGGCC
1 CACATGGCC
27842564 ATGTCGCAGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (54 bp):
CACATGGCCGTCTCGCAAGCCATGTGCCAAACCGTGTATCTCTCTGACTTGTGA
Found at i:27844392 original size:21 final size:21
Alignment explanation
Indices: 27844366--27844408 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27844356 TCCATTTACC
27844366 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
27844387 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
27844408 T
1 T
27844409 CCTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TTAATTTTTCCTTCTATTATA
Found at i:27846821 original size:104 final size:103
Alignment explanation
Indices: 27846642--27846908 Score: 437
Period size: 104 Copynumber: 2.6 Consensus size: 103
27846632 TAACCGTTAT
* *
27846642 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
27846707 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
27846745 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATA-CGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
27846810 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
27846850 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
27846909 TTTATATACA
Statistics
Matches: 154, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
103 27 0.18
104 86 0.56
105 40 0.26
106 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
TGGTGGATACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:27849393 original size:50 final size:50
Alignment explanation
Indices: 27849312--27849411 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
27849302 ACTCACTTGA
*
27849312 GACTTCCTTGCCTTATCTGCTTAACTCTTTCTAGACGCTGGAGCTTCCAT
1 GACTTCCTTGCCTTATCTGCTTAACTCTTTCTAGACGCTAGAGCTTCCAT
* *
27849362 GACTTCCTTGCCTTATCTGCTTAGCTTTTTCTAGACGCTAGAGCTTCCAT
1 GACTTCCTTGCCTTATCTGCTTAACTCTTTCTAGACGCTAGAGCTTCCAT
27849412 TCTCCCAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (50 bp):
GACTTCCTTGCCTTATCTGCTTAACTCTTTCTAGACGCTAGAGCTTCCAT
Found at i:27867505 original size:40 final size:38
Alignment explanation
Indices: 27867453--27867585 Score: 178
Period size: 40 Copynumber: 3.4 Consensus size: 38
27867443 CATATTCACT
*
27867453 TTTAAGCATATATCACATTACACATATAATCTCATAACA
1 TTTAAGCATATATCACATT-CACATATAATCACATAACA
* *
27867492 TTTAAAGCATATATCACAATTCTCGTATAATCACATAACA
1 TTT-AAGCATATATCAC-ATTCACATATAATCACATAACA
* * *
27867532 TTCAAGCATATACCTCATT-ACATATAATCACATAACA
1 TTTAAGCATATATCACATTCACATATAATCACATAACA
27867569 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
27867586 ATACTCAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 30 0.37
38 3 0.04
39 14 0.17
40 31 0.38
41 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (38 bp):
TTTAAGCATATATCACATTCACATATAATCACATAACA
Found at i:27867563 original size:37 final size:38
Alignment explanation
Indices: 27867456--27867585 Score: 163
Period size: 37 Copynumber: 3.4 Consensus size: 38
27867446 ATTCACTTTT
*
27867456 AAGCATATATCACATTACACATATAATCTCATAACATTTA
1 AAGCATATATCACATT-CACATATAATCACATAACA-TTA
* * *
27867496 AAGCATATATCACAATTCTCGTATAATCACATAACATTC
1 AAGCATATATCAC-ATTCACATATAATCACATAACATTA
* * *
27867535 AAGCATATACCTCATT-ACATATAATCACATAACATTT
1 AAGCATATATCACATTCACATATAATCACATAACATTA
27867572 AAGCATATATCACA
1 AAGCATATATCACA
27867586 ATACTCAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 30 0.38
38 3 0.04
39 13 0.17
40 29 0.37
41 3 0.04
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.31
Consensus pattern (38 bp):
AAGCATATATCACATTCACATATAATCACATAACATTA
Found at i:27873247 original size:27 final size:27
Alignment explanation
Indices: 27873195--27873250 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
27873185 ACATAAGGCC
* *
27873195 ATAACAGTCATTTCATCTTCTAGGGGT
1 ATAACAGTCATTTCATCCTATAGGGGT
* *
27873222 ATAACAGTCATTTTATCCTATGGGGGT
1 ATAACAGTCATTTCATCCTATAGGGGT
27873249 AT
1 AT
27873251 TTTGGTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ATAACAGTCATTTCATCCTATAGGGGT
Found at i:27873261 original size:27 final size:27
Alignment explanation
Indices: 27873228--27873448 Score: 188
Period size: 27 Copynumber: 8.4 Consensus size: 27
27873218 GGGTATAACA
* *
27873228 GTCATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27873255 GTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
27873282 GTTATTTTACCCTATGAGGGTA--ACA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27873307 ATCATTTCATCTCCTA--GGGGTA--T-A
1 GTCATTTTA-C-CCTATGGGGGTATTTCG
27873331 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27873357 ATCATTTTACTCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27873384 ATCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27873411 GTCACTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
27873438 GTTATTTTACC
1 GTCATTTTACC
27873449 TATTTTGGGG
Statistics
Matches: 161, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
22 4 0.02
23 7 0.04
24 8 0.05
25 12 0.07
26 14 0.09
27 116 0.72
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:27873391 original size:102 final size:104
Alignment explanation
Indices: 27873196--27873399 Score: 270
Period size: 102 Copynumber: 2.0 Consensus size: 104
27873186 CATAAGGCCA
* * * * * *
27873196 TAACAGTCATTTCATCTTCTAGGGGTATAACAGTCATTTTATCCTATGGGGGTATTTTGGTTATT
1 TAACAATCATTTCATCTCCTAGGGGTAT-A-AGTCATTTTACCCTATGGGGGTATTTCGATCATT
* * *
27873261 TTACCCTATAGGGGTATTTTGGTTATTTTACCCTATGAGGG
64 TTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGG
27873302 TAACAATCATTTCATCTCCTAGGGGTAT-AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTT
1 TAACAATCATTTCATCTCCTAGGGGTATAAGTCATTTTACCCTATGGGGGTATTTCGATCATTTT
*
27873365 ACTCTAT-GGAGGTATTTCGATCATTTTACCCTATG
66 ACCCTATAGG-GGTATTTCGATCATTTTACCCTATG
27873400 GAGGTATTTC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 2 0.02
102 44 0.51
103 15 0.17
106 26 0.30
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (104 bp):
TAACAATCATTTCATCTCCTAGGGGTATAAGTCATTTTACCCTATGGGGGTATTTCGATCATTTT
ACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGG
Found at i:27885866 original size:13 final size:13
Alignment explanation
Indices: 27885836--27885860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27885826 AAAATGGAAT
27885836 TATTTTCTTATTC
1 TATTTTCTTATTC
27885849 TATTTTCTTATT
1 TATTTTCTTATT
27885861 TAATTTACTA
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTCTTATTC
Found at i:27888855 original size:15 final size:16
Alignment explanation
Indices: 27888828--27888866 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
27888818 ATGGGTTAGC
27888828 TAAATCAAGTTCC-CA
1 TAAATCAAGTTCCACA
* *
27888843 TAATTCAATTTCCACA
1 TAAATCAAGTTCCACA
27888859 TAAATCAA
1 TAAATCAA
27888867 AGAAAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAATCAAGTTCCACA
Found at i:27892853 original size:27 final size:27
Alignment explanation
Indices: 27892823--27893142 Score: 265
Period size: 27 Copynumber: 11.9 Consensus size: 27
27892813 CTTTGCAAGG
*
27892823 TTCACCACAAGGGCTTTTCTTTCATAT
1 TTCACCACAAAGGCTTTTCTTTCATAT
*
27892850 TTCACCACAAGGGCTTTTCTTTCATAT
1 TTCACCACAAAGGCTTTTCTTTCATAT
**
27892877 TTTTCCACAAAGGC-TTTCTTTTCATAT
1 TTCACCACAAAGGCTTTTC-TTTCATAT
* * * *
27892904 TTCGCCACAAAAGTTTTTCTTTCATGT
1 TTCACCACAAAGGCTTTTCTTTCATAT
* * **
27892931 TTTATCACAAAGAATTTTCTTTCATAT
1 TTCACCACAAAGGCTTTTCTTTCATAT
** *
27892958 TTTGCTACAAAGG-TTTTCCTTTCATAT
1 TTCACCACAAAGGCTTTT-CTTTCATAT
*
27892985 TTCACCATAAAGG-TTTTCCTTTCATAT
1 TTCACCACAAAGGCTTTT-CTTTCATAT
* * *
27893012 TTCACCGCAAAGGATTTTCTTTCAAGAT
1 TTCACCACAAAGGCTTTTCTTTC-ATAT
* * *
27893040 TT-GCCACAAAGACTTTTCTTTCATGT
1 TTCACCACAAAGGCTTTTCTTTCATAT
* **
27893066 TT-AGCAACAAAATCTTTTCTTTCATGAT
1 TTCA-CCACAAAGGCTTTTCTTTCAT-AT
* * *
27893094 TT-TCCACAAAGGCTTTTCTTTTATTT
1 TTCACCACAAAGGCTTTTCTTTCATAT
* * *
27893120 TTCTCCACAAAGGTTTTTATTTC
1 TTCACCACAAAGGCTTTTCTTTC
27893143 CTGTCATGTT
Statistics
Matches: 239, Mismatches: 46, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
26 15 0.06
27 208 0.87
28 16 0.07
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
TTCACCACAAAGGCTTTTCTTTCATAT
Found at i:27920801 original size:3 final size:3
Alignment explanation
Indices: 27920795--27920863 Score: 70
Period size: 3 Copynumber: 23.0 Consensus size: 3
27920785 AAAGTAGTAG
* * *
27920795 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TGAA -AA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
27920840 -AC TAAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA
27920864 CACAAAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
2 3 0.05
3 49 0.88
4 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27926707 original size:20 final size:20
Alignment explanation
Indices: 27926682--27926721 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27926672 TAATGTGGTT
27926682 ATTCAGTTTTTGATCATGTC
1 ATTCAGTTTTTGATCATGTC
27926702 ATTCAGTTTTTGATCATGTC
1 ATTCAGTTTTTGATCATGTC
27926722 TTTGTGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
ATTCAGTTTTTGATCATGTC
Found at i:27927476 original size:21 final size:21
Alignment explanation
Indices: 27927427--27927477 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
27927417 TTAGGAGCAC
*
27927427 GGGCGTGTGGAATAGCCACAT
1 GGGCGTGTGGAATAACCACAT
* *
27927448 GAGTGTGTGGAATAACCACAT
1 GGGCGTGTGGAATAACCACAT
27927469 GGGCGTGTG
1 GGGCGTGTG
27927478 TATCGATCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.22
Consensus pattern (21 bp):
GGGCGTGTGGAATAACCACAT
Found at i:27928922 original size:62 final size:62
Alignment explanation
Indices: 27928825--27928950 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
27928815 CAAAATACTT
*
27928825 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTAGCTAGTCATGCAACATAAGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
*
27928887 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATATGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
27928949 TA
1 TA
27928951 CCATTCATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (62 bp):
TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
Found at i:27929321 original size:21 final size:22
Alignment explanation
Indices: 27929272--27929327 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
27929262 AAGCCTGATA
*
27929272 GGCACAAAGCCTGAATAACACT
1 GGCACTAAGCCTGAATAACACT
* *
27929294 AGCACTAAGTCTGAATAACAC-
1 GGCACTAAGCCTGAATAACACT
27929315 GGCACTAAGCCTG
1 GGCACTAAGCCTG
27929328 CAAGGCACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACT
Found at i:27929371 original size:37 final size:37
Alignment explanation
Indices: 27929295--27929385 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
27929285 AATAACACTA
* * * *
27929295 GCACTAAGTCTGAATAACACGGCACTAAGCCTGCAAG
1 GCACAAAGCCTGAATAACACAGCACTAAACCTGCAAG
27929332 GCACAAAGCCTGAATAACACCAGCACTAAACCTGC-AG
1 GCACAAAGCCTGAATAACA-CAGCACTAAACCTGCAAG
* *
27929369 GCACGAAGCCCGAATAA
1 GCACAAAGCCTGAATAA
27929386 TAATATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 34 0.72
38 13 0.28
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.12
Consensus pattern (37 bp):
GCACAAAGCCTGAATAACACAGCACTAAACCTGCAAG
Found at i:27937737 original size:22 final size:22
Alignment explanation
Indices: 27937709--27937861 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
27937699 TGTTGATAGT
*
27937709 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
27937731 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
27937753 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
27937775 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
27937797 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
27937819 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
27937841 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
27937862 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:27939745 original size:2 final size:2
Alignment explanation
Indices: 27939740--27939768 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27939730 TTTCTATATA
27939740 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27939769 TGGGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27940889 original size:28 final size:27
Alignment explanation
Indices: 27940776--27940932 Score: 169
Period size: 28 Copynumber: 5.8 Consensus size: 27
27940766 AACACGTCAA
*
27940776 AAAATGGAAGCCTTTGTGGCGTATCT--
1 AAAATGGAAGCCTTTGTGGC-AATCTAG
27940802 AAAATGGAAGCCTTTGTGGCAATCTAG
1 AAAATGGAAGCCTTTGTGGCAATCTAG
* * * *
27940829 AAAATGGAAGTCTTAGTTGCGTATCT--
1 AAAATGGAAGCCTTTGTGGC-AATCTAG
* *
27940855 AAAATGGAAACCTTTGTGGTAATCTAAG
1 AAAATGGAAGCCTTTGTGGCAATCT-AG
*
27940883 AAAATGGAAGCCTTTGAGGCAATCTAAG
1 AAAATGGAAGCCTTTGTGGCAATCT-AG
*
27940911 AAAATGGAAGCCTTCGTGGCAA
1 AAAATGGAAGCCTTTGTGGCAA
27940933 ATTTTGTAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
25 8 0.07
26 35 0.32
27 17 0.16
28 49 0.45
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (27 bp):
AAAATGGAAGCCTTTGTGGCAATCTAG
Found at i:27940909 original size:53 final size:53
Alignment explanation
Indices: 27940776--27940898 Score: 192
Period size: 53 Copynumber: 2.3 Consensus size: 53
27940766 AACACGTCAA
*
27940776 AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCAATCTAG
1 AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAG
* * * *
27940829 AAAATGGAAGTCTTAGTTGCGTATCTAAAATGGAAACCTTTGTGGTAATCTAAG
1 AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCT-AG
27940883 AAAATGGAAGCCTTTG
1 AAAATGGAAGCCTTTG
27940899 AGGCAATCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 46 0.74
54 16 0.26
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (53 bp):
AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAG
Found at i:27949543 original size:64 final size:64
Alignment explanation
Indices: 27949442--27949572 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
27949432 AGTGTAATTC
* *
27949442 AAAGCTTAAGTAGGTAGTCTCGAGACTTGGCCTATAAGTCTCAATGCTTTGATCCTAAGTTTCG
1 AAAGCTTAAGTAGCTAGTCTCGAGACTTGGCCTATAAGTCTCAATGCTTTGATCCTAAGTCTCG
27949506 AAAGCTTAAGTAGCTAGTCTCGAGACTTGGCCTATAAGTCTCAATGCTTTGATCCTAAGTCTCG
1 AAAGCTTAAGTAGCTAGTCTCGAGACTTGGCCTATAAGTCTCAATGCTTTGATCCTAAGTCTCG
27949570 AAA
1 AAA
27949573 CTTGCTACTG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (64 bp):
AAAGCTTAAGTAGCTAGTCTCGAGACTTGGCCTATAAGTCTCAATGCTTTGATCCTAAGTCTCG
Found at i:27950942 original size:20 final size:20
Alignment explanation
Indices: 27950901--27950943 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
27950891 TTAAATAAAT
* *
27950901 AATATTTTTGGGCATAGGAA
1 AATATTTTTAGGCATAGAAA
27950921 AATATTTGTTAGGC-TAGAAA
1 AATATTT-TTAGGCATAGAAA
27950941 AAT
1 AAT
27950944 TATGAGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (20 bp):
AATATTTTTAGGCATAGAAA
Found at i:27951101 original size:48 final size:48
Alignment explanation
Indices: 27951030--27951125 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
27951020 TAGGTAGGGG
* * *
27951030 TGACAAAGTCTAGTCCTAGAAGGGGTTACTACCCCCCCTATCATACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGCTACCACCCCCCCTATCATACAA
* *
27951078 TGACAAAGCCTAGTCTTAGAAGGGGCTACCACCGCCCCTATCATACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGCTACCACCCCCCCTATCATACAA
27951126 ACTCCCTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (48 bp):
TGACAAAGCCTAGTCCTAGAAGGGGCTACCACCCCCCCTATCATACAA
Found at i:27953914 original size:11 final size:11
Alignment explanation
Indices: 27953894--27953931 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
27953884 GCTGGTGGGT
*
27953894 GGAGAAGGAAA
1 GGAGAGGGAAA
27953905 GGAGAGGGAAA
1 GGAGAGGGAAA
27953916 GGAGAGGGAAA
1 GGAGAGGGAAA
27953927 GGAGA
1 GGAGA
27953932 AGAAAGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (11 bp):
GGAGAGGGAAA
Found at i:27953940 original size:4 final size:4
Alignment explanation
Indices: 27953931--27954034 Score: 63
Period size: 4 Copynumber: 24.5 Consensus size: 4
27953921 GGGAAAGGAG
27953931 AAGA AAGA AAGA AAGA AAGAA AAGGA AAGAA AAGGA AATGA GAAGA AAGA
1 AAGA AAGA AAGA AAGA AAG-A AA-GA AAG-A AA-GA AA-GA -AAGA AAGA
* * *
27953981 AAG- AA-A AAGA AAGGA GAAG- AAGA AGAGGG AAGG AAGG AA-A AAGA
1 AAGA AAGA AAGA AA-GA -AAGA AAGA A-A-GA AAGA AAGA AAGA AAGA
27954025 AAGA AAGA AA
1 AAGA AAGA AA
27954035 AAGGTATTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
3 9 0.11
4 46 0.55
5 21 0.25
6 8 0.10
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:27953959 original size:5 final size:5
Alignment explanation
Indices: 27953898--27953995 Score: 55
Period size: 5 Copynumber: 20.0 Consensus size: 5
27953888 GTGGGTGGAG
* *
27953898 AAGGA AAGGA GAGGGA AAGGA GAGGGA AAGGA GAA-GA AA-GA AA-GA
1 AAGGA AAGGA -AAGGA AAGGA -AAGGA AAGGA -AAGGA AAGGA AAGGA
* * * * *
27953943 AA-GA AAGAA AAGGA AAGAA AAGGA AATGA GAA-GA AA-GA AAGAA AAAGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA AAGGA
27953991 AAGGA
1 AAGGA
27953996 GAAGAAGAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
4 20 0.27
5 42 0.57
6 12 0.16
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (5 bp):
AAGGA
Found at i:27953960 original size:10 final size:9
Alignment explanation
Indices: 27953934--27954006 Score: 58
Period size: 10 Copynumber: 7.6 Consensus size: 9
27953924 AAAGGAGAAG
27953934 AAAGAAAG-
1 AAAGAAAGA
27953942 AAAGAAAGA
1 AAAGAAAGA
27953951 AAAGGAAAGA
1 AAA-GAAAGA
27953961 AAAGGAAATGA
1 AAA-GAAA-GA
*
27953972 GAAGAAAGA
1 AAAGAAAGA
*
27953981 AAGAAAAAGA
1 AA-AGAAAGA
*
27953991 AAGGAGAAGA
1 AAAGA-AAGA
27954001 AGAAGA
1 A-AAGA
27954007 GGGAAGGAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 8 0.15
9 7 0.13
10 31 0.58
11 7 0.13
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:27954012 original size:13 final size:13
Alignment explanation
Indices: 27953923--27954004 Score: 50
Period size: 14 Copynumber: 6.2 Consensus size: 13
27953913 AAAGGAGAGG
27953923 GAAAGGAGAAGAAA
1 GAAAGGAGAAG-AA
27953937 GAAA-GA-AAGAAA
1 GAAAGGAGAAG-AA
27953949 GAAAAGGA-AAGAAAA
1 G-AAAGGAGAAG--AA
*
27953964 GGAAATGAGAAGAAA
1 -GAAAGGAGAAG-AA
27953979 GAAA-GA-AA-AA
1 GAAAGGAGAAGAA
27953989 GAAAGGAGAAGAA
1 GAAAGGAGAAGAA
27954002 GAA
1 GAA
27954005 GAGGGAAGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
10 6 0.10
11 2 0.03
12 11 0.19
13 12 0.20
14 13 0.22
15 11 0.19
16 4 0.07
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.01
Consensus pattern (13 bp):
GAAAGGAGAAGAA
Found at i:27954014 original size:48 final size:44
Alignment explanation
Indices: 27953922--27954037 Score: 121
Period size: 48 Copynumber: 2.6 Consensus size: 44
27953912 GAAAGGAGAG
*
27953922 GGAAAGGAGAAGAAAGAAAG--AAAGAAAGAAAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAAAGAAAGAAAAAGAAAGAAAA
* **
27953964 GGAAATGAGAAGAAAGAAAGAAAAAGAAAGGAGAAGAAGAAGAGGGAA
1 GGAAAGGAGAAGAAAGAAAGAAAAAGAAA-GA-AA-AAGAA-AGAAAA
*
27954012 GG-AAGGAAAAAGAAAGAAAGAAAAAG
1 GGAAAGG-AGAAGAAAGAAAGAAAAAG
27954038 GTATTTTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 19 0.31
44 7 0.11
45 2 0.03
46 2 0.03
47 7 0.11
48 24 0.39
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (44 bp):
GGAAAGGAGAAGAAAGAAAGAAAAAGAAAGAAAAAGAAAGAAAA
Found at i:27954037 original size:10 final size:10
Alignment explanation
Indices: 27953931--27954030 Score: 56
Period size: 10 Copynumber: 9.0 Consensus size: 10
27953921 GGGAAAGGAG
27953931 AAGAAAGAAAGA
1 AAGAAAG-AA-A
27953943 AAGAAAGAAA
1 AAGAAAGAAA
*
27953953 AGGAAAGAAA
1 AAGAAAGAAA
*
27953963 AGGAAATGAGAAGA
1 AAG-AA--AGAA-A
27953977 AAGAAAGAAA
1 AAGAAAGAAA
27953987 AAGAAAGGAGAA
1 AAGAAA-GA-AA
**
27953999 GAAGAAGAGGGA
1 -AAGAA-AGAAA
* *
27954011 AGGAAGGAAA
1 AAGAAAGAAA
27954021 AAGAAAGAAA
1 AAGAAAGAAA
27954031 GAAAAAGGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
10 30 0.43
11 14 0.20
12 10 0.14
13 12 0.17
14 4 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:27954526 original size:152 final size:149
Alignment explanation
Indices: 27954367--27955062 Score: 768
Period size: 152 Copynumber: 4.6 Consensus size: 149
27954357 TTGTATTTTT
* * *
27954367 AAAAAACAAACTAAATTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATTAGAAAATT
1 AAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
* * *
27954432 AGAAAAT-GTGATATTTTTTAAAGTAATAAAATGTAGAGAAAAAAATACGAACAAAGGGCCGAAG
66 AGAAAATAGT-ATATTTTTTAAAGTAATAAAAT-TCG-GAAAAAAATACGAGCAAAGGGCCGAAA
27954496 TAA-GGTTTTTTTACTAAATTTAA
128 TAAGGGTTTTTTTA-TAAA-TTAA
* *
27954519 AAAAAACAGAAAT-AATTAA-AACATTTCAAACATAATTTACTAAAATAATGTAAAA-AATAAAA
1 AAAAAACA-AACTAAATTAATAA-ATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * * * *
27954581 -TACGAAAATAATATATTTTATTAAAAGTAATAAAATTCGGGAAAAAATACGAGCAAATGACCTA
64 TTA-GAAAATAGTATATTTT-TT-AAAGTAATAAAATTCGGAAAAAAATACGAGCAAAGGGCCGA
*
27954645 AATAAGGGTTTTTTT-TAAATTTATTT
126 AATAAGGGTTTTTTTATAAA-TTA--A
* * * *
27954671 AAAAAACACACTAAATATATTTAAATTTCAAACATAATGTGCTAAAATAATGTAAAACAATAAAA
1 AAAAAACAAACTAAAT-TA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * *
27954736 TTAGAAAATAGTATATTTTTAAAAGTAATCAAATTCGGAAAAAAAATAAGAGCAAAGGGCCGAAA
64 TTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGG-AAAAAAATACGAGCAAAGGGCCGAAA
27954801 T-AGGG-TTTTTTACTAAATTAA
128 TAAGGGTTTTTTTA-TAAATTAA
* * * * *
27954822 AAAAAACAGACTTAATTAATACATTTTAAACATAATGTACTAAAATAAAGTAAAATAATAAAA-T
1 AAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
* *
27954886 ACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGAAAAAAATACGAGCAAAGGG-CGA
66 A-GAAAATAGTATA-TTTT-TT-AAAGTAATAAAA-TTCGGAAAAAAATACGAGCAAAGGGCCGA
*
27954950 AATAAGGGTTATTTTA-AAATTAA
126 AATAAGGGTTTTTTTATAAATTAA
* * *
27954973 TTTTAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 ---AAAAAACAAACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
27955038 AAATTAGAAAATAGTATTTTTTTTA
61 AAATTAGAAAATAGTATATTTTTTA
27955063 NNNNNNNNNN
Statistics
Matches: 462, Mismatches: 51, Indels: 61
0.80 0.09 0.11
Matches are distributed among these distances:
148 2 0.00
149 50 0.11
150 16 0.03
151 74 0.16
152 110 0.24
153 52 0.11
154 72 0.16
155 31 0.07
156 53 0.11
157 2 0.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (149 bp):
AAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
AGAAAATAGTATATTTTTTAAAGTAATAAAATTCGGAAAAAAATACGAGCAAAGGGCCGAAATAA
GGGTTTTTTTATAAATTAA
Found at i:27954754 original size:306 final size:304
Alignment explanation
Indices: 27954364--27955062 Score: 1014
Period size: 305 Copynumber: 2.3 Consensus size: 304
27954354 AAATTGTATT
* * * * *
27954364 TTTAAAAAACAAACTAAATTA-ATAAATTTAAAACATAATGTACTAAAATAATGTAAAATTAGAA
1 TTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
27954428 AATTAGAAAAT-GTGATATTTTTTAAAGTAATAAAATGTA-GAGAAAAAAATACGAACAAAGGGC
66 AATTAGAAAATAGT-ATATTTTTTAAAGTAATAAAAT-TAGGA-AAAAAAATAAGAACAAAGGGC
* * *
27954491 CGAAGTAAGGTTTTTTTACTAAATTTAAAAAAAACAGAAATAATTAAAACATTTCAAACATAATT
128 CGAAAT-AGGGTTTTTTACTAAA-TTAAAAAAAACAGAAATAATTAAAACATTTCAAACATAATG
*
27954556 TACTAAAATAATGTAAAA-AATAAAATACGAAAATAATATA-TTTTATTAAAAGTAATAAAATTC
191 TACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTC
* * * *
27954619 GGG-AAAAAATACGAGCAAATGACCTAAATAAGGGTTTTTTTTAAATTTA
256 GGGAAAAAAATACGAGCAAA-GACCGAAATAAGGGTTATTTTAAAATTAA
* *
27954668 TTTAAAAAACACACTAAATATATTTAAATTTCAAACATAATGTGCTAAAATAATGTAAAACAATA
1 TTTAAAAAACACACTAAAT-TATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * *
27954733 AAATTAGAAAATAGTATATTTTTAAAAGTAATCAAATTCGGAAAAAAAATAAGAGCAAAGGGCCG
65 AAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTAGGAAAAAAAATAAGAACAAAGGGCCG
** * *
27954798 AAATAGGGTTTTTTACTAAATTAAAAAAAACAGACTTAATTAATACATTTTAAACATAATGTACT
130 AAATAGGGTTTTTTACTAAATTAAAAAAAACAGAAATAATTAAAACATTTCAAACATAATGTACT
* *
27954863 AAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGA
195 AAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGA
**
27954928 AAAAAATACGAGCAAAGGGCGAAATAAGGGTTATTTTAAAATTAA
260 AAAAAATACGAGCAAAGACCGAAATAAGGGTTATTTTAAAATTAA
*
27954973 TTTTAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
27955038 AAATTAGAAAATAGTATTTTTTTTA
65 AAATTAGAAAATAGTATATTTTTTA
27955063 NNNNNNNNNN
Statistics
Matches: 354, Mismatches: 33, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
303 53 0.15
304 55 0.16
305 157 0.44
306 87 0.25
307 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (304 bp):
TTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
AATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTAGGAAAAAAAATAAGAACAAAGGGCCGA
AATAGGGTTTTTTACTAAATTAAAAAAAACAGAAATAATTAAAACATTTCAAACATAATGTACTA
AAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGAA
AAAAATACGAGCAAAGACCGAAATAAGGGTTATTTTAAAATTAA
Found at i:27957930 original size:14 final size:16
Alignment explanation
Indices: 27957906--27957938 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
27957896 TACTTTAATC
27957906 ATGGATTAGTATTT-T
1 ATGGATTAGTATTTAT
27957921 ATGG-TTAGTATTTAT
1 ATGGATTAGTATTTAT
27957936 ATG
1 ATG
27957939 ATAATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (16 bp):
ATGGATTAGTATTTAT
Found at i:27958693 original size:47 final size:47
Alignment explanation
Indices: 27958191--27958682 Score: 763
Period size: 47 Copynumber: 10.5 Consensus size: 47
27958181 GAGTAAATGA
27958191 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27958238 ATGTATAAGCTCTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
27958285 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27958332 ATGTATATGCTGTCAAATTTTGATGTATAAATGGAGTACAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
27958379 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27958426 ATGTATATGCTGTCAAATTTTGATGTAGAAGTGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27958473 ATGTATATGCTGTCAAATTTTGATGTAGAAGTGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27958520 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAATCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27958567 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27958614 ATGTATATGCTATCAAATTTTGATGTATAAATGTAGTCCAAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCC-AATTATAT
* *
27958660 GTATATATGCTGTCCAAATTTTG
1 ATGTATATGCTGT-CAAATTTTG
27958683 GTGTGAAAAT
Statistics
Matches: 415, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 11 0.03
47 400 0.96
48 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:27964303 original size:43 final size:43
Alignment explanation
Indices: 27964223--27964346 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
27964213 AAATCCGATA
* *
27964223 TGTGTTTTCGTGTAAGACCACGTCTGGGACTTCGGCATCGACT
1 TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCATCGACT
*
27964266 TGTGTTTTCGTGTAAGACC-CTGTCTAGGACAGT-GGCATCG-GT
1 TGTGTTTTCGTGTAAGACCAC-GTCTAGGAC-GTCGGCATCGACT
* * * * * *
27964308 ATGTGATTACATGTAATACCACGTCTGGGACGTTGGCAT
1 -TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCAT
27964347 TGTACTAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 4 0.06
43 62 0.91
44 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCATCGACT
Found at i:27965017 original size:14 final size:15
Alignment explanation
Indices: 27964993--27965027 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
27964983 TACTTTAATC
27964993 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
27965008 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
27965023 ATGGT
1 ATGGT
27965028 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:27965348 original size:47 final size:47
Alignment explanation
Indices: 27965279--27965863 Score: 976
Period size: 47 Copynumber: 12.4 Consensus size: 47
27965269 GAGTCAATGA
*
27965279 ATGTATATGCAGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27965326 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
27965373 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
27965420 ATGTATATGCTGTCAAATTTTGATGTATAAATGGAGTACAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
27965467 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27965514 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27965561 ATGTATATGCTGACAAATTTTGATATACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27965608 ATGTATATGCTGTCAAAATTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27965655 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27965702 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGGCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27965749 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27965796 ATGTATATGCTGTCAAATTTTGATGTACAAATGTAGTCCAAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCC-AATTATAT
* *
27965842 GTATATATGCTGTTCAAATTTT
1 ATGTATATGCTG-TCAAATTTT
27965864 AGTGTGAAAA
Statistics
Matches: 504, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 11 0.02
47 489 0.97
48 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:27969951 original size:26 final size:27
Alignment explanation
Indices: 27969920--27969985 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
27969910 CTAACACAAT
* *
27969920 AATAATAATAA-TA-GTTTTATACTTAA
1 AATAATAATAACTAGGGTTT-TACTAAA
*
27969946 AATAATACTAACTAGGGTTTTACTAAA
1 AATAATAATAACTAGGGTTTTACTAAA
27969973 AATAATAACTAAC
1 AATAATAA-TAAC
27969986 AATAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.30
27 15 0.45
28 8 0.24
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (27 bp):
AATAATAATAACTAGGGTTTTACTAAA
Found at i:27970024 original size:23 final size:23
Alignment explanation
Indices: 27969979--27970025 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27969969 TAAAAATAAT
*
27969979 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
27970002 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
27970025 A
1 A
27970026 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:27971071 original size:6 final size:6
Alignment explanation
Indices: 27971053--27971088 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
27971043 ATAATTTTGC
27971053 TGGTGA T-GTGA TGGTGA TGGTGA TGGTGA TGGTGA T
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA T
27971089 AGCAAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.36
Consensus pattern (6 bp):
TGGTGA
Found at i:27972340 original size:88 final size:87
Alignment explanation
Indices: 27972212--27972656 Score: 432
Period size: 88 Copynumber: 4.9 Consensus size: 87
27972202 AAAATTCTTC
* *
27972212 AAAAAAAGTAATTAAGCCCCTGCTCTTTTTTTCCACTCAATTGGGTACTTGAATTTTCAAAATGC
1 AAAAAAAGCAATTAAG-CCC--CTCTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGC
* * *
27972277 ATTAAAAAGACCCTGAAATTTTTCAAA
62 ATCAAAAAGGCCCTCAAATTTTTC-AA
* *
27972304 AAAAAAAACAATTAAGCCCCTACTTTTTTT-ACTCAATTGGGTACTTGAGCTTTCAAAATGCATC
1 AAAAAAAGCAATTAAGCCCCT-CTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATC
*
27972368 AAAAAGGCCCTCAATTTTTTTTTCAA
65 AAAAAGGCCCTCAA---ATTTTTCAA
* * * * * *
27972394 AATAAATA--AATTAAGCCACCGCTTTTTTTTTGCACCCAATTAGGTACTTGAACTTTTAAAATA
1 AA-AAAAAGCAATTAAG-C-CC-CTCTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATG
* *
27972457 CATAAAAAAAGGCCATCAAATTTTTCAAA
61 CAT-CAAAAAGGCCCTCAAATTTTTC-AA
27972486 AAAAAAAGCAATTAAGCCCCTACGTACTTTCTTTTTGCACTCAATTGGGTACTTGAACTTTCAAA
1 AAAAAAAGCAATTAAG-CCC--C-T-C-TT-TTTTT-CACTCAATTGGGTACTTGAACTTTCAAA
*
27972551 ATGCATCAAAAAGGCCCTAAAATTTTTTC-A
58 ATGCATCAAAAAGGCCCTCAAA-TTTTTCAA
* *
27972581 AAATAAAGCAATTAAGCCCC-CTTTTTTTTGCACTCAATTGGGTACTTGAACTGTCAAAATGCAT
1 AAAAAAAGCAATTAAGCCCCTC-TTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGCAT
*
27972645 CAAAAAGTCCCT
64 CAAAAAGGCCCT
27972657 TTGACCGTTA
Statistics
Matches: 302, Mismatches: 31, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
88 93 0.31
89 13 0.04
90 13 0.04
91 32 0.11
92 23 0.08
93 38 0.13
94 17 0.06
95 16 0.05
96 15 0.05
97 42 0.14
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTCTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCA
AAAAGGCCCTCAAATTTTTCAA
Found at i:27973070 original size:20 final size:20
Alignment explanation
Indices: 27973033--27973086 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
27973023 TGGTACGATA
*
27973033 AATTTTAT-ATTTTTTTACG
1 AATTTTATAATTTTCTTACG
27973052 AATTTTATAATTTTCTTACG
1 AATTTTATAATTTTCTTACG
* *
27973072 ACTTTATAAAATTTT
1 AATTT-TATAATTTT
27973087 ATAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTATAATTTTCTTACG
Found at i:27973140 original size:29 final size:27
Alignment explanation
Indices: 27973052--27973145 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 27
27973042 TTTTTTTACG
* * *
27973052 AATTTTATAATTTTCTTACGACTTTATAA
1 AATTTTATAATTTTTTTAC-AATTT-TAT
*
27973081 AATTTTATAATTTTTTTTCTATATTTCTAT
1 AATTTTATAATTTTTTTAC-A-ATTT-TAT
27973111 ATATTTTATAATTTTTTTACAATTCTTAT
1 A-ATTTTATAATTTTTTTACAATT-TTAT
27973140 AATTTT
1 AATTTT
27973146 TTTACTAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.09
29 25 0.45
30 8 0.15
31 17 0.31
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (27 bp):
AATTTTATAATTTTTTTACAATTTTAT
Found at i:27973141 original size:20 final size:21
Alignment explanation
Indices: 27973116--27973155 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
27973106 TCTATATATT
27973116 TTATAATTTTTTTAC-AATTC
1 TTATAATTTTTTTACTAATTC
27973136 TTATAATTTTTTTACTAATT
1 TTATAATTTTTTTACTAATT
27973156 TAAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATAATTTTTTTACTAATTC
Found at i:27973223 original size:27 final size:26
Alignment explanation
Indices: 27973188--27973238 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
27973178 TGTACGATAA
*
27973188 ATTTTATAT-TTTTTTACTAATTTTAT
1 ATTTTATATATTTTTCA-TAATTTTAT
27973214 ATTTCTATATATTTTTCATAATTTT
1 ATTT-TATATATTTTTCATAATTTT
27973239 CTTACGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 12 0.55
28 6 0.27
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTTTATATATTTTTCATAATTTTAT
Found at i:27973318 original size:30 final size:31
Alignment explanation
Indices: 27973253--27973338 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 31
27973243 CGACTTTATA
* *
27973253 AAATTTTAT-ATTTTTTTCTATATTTCTATGT
1 AAATTTTATAATTTTTTACTA-ATTTTTATGT
27973284 --ATTTTATAATTTTTTACTAATTTTTA-GT
1 AAATTTTATAATTTTTTACTAATTTTTATGT
*
27973312 AAATTTTA-AATATTTTTA-TATTTTTTA
1 AAATTTTATAAT-TTTTTACTAATTTTTA
27973339 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.04
29 24 0.50
30 22 0.46
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
AAATTTTATAATTTTTTACTAATTTTTATGT
Found at i:27973328 original size:60 final size:60
Alignment explanation
Indices: 27973211--27973328 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 60
27973201 TTACTAATTT
* *
27973211 TATATTTCTATATATTTTTCATAATTTTCTTACGACTTTATAAAATTTTATATTTTTTTC
1 TATATTTCTATATATTTTTCATAATTTTCTTACGAATTTATAAAATTTTAAATTTTTTTC
* * * *
27973271 TATATTTCTATGTA-TTTT-ATAATTTT-TTACTAATTTTTAGTAAATTTTAAATATTTTT
1 TATATTTCTATATATTTTTCATAATTTTCTTACGAATTTATA--AAATTTTAAATTTTTTT
27973329 ATATTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 10 0.20
58 8 0.16
59 19 0.38
60 13 0.26
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (60 bp):
TATATTTCTATATATTTTTCATAATTTTCTTACGAATTTATAAAATTTTAAATTTTTTTC
Found at i:27973350 original size:30 final size:29
Alignment explanation
Indices: 27973286--27973350 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
27973276 TTCTATGTAT
*
27973286 TTTATAATTTTTTACTAATTTTTAGTAAAT
1 TTTA-AATTTTTTACTAATTTTTAGTAAAA
* *
27973316 TTTAAATATTTTTA-TATTTTTTAATTAAAA
1 TTTAAAT-TTTTTACTAATTTTT-AGTAAAA
27973346 TTTAA
1 TTTAA
27973351 TAACTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTAAATTTTTTACTAATTTTTAGTAAAA
Found at i:27973352 original size:29 final size:29
Alignment explanation
Indices: 27973290--27973352 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
27973280 ATGTATTTTA
*
27973290 TAAT-TTTTTACTAATTTTTAGTAAATTT
1 TAATATTTTTACTAATTTTTAGTAAAATT
* *
27973318 TAAATATTTTTA-TATTTTTTAATTAAAATT
1 T-AATATTTTTACTAATTTTT-AGTAAAATT
27973348 TAATA
1 TAATA
27973353 ACTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 14 0.48
30 14 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
TAATATTTTTACTAATTTTTAGTAAAATT
Found at i:27979352 original size:17 final size:16
Alignment explanation
Indices: 27979322--27979366 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
27979312 ATTTTTTTAA
27979322 TTTAAAAGAGTTTTTATT
1 TTTAAAA-A-TTTTTATT
27979340 TTTCAAAAATTTTTATT
1 TTT-AAAAATTTTTATT
27979357 TTTAAAAATT
1 TTTAAAAATT
27979367 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 4 0.15
19 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAAAAATTTTTATT
Found at i:27980137 original size:98 final size:98
Alignment explanation
Indices: 27979966--27980162 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
27979956 GTGCAATAAA
* *
27979966 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
27980031 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
27980064 ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
27980129 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
27980162 A
1 A
27980163 TTATTTCTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:27982393 original size:44 final size:44
Alignment explanation
Indices: 27982339--27982755 Score: 220
Period size: 44 Copynumber: 9.5 Consensus size: 44
27982329 GATCTACTCT
*
27982339 ACTGCAACTTCAGAGAGATAAGATCTGT-GG-TTATAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TGTCGGCTT-TAATCCGCTCC
* * *
27982383 ACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCCGCTCC
** * * *
27982427 ACTGCAACTTCAGGGAGATAAGATT-TGCCACATTCAGTCTGC-CTC
1 ACTGCAACTTCAGGGAGATAAGATTGT-CGGC-TTTAATCCGCTC-C
** * *
27982472 ACTGCAACTTCA-GGAGGATAAGACTTGCTTTGC-TTAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGA-TTG-TCGGCTTTAATCCGCTCC
* * *
27982517 ACTGCAACTTCAGGGAGATAAGACTAGATAC-G--AT-AT--ACT-C
1 ACTGCAACTTCAGGGAGATAAGA-TTG-T-CGGCTTTAATCCGCTCC
* * * * * * *
27982557 TCTGTATCTTCAGAGAGATAAGATCTG-AGGTTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TGTCGGCTTTAATCCGCTCC
* * * *
27982601 ACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCCGCTCC
* * ** * * *
27982645 ACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTC
1 ACTGCAACTTCAGGGAGATAAGA-TTGTCGGCTTTAATCCGCTC-C
** * *
27982690 ACTGCAACTTCA-GGAGGATAAGACTTGCTTTGC-TTAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGA-TTG-TCGGCTTTAATCCGCTCC
27982735 ACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAA
27982756 AACTAGATGC
Statistics
Matches: 294, Mismatches: 52, Indels: 53
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 22 0.07
41 4 0.01
43 9 0.03
44 122 0.41
45 122 0.41
46 11 0.04
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCCGCTCC
Found at i:27982616 original size:218 final size:218
Alignment explanation
Indices: 27982242--27982823 Score: 929
Period size: 218 Copynumber: 2.7 Consensus size: 218
27982232 TGGTATGTTT
* * *
27982242 AGTCTGTCC-CACAGCAATTTCAAGG-GGATAAGACTTGCTTT-CTTGAGTCTACTCCACTGCAA
1 AGTCTG-CCTCACTGCAACTTC-AGGAGGATAAGACTTGCTTTGCTT-AGTCTGCTCCACTGCAA
* * * * *
27982304 CTTCAGGGAGATTAAGACTCGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
63 CTTCAGGGAGA-TAAGACTAGATGCGATCTACTCT-CTGTATCTTCAGAGAGATAAGATCTGAGG
* * * * * *
27982369 TTATAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCCACTGCAA
126 TTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAA
27982434 CTTCAGGGAGATAAGATTTGCCA-CATTC
191 CTTCAGGGAGATAAGATTTGCCATC-TTC
27982462 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTT
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTT
* *
27982527 CAGGGAGATAAGACTAGATACGATATACTCTCTGTATCTTCAGAGAGATAAGATCTGAGGTTTTA
66 CAGGGAGATAAGACTAGATGCGATCTACTCTCTGTATCTTCAGAGAGATAAGATCTGAGGTTTTA
27982592 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
131 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
27982657 GGGAGATAAGATTTGCCATCTTC
196 GGGAGATAAGATTTGCCATCTTC
27982680 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTT
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTT
*
27982745 CAGGGAGATAAAACTAGATGCGATCTACTCTCTGTATCTTCAGAGAGATAAGATCTGAGGTTTTA
66 CAGGGAGATAAGACTAGATGCGATCTACTCTCTGTATCTTCAGAGAGATAAGATCTGAGGTTTTA
27982810 ATCCACTCCACTGT
131 ATCCACTCCACTGT
27982824 CGGCTTTAAT
Statistics
Matches: 339, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
218 252 0.74
219 25 0.07
220 59 0.17
221 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTT
CAGGGAGATAAGACTAGATGCGATCTACTCTCTGTATCTTCAGAGAGATAAGATCTGAGGTTTTA
ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
GGGAGATAAGATTTGCCATCTTC
Found at i:27982701 original size:45 final size:45
Alignment explanation
Indices: 27982597--27982755 Score: 157
Period size: 45 Copynumber: 3.6 Consensus size: 45
27982587 TTTTAATCCA
* * ** * *
27982597 CTCCACTGTAACTTCAGGGAGATAGGA-TTATC-GGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGC-TTAGTCTG
* *
27982641 CTCCACCGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTT-AGTCTG
**
27982686 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATGCTTAGTCTG
27982731 CTCCACTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
27982756 AACTAGATGC
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
44 30 0.31
45 59 0.61
46 7 0.07
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGTCTG
Found at i:27982934 original size:45 final size:45
Alignment explanation
Indices: 27982833--27982955 Score: 153
Period size: 45 Copynumber: 2.7 Consensus size: 45
27982823 TCGGCTTTAA
*
27982833 TCTGCTCCACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACCGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* * **
27982878 CCTGC-CTCACCGCAACTTTA-GGAGGATAAGACTTGCTTTGCTT-AG
1 TCTGCTC-CACCGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
27982923 TCTGCTCCACCGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACCGCAACTTCAGGGAGATAAGACT
27982956 AGATGCGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 4 0.06
45 55 0.83
46 7 0.11
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (45 bp):
TCTGCTCCACCGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:28004540 original size:15 final size:15
Alignment explanation
Indices: 28004520--28004554 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
28004510 ATTATTTTTT
*
28004520 TATTTTTATTAAAAA
1 TATTTTTACTAAAAA
28004535 TATTTTTACTAAAAA
1 TATTTTTACTAAAAA
28004550 TATTT
1 TATTT
28004555 AAATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTTTACTAAAAA
Found at i:28004839 original size:15 final size:13
Alignment explanation
Indices: 28004807--28004857 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
28004797 CAACTGGAAA
28004807 AGAGAAAGAAAAG
1 AGAGAAAGAAAAG
*
28004820 AGAGAAAGGAGAAGG
1 AGAGAAA-GA-AAAG
28004835 AGAGAAA-AAGAAG
1 AGAGAAAGAA-AAG
28004848 A-AGAAAGAAA
1 AGAGAAAGAAA
28004858 GAAAGAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.22
13 13 0.41
14 2 0.06
15 10 0.31
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (13 bp):
AGAGAAAGAAAAG
Found at i:28005148 original size:21 final size:21
Alignment explanation
Indices: 28005122--28005165 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
28005112 TAATTTAAAT
28005122 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
28005143 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
28005164 TT
1 TT
28005166 CGAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (21 bp):
TTGTAAGACTTCAATATTATA
Found at i:28005639 original size:38 final size:39
Alignment explanation
Indices: 28005597--28005674 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
28005587 TTTTAATCAT
28005597 ATAGTTGCTGTTAACTCATTTAA-TTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
*
28005635 ATAGTTGTTGTTAACTCATTTAATGTTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAA-GTTTTTTTATATCAAC
28005675 TTGGGGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 22 0.59
40 15 0.41
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (39 bp):
ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
Found at i:28005903 original size:58 final size:58
Alignment explanation
Indices: 28005753--28005934 Score: 248
Period size: 58 Copynumber: 3.2 Consensus size: 58
28005743 TACAAAAATG
* *
28005753 ATATGTTTTTTGTAATCGTGCCTATCTGACAGGCGCCAATCAATTTTTTATATTAACAAA
1 ATATATTTTTT-TAATCGTGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAA-AAA
* * * *
28005813 A-A-A--ATTTTAATCGCGCCTATTTGACAGACGCGAATCAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAA
*
28005867 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCGAATTAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAA
28005925 ATAT-TTTTTT
1 ATATATTTTTT
28005935 GTTTAAATAA
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
54 4 0.04
55 41 0.38
56 4 0.04
57 6 0.06
58 50 0.47
59 1 0.01
60 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (58 bp):
ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAA
Found at i:28005972 original size:26 final size:25
Alignment explanation
Indices: 28005909--28005976 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
28005899 CGCGAATTAA
*
28005909 TTTTTTATATTAAAAA-A-TATTTT
1 TTTTTTTTATTAAAAATATTATTTT
* * *
28005932 TTTGTTTAAAT-AAAATATTATTTT
1 TTTTTTTTATTAAAAATATTATTTT
28005956 TTTATTTTTATTAAAAATATT
1 TTT-TTTTTATTAAAAATATT
28005977 TAAATATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.12
23 8 0.24
24 9 0.26
25 5 0.15
26 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
TTTTTTTTATTAAAAATATTATTTT
Found at i:28006213 original size:16 final size:16
Alignment explanation
Indices: 28006192--28006230 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
28006182 TTAACTCATT
*
28006192 TAATTTTTATATAATG
1 TAATTTTTATATAATA
*
28006208 TAATTTTTTTATAATA
1 TAATTTTTATATAATA
28006224 TAATTTT
1 TAATTTT
28006231 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:28009895 original size:56 final size:56
Alignment explanation
Indices: 28009780--28009894 Score: 187
Period size: 55 Copynumber: 2.1 Consensus size: 56
28009770 ATATTTTATT
* *
28009780 AAAAGAAAAAAATTAATATAAAAAATTCATTGACGCCTATCAGATAGGCTCGATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGACGCCTATCAGATAGGCGCCATTA
* *
28009836 AAAAGAAAAAAA-TAATATAAAAAATTCATTGGCGCCTGTCAGATAGGCGCCATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGACGCCTATCAGATAGGCGCCATTA
28009891 AAAA
1 AAAA
28009895 AAACATACTA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
55 43 0.78
56 12 0.22
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (56 bp):
AAAAGAAAAAAATTAATATAAAAAATTCATTGACGCCTATCAGATAGGCGCCATTA
Found at i:28014993 original size:26 final size:26
Alignment explanation
Indices: 28014938--28015013 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
28014928 CCAGTTCCCG
* **
28014938 AGGCAAAGCCAAAGATCCAGTTCGTG
1 AGGCAAAGCCAAAGATCCAGCTCGCA
*
28014964 AGGCAAAGCCAAGGA-CCTAGCTCGCA
1 AGGCAAAGCCAAAGATCC-AGCTCGCA
* ** *
28014990 AGGCAAGGCCGCAGATCTAGCTCG
1 AGGCAAAGCCAAAGATCCAGCTCG
28015014 TAAAAAGGAC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.05
26 36 0.92
27 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.29, T:0.12
Consensus pattern (26 bp):
AGGCAAAGCCAAAGATCCAGCTCGCA
Found at i:28017969 original size:109 final size:109
Alignment explanation
Indices: 28017778--28017996 Score: 330
Period size: 109 Copynumber: 2.0 Consensus size: 109
28017768 GTGAAGAAGG
* * *
28017778 TAAACGACAAATGGAGAATGTGTATAAACTTAAATGAAAAATAACAGTTTTCCCCTACCCTCAAT
1 TAAACAACAAATGAAGAATGTGTATAAACTTAAACGAAAAATAACAGTTTTCCCCTACCCTCAAT
* *
28017843 TGACCGATTAGTGGATGCCTCTTCAGGTCACAAGTTCACTAGCT
66 TGACCAATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCT
** * * **
28017887 TAAACAACAAATGAAGAATGTGTATCGACTTAAACGACAAATGACAGTTTTCCCCTACCCTTGAT
1 TAAACAACAAATGAAGAATGTGTATAAACTTAAACGAAAAATAACAGTTTTCCCCTACCCTCAAT
*
28017952 TGACTAATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCT
66 TGACCAATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCT
28017996 T
1 T
28017997 CATGGATACT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 98 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (109 bp):
TAAACAACAAATGAAGAATGTGTATAAACTTAAACGAAAAATAACAGTTTTCCCCTACCCTCAAT
TGACCAATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCT
Found at i:28021241 original size:70 final size:70
Alignment explanation
Indices: 28021125--28021596 Score: 466
Period size: 70 Copynumber: 6.8 Consensus size: 70
28021115 ATAACATTTG
* * *
28021125 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCATCACAGTTAGCAAGAGTAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
**
28021190 CCAAT
66 CCAGC
* * * * * * *
28021195 TATCATATTAAGACTCGCAGGATAAAAAACCACAACCTCCAACACAGTTAGTGATAACAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
28021260 CCAAC
66 CCAGC
**** * * *
28021265 TGTCATACTAAGGCTCGCAGGATAAAAAATTGTAACCTCTAACATAGTTAGCGAGAGCAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
28021330 CCAGC
66 CCAGC
* * * * * * *
28021335 TGTCATGCTAAGGCTCGTAGGACAAAAAACCATAGCCTCAAATACAGTTAGCGAGATCAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
28021400 CCAGC
66 CCAGC
* * * * *
28021405 TATCATACTAAGGCTTGCAAGATAAAAAACTGA-AGCCTCCAATACAGTTA-CTGAGAGCAAAGC
1 TGTCATACTAAGGCTCGCAGGATAAAAAAC-CACAGCCTCCAACACAGTTAGC-GAGAGCAAAGC
*
28021468 TCCTAGC
64 TCCCAGC
** * * * * * *
28021475 TGTCATGTTAAGGCTCACAAGAT-AAAAACCACAGCCTTCAACATAGTTAGCGAGAGCAAAACTT
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
**
28021539 AAAGC
66 CCAGC
* * * * *
28021544 TGTCATACTAAGGCTTGCAGGAT-AAAAACTACAACCTTCAACATAGTTAGCGA
1 TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGA
28021597 AAGTTAAAAA
Statistics
Matches: 333, Mismatches: 65, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
68 1 0.00
69 81 0.24
70 250 0.75
71 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.20
Consensus pattern (70 bp):
TGTCATACTAAGGCTCGCAGGATAAAAAACCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
CCAGC
Found at i:28021713 original size:58 final size:58
Alignment explanation
Indices: 28021640--28021762 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 58
28021630 AATTTTAAGG
* * * * *
28021640 AAGTATAAAATAGCTCGCAAATTCACATCCCCATTTGGTTATCTCTCAGAGTTTTCTT
1 AAGTATAAAACAGCTCACAAATTCACATCCCCAGTTGGTTATATCTCAAAGTTTTCTT
* * * * * *
28021698 AAGTATAAGACAGCTCACAGATTCACATCTCTAGTTGGTTATATTTCAAATTTTTCTT
1 AAGTATAAAACAGCTCACAAATTCACATCCCCAGTTGGTTATATCTCAAAGTTTTCTT
28021756 AAGTATA
1 AAGTATA
28021763 GTTGGTGATT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (58 bp):
AAGTATAAAACAGCTCACAAATTCACATCCCCAGTTGGTTATATCTCAAAGTTTTCTT
Found at i:28025141 original size:40 final size:41
Alignment explanation
Indices: 28025062--28025142 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 41
28025052 TTCTACTGAA
*
28025062 TACTGCATGATTGCTACTGATACTATGATGGGATAAGACCC
1 TACTGCATGATTGATACTGATACTATGATGGGATAAGACCC
*
28025103 TACTGCAT-ATTTGATACTG-TACTGA-GATGGGCTAAGACCC
1 TACTGCATGA-TTGATACTGATACT-ATGATGGGATAAGACCC
28025143 AAATTCTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 19 0.53
41 17 0.47
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
TACTGCATGATTGATACTGATACTATGATGGGATAAGACCC
Found at i:28035386 original size:5 final size:5
Alignment explanation
Indices: 28035376--28035414 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
28035366 AAATATTATC
* * *
28035376 TTTTA TTTTA TTTTA TTTTC TTTGA TTTTA TTTTC TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
28035415 GAAAAAATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:28035394 original size:15 final size:15
Alignment explanation
Indices: 28035376--28035414 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
28035366 AAATATTATC
*
28035376 TTTTATTTTATTTTA
1 TTTTCTTTTATTTTA
*
28035391 TTTTCTTTGATTTTA
1 TTTTCTTTTATTTTA
28035406 TTTTCTTTT
1 TTTTCTTTT
28035415 GAAAAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTATTTTA
Found at i:28035397 original size:20 final size:20
Alignment explanation
Indices: 28035369--28035414 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
28035359 TCGGGGGAAA
* *
28035369 TATTATCTTTTATTTTATTT
1 TATTTTCTTTGATTTTATTT
28035389 TATTTTCTTTGATTTTATTT
1 TATTTTCTTTGATTTTATTT
*
28035409 TCTTTT
1 TATTTT
28035415 GAAAAAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TATTTTCTTTGATTTTATTT
Found at i:28036587 original size:2 final size:2
Alignment explanation
Indices: 28036580--28036615 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
28036570 ACATGCATGA
28036580 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
28036616 GATAATGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28044671 original size:326 final size:324
Alignment explanation
Indices: 28044080--28044730 Score: 1068
Period size: 326 Copynumber: 2.0 Consensus size: 324
28044070 TAATTTCTCG
28044080 TTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAATTCTAGTCAAGG
1 TTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAATTCTAGTCAAGG
* * *
28044145 ATCACTATATTGATGGAGGACATGATCACATGCATGAATATATAAATACATATATGATAATGATA
66 ATCACTATATTGATGGAGAACATGATCACATACACGAATATATAAATACATATATGATAATGATA
* * * *
28044210 TTGTTGATGGCGAGTAAGGTTTTGTGATGTTGGTCGATGATGAAGCCACGTAGAGAAATTGGAAA
131 TTGTTGATGGCGAGCAAAGTTTTGTGATGTTGGTCGATGATGAAGCCACGCAAAGAAATTGGAAA
28044275 TAATTATACAGACCAGAAAACTAAAAGTAATTAAAAGTTTGTGGGGGGTTTTGTACTATTCATAG
196 TAATTATACAGACCAGAAAACTAAAAGTAATTAAAAGTTTGTGGGGGGTTTTGTACTATTCATAG
* *
28044340 ATACATGCATCGCATTTTCATGGTTGCCTGTATAATTAAATGTATTTAGTGCTTTCCCTTTTCA
261 ATACATGCATCGCATTTTCATGGTTACCTATATAATTAAATGTATTTAGTGCTTTCCCTTTTCA
* * *
28044404 TTACCATGAGTTCTCCAATTCGTCTAAGTGTATAAATAAAGAGATTTGTTTGATTCTAGTCAAGG
1 TTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAATTCTAGTCAAGG
* * *
28044469 ATCACTGTATTGATGGAGAACGTGATCACATACACGAATATATAAATATATATATATGATAATGA
66 ATCACTATATTGATGGAGAACATGATCACATACACGAATATAT-AA-ATACATATATGATAATGA
*
28044534 TATTGTTGATGTCGAGCAAAGTTTTGTGATGTTGGTCGATGATGAAGCCACGCAAAGAAATTGGA
129 TATTGTTGATGGCGAGCAAAGTTTTGTGATGTTGGTCGATGATGAAGCCACGCAAAGAAATTGGA
** * *
28044599 AATAATTATACAGACCAGAAAACTGGAAGTAATTAAAAGTTTGTTGGGGGTTTTGTGCTATTCAT
194 AATAATTATACAGACCAGAAAACTAAAAGTAATTAAAAGTTTGTGGGGGGTTTTGTACTATTCAT
** **
28044664 AGATACATGCATTTCATTTTCATGGTTACCTATATAATTAGTTGTATTTAGTGCTTTCCCTTTTC
259 AGATACATGCATCGCATTTTCATGGTTACCTATATAATTAAATGTATTTAGTGCTTTCCCTTTTC
28044729 A
324 A
28044730 T
1 T
28044731 ATTTATCAAG
Statistics
Matches: 301, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
324 100 0.33
325 2 0.01
326 199 0.66
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (324 bp):
TTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAATTCTAGTCAAGG
ATCACTATATTGATGGAGAACATGATCACATACACGAATATATAAATACATATATGATAATGATA
TTGTTGATGGCGAGCAAAGTTTTGTGATGTTGGTCGATGATGAAGCCACGCAAAGAAATTGGAAA
TAATTATACAGACCAGAAAACTAAAAGTAATTAAAAGTTTGTGGGGGGTTTTGTACTATTCATAG
ATACATGCATCGCATTTTCATGGTTACCTATATAATTAAATGTATTTAGTGCTTTCCCTTTTCA
Found at i:28045453 original size:7 final size:7
Alignment explanation
Indices: 28045441--28045466 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
28045431 GTTCAAAAAT
28045441 TTTATTA
1 TTTATTA
28045448 TTTATTA
1 TTTATTA
28045455 TTTATTA
1 TTTATTA
28045462 TTTAT
1 TTTAT
28045467 GAGTTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:28047036 original size:33 final size:33
Alignment explanation
Indices: 28046986--28047062 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
28046976 TAGATACATG
* * * *
28046986 TGTAAGACTATAGCTGGGATATGGCA-TTCTGA
1 TGTAAGACCATAACTGGGATATGGCACTACAGA
*
28047018 TGATAAGACCATAACTGGGTTATGGCACTACAGA
1 TG-TAAGACCATAACTGGGATATGGCACTACAGA
28047052 TGTAAGACCAT
1 TGTAAGACCAT
28047063 GGCAGGACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.79
34 6 0.16
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (33 bp):
TGTAAGACCATAACTGGGATATGGCACTACAGA
Found at i:28049791 original size:40 final size:40
Alignment explanation
Indices: 28049682--28049821 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
28049672 GACTTCGAGT
* * * *
28049682 CGATGAGACATTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAA-C
* * * * *
28049723 CGACGAGGCATTGGGTG-CCAA-T-TTACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
* *
28049760 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
* *
28049800 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
28049822 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
37 14 0.17
38 15 0.19
39 2 0.03
40 34 0.43
41 15 0.19
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
Found at i:28051757 original size:33 final size:32
Alignment explanation
Indices: 28051720--28051835 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
28051710 AGATCAATTT
28051720 ATATTTTATGTATTATTATGTTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* * **
28051753 ATATTTCATGCAACATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* *
28051786 ATATGATTTAT-TATTA-TATTTAAGGTT-TTAAA
1 ATAT--TTTATGTATTATTATTTAA-ATTATTTAA
28051818 ATATTTTATGTATTATTA
1 ATATTTTATGTATTATTA
28051836 ATTTTATAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
30 5 0.07
31 5 0.07
32 14 0.21
33 37 0.55
34 2 0.03
35 4 0.06
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (32 bp):
ATATTTTATGTATTATTATTTAAATTATTTAA
Found at i:28057637 original size:22 final size:24
Alignment explanation
Indices: 28057589--28057638 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
28057579 ATTAGGAAAG
* *
28057589 TAAAAATTATATTATAAATATATA
1 TAAAAATTATATTACAAATATAGA
*
28057613 TAAAAA-TAT-TTACAAATATCGA
1 TAAAAATTATATTACAAATATAGA
28057635 TAAA
1 TAAA
28057639 CTTAAAACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 14 0.61
23 3 0.13
24 6 0.26
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAATTATATTACAAATATAGA
Found at i:28059414 original size:20 final size:21
Alignment explanation
Indices: 28059382--28059420 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
28059372 CAATTTTTTT
28059382 AAAAAAACTTATA-TAAAATC
1 AAAAAAACTTATATTAAAATC
28059402 AAAAAAA-TATATATTAAAA
1 AAAAAAACT-TATATTAAAA
28059421 ATTATAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAAACTTATATTAAAATC
Found at i:28060279 original size:21 final size:19
Alignment explanation
Indices: 28060255--28060305 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
28060245 AAACACTTGT
**
28060255 AAAAATTATTAAAAAATTA
1 AAAAATTAAAAAAAAATTA
28060274 TAAAAATTGAAAAAAAAATTAA
1 -AAAAATT-AAAAAAAAATT-A
28060296 AAAAATTAAA
1 AAAAATTAAA
28060306 GTTCATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 16 0.59
22 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATTAAAAAAAAATTA
Found at i:28060897 original size:128 final size:128
Alignment explanation
Indices: 28060687--28060919 Score: 448
Period size: 128 Copynumber: 1.8 Consensus size: 128
28060677 TTAGTATAGT
*
28060687 AATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAGTGTAGCAACAATAGAGTATT
1 AATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATT
28060752 CTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
66 CTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
*
28060815 AATTAAAATTAAAATTTTAATGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATT
1 AATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATT
28060880 CTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATT
66 CTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATT
28060920 GCTTTGCAAG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 103 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (128 bp):
AATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATT
CTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
Found at i:28068847 original size:50 final size:50
Alignment explanation
Indices: 28068696--28068887 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 50
28068686 GGGGATGAGA
* *
28068696 TCCCATGTAAGACCATGTCTGGGAC-TGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ATCGA---TATGAGAGG
* * * *
28068751 TCCCACATAAGACCATGTCTAGGACATGACATTGGCA-CAGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATC-GATATGAGAGG
* * **
28068801 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAGG
* * * * *
28068851 TCCTATGTAAGACCATATCTGGGATATGTCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
28068888 GTACAGGAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
50 78 0.69
51 1 0.01
53 3 0.03
55 22 0.19
56 9 0.08
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAGG
Found at i:28076707 original size:50 final size:50
Alignment explanation
Indices: 28076646--28076927 Score: 330
Period size: 50 Copynumber: 5.5 Consensus size: 50
28076636 TGCCACACCT
* ** * *
28076646 CAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* * *
28076696 CAGACATGGTCTTACAGGGGACCTCTCATCTTGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* * *
28076746 CAGACATGGTCTTACATGGGACCTCTCATTTCGGTGCCAACGCTATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* * *
28076796 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTACCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* * * *
28076846 TAGACATTGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCC
* *
28076902 CAGACATGGTCCTACATGGGATCTCT
1 CAGACATGGTCTTACATGGGACCTCT
28076928 TTACCCAAAT
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 162 0.81
53 1 0.00
56 37 0.19
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
Done.