Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 110 of 185
Found at i:34590425 original size:18 final size:19
Alignment explanation
Indices: 34590383--34590446 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
34590373 TCACATGGTA
*
34590383 TATTTTTATAATTTTTATT
1 TATTTTTATAATTTTAATT
* *
34590402 ACATTTTTATTA-TTTAATT
1 -TATTTTTATAATTTTAATT
*
34590421 TATTTTTATAATTTTTATT
1 TATTTTTATAATTTTAATT
34590440 TATTTTT
1 TATTTTT
34590447 TAGAATCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.24
19 19 0.51
20 9 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTTTATAATTTTAATT
Found at i:34590447 original size:20 final size:20
Alignment explanation
Indices: 34590385--34590466 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
34590375 ACATGGTATA
*
34590385 TTTTTATAATTTTTA-TTACA
1 TTTTTATAATTTTTATTTA-T
* *
34590405 TTTTTATTA-TTTAATTTA-
1 TTTTTATAATTTTTATTTAT
34590423 TTTTTATAATTTTTATTTAT
1 TTTTTATAATTTTTATTTAT
* *
34590443 TTTTTAGAATCTATT-TTTAT
1 TTTTTATAAT-TTTTATTTAT
34590463 TTTT
1 TTTT
34590467 ATTACATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.15
19 12 0.23
20 29 0.56
21 3 0.06
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTTTATAATTTTTATTTAT
Found at i:34591310 original size:26 final size:26
Alignment explanation
Indices: 34591245--34591307 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
34591235 TAGAAATGTT
*
34591245 TTTAAAATTTTTAATTTTTTATATAC
1 TTTAGAATTTTTAATTTTTTATATAC
34591271 TTTAGAATTTTTAATATTTTTA-ATA-
1 TTTAGAATTTTTAAT-TTTTTATATAC
*
34591296 TTTATAATTTTT
1 TTTAGAATTTTT
34591308 TAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 11 0.32
26 17 0.50
27 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTAGAATTTTTAATTTTTTATATAC
Found at i:34591459 original size:26 final size:25
Alignment explanation
Indices: 34591430--34591483 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
34591420 AGACTTTTAT
* * *
34591430 ATTAATGTGTTATTTGAATTATTCAA
1 ATTAATGAGTTATTTAAATT-TTAAA
*
34591456 ATTATTGAGTTATTTAAATTTTAAA
1 ATTAATGAGTTATTTAAATTTTAAA
34591481 ATT
1 ATT
34591484 TAACACGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (25 bp):
ATTAATGAGTTATTTAAATTTTAAA
Found at i:34603324 original size:31 final size:30
Alignment explanation
Indices: 34603267--34603334 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
34603257 AAATAAAAGT
34603267 TATAAAAAATATTAAATTTTAATAAAAAAA
1 TATAAAAAATATTAAATTTTAATAAAAAAA
* * * * *
34603297 TATAAGAAATATTTAATTTTTATTAAAAAT
1 TATAAAAAATATTAAATTTTAATAAAAAAA
34603327 TATAAAAA
1 TATAAAAA
34603335 TTGTAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAAAAAATATTAAATTTTAATAAAAAAA
Found at i:34603694 original size:27 final size:29
Alignment explanation
Indices: 34603658--34603726 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
34603648 ATTTACAAAT
** *
34603658 TTTTATATTTTTACGATTTATATATA-TA
1 TTTTATATTTTTAAAATTTAAATATATTA
*
34603686 TTTTA-ATTTTTAAAATTTAAATATATTT
1 TTTTATATTTTTAAAATTTAAATATATTA
34603714 TTTTATATTTTTA
1 TTTTATATTTTTA
34603727 TTAAAGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.49
28 11 0.31
29 7 0.20
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTATATTTTTAAAATTTAAATATATTA
Found at i:34604009 original size:90 final size:91
Alignment explanation
Indices: 34603902--34604119 Score: 287
Period size: 91 Copynumber: 2.4 Consensus size: 91
34603892 TGCATTTTGG
* * *
34603902 CAATTGAGTGC-AAAAAAAAACTAGGGGCTTAATTGCATTTTTTAAAAAAATTT-AGGGTCTTTT
1 CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTAAAAAAATTTGAGGGCCTTTT
* * *
34603965 TTATGTATTTTGACAGTTCAAGTACC
66 TGATGTATTTTAAAAGTTCAAGTACC
* * * * *
34603991 CAATTGAATGCAAAAAAAAAAGTAGGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTTTT
1 CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTAAAAAAATTTGAGGGCCTTTT
*
34604056 TGATGTATTTTAAAAGTTCAAGTATC
66 TGATGTATTTTAAAAGTTCAAGTACC
* *
34604082 CAATTGAGTGCAAAAGCAAAAAGTAAGGGTTTAATTGC
1 CAATTGAGTGCAAAA-AAAAAAGTAGGGGTTTAATTGC
34604120 TTCTTCTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
89 10 0.09
90 36 0.33
91 45 0.41
92 19 0.17
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (91 bp):
CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTAAAAAAATTTGAGGGCCTTTT
TGATGTATTTTAAAAGTTCAAGTACC
Found at i:34604147 original size:91 final size:88
Alignment explanation
Indices: 34603902--34604148 Score: 239
Period size: 91 Copynumber: 2.7 Consensus size: 88
34603892 TGCATTTTGG
* * * * * *
34603902 CAATTGAGTGC-AAAAAAAAACTAGGGGCTTAATTGCATTTTTTAAAAAAATTT-AGGGTCTTTT
1 CAATTGAATGCAAAAAAAAAAGTAAGGGTTTAATTAC-TTTTTT-TAAAAATTTGAGGGT-TTTT
* *
34603965 TTATGTATTTTGACAGTTCAAGTACC
63 TTATGTATTTTAAAAGTTCAAGTACC
* *
34603991 CAATTGAATGCAAAAAAAAAAGTAGGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTTTT
1 CAATTGAATGCAAAAAAAAAAGTAAGGGTTTAATTACTTTTTTT-AAAAA-TTTGAGGG-TTTTT
* *
34604056 TGATGTATTTTAAAAGTTCAAGTATC
63 TTATGTATTTTAAAAGTTCAAGTACC
* * * **
34604082 CAATTGAGTGCAAAAGCAAAAAGTAAGGGTTTAATTGCTTCTTCTTT-TTAATTTGAGGGTTTTT
1 CAATTGAATGCAAAA-AAAAAAGTAAGGGTTTAATTACTT-TT-TTTAAAAATTTGAGGGTTTTT
34604146 TTA
63 TTA
34604149 GCCTTTAAGC
Statistics
Matches: 132, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
89 21 0.16
90 31 0.23
91 52 0.39
92 23 0.17
93 2 0.02
94 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (88 bp):
CAATTGAATGCAAAAAAAAAAGTAAGGGTTTAATTACTTTTTTTAAAAATTTGAGGGTTTTTTTA
TGTATTTTAAAAGTTCAAGTACC
Found at i:34605908 original size:285 final size:287
Alignment explanation
Indices: 34605407--34605931 Score: 663
Period size: 285 Copynumber: 1.8 Consensus size: 287
34605397 ATGCCAATTG
* * * *
34605407 GATTAGTAAAATCTTAAATTTACCACTCAACTAATATTTTATTTTGAGAATATTTTATATTTTTT
1 GATTAGTAAAACCTTAAAGTTACCACTCAACTAAAACTTTATTTTGAGAATATTTTATATTTTTT
** *
34605472 TAATACGCACAATTTATTATCTTCACCAGTTGTATATCTATATACTTACTAGTAATAATACCCCA
66 TAATACGCACAATTTATTATCCCCACCAGTTGTATATC-ATATACTTACTA-TAATAAAACCCCA
* * * * *
34605537 AACTGAGTTGGTGTCATGGGTTAACCAGGTACCAACTCGATTAGGAAATTATAGAAATGTCCTTC
129 AACTAAGTTGGTGTCATAGGTTAACCAGGCACCAACTAGATTAGGAAATTATAGAAATGTCATTC
* * * * * * * *
34605602 TATAATTAAAATGAGTTATATTATTTAAAGGTATTTTAGTTTTTTTTTCATTTTAACAGAAACCA
194 CATAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTTTTTCATTTTAACAGAAACCA
34605667 AATGATGAGATTTGAACCCACACTGATTT
259 AATGATGAGATTTGAACCCACACTGATTT
34605696 GATTAGTAAAACCTTAAAGTTACCACTCAAGC-AAAACTTTATTTT-A-ATATATTTTATACATT
1 GATTAGTAAAACCTTAAAGTTACCACTCAA-CTAAAACTTTATTTTGAGA-ATATTTTAT--ATT
* *
34605758 CTTTTTAATATGTACAATTTATTATCCCCACCAGTTGTATATC-TATAC-TA-T-TAATAAAACC
62 -TTTTTAATACGCACAATTTATTATCCCCACCAGTTGTATATCATATACTTACTATAATAAAACC
* ** *
34605819 TCTGACTAAGTTGGTGTCATAGGTTAACCGGGCACCAACTTAG-TTAGGAAATTAT-GAAAATGT
126 CCAAACTAAGTTGGTGTCATAGGTTAACCAGGCACCAAC-TAGATTAGGAAATTATAG-AAATGT
*
34605882 CATTCCGTAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTT
189 CATTCCATAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTT
34605932 CATTTAGGAA
Statistics
Matches: 202, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
284 1 0.00
285 99 0.49
286 2 0.01
287 2 0.01
288 12 0.06
289 44 0.22
290 4 0.02
291 38 0.19
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (287 bp):
GATTAGTAAAACCTTAAAGTTACCACTCAACTAAAACTTTATTTTGAGAATATTTTATATTTTTT
TAATACGCACAATTTATTATCCCCACCAGTTGTATATCATATACTTACTATAATAAAACCCCAAA
CTAAGTTGGTGTCATAGGTTAACCAGGCACCAACTAGATTAGGAAATTATAGAAATGTCATTCCA
TAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTTTTTCATTTTAACAGAAACCAAA
TGATGAGATTTGAACCCACACTGATTT
Found at i:34606056 original size:291 final size:290
Alignment explanation
Indices: 34605241--34606381 Score: 810
Period size: 291 Copynumber: 3.9 Consensus size: 290
34605231 AACCAAGTTT
** * * * * * * * * * *
34605241 GTGTCACAGGTTAACCTTGTACCAACTCGGTTAGAAAATTACAGAAATATCCTTTCGTAATTAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
* * ** * * * *
34605306 ATAAATCATATCATTTGAGGGCATTTTAGTCT-TTTCATTTTAACAAAAACCAAGAAAAATATGC
66 ATAAATAATATTATTCAAAGGCACTTTAGTCTATTT-ATTTTAGCAAAAATCAAGAAAAATATGC
* * * *
34605370 ATATGGTAAGATTTTAGATTTGAATCC-ATGCCAATTGGATTAGTAAAATCTTAAATTTACCACT
130 ATATGGT--G-----GGAGTT-AAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACT
* * * * * * *
34605434 CAACTAATATTTTATTTTGAGAATATTTTAT--ATTTTTTTAATACGCACAATTTATTATCTTCA
187 CAACCAAAACTTTATTTT----ATTTTTTATACATTTTTTTAATATGTACAATTTATTATCTCCA
* * *
34605497 CCAGTTGTATATCTATA-TACTTACTAGTAATAATACCCCAAACTGAGTTG
248 CCAGTTGTATATCTATACTA-TTA--A-TAA-AAT--CCCTAGCTAAG-TG
** * * * * * *
34605547 GTGTCATGGGTTAACCAGGTACCAACTC-GATTAGGAAATTATAGAAATGTCCTTCTATAATTAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAG-TTAGGAAATTATATAAATGTCATTCCATAATAAA
* * * * * * ** * * * *
34605611 AATGAGTTATATTATTTAAAGGTATTTTAGT-T-TTT-TTTT--C--ATTTTAA-CAGAA-A-CC
65 AATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAGCAAAAATCAAGAAAAATATGC
* * * * * * ** ** * * *
34605666 AAATGATGAGATTTGAACCCACACTGATTTGATTAGTAAAACCTTAAAGTTACCACTCAAGCAAA
130 ATATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAA
*
34605731 ACTTTATTTTAATATATTTTATACATTCTTTTTAATATGTACAATTTATTATCCCCACCAGTTGT
195 ACTTTATTTT-AT-T-TTTTATACATT-TTTTTAATATGTACAATTTATTATCTCCACCAGTTGT
34605796 ATATCTATACTATTAATAAAA-CCTCT-GACTAAGTTG
256 ATATCTATACTATTAATAAAATCC-CTAG-CTAAG-TG
* * *
34605832 GTGTCATAGGTTAACCGGGCACCAACTTAGTTAGGAAATTATGA-AAATGTCATTCCGTAATAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTAT-ATAAATGTCATTCCATAATAAA
* *
34605896 AATAAATTATATTATTCAAAGGCACTTTAGTCT-TTTCA-TTTAGGAAAAA-CAAGAAAAATATG
65 AATAAATAATATTATTCAAAGGCACTTTAGTCTATTT-ATTTTAGCAAAAATCAAGAAAAATATG
* * * *
34605958 CATGTGGTGGGAGTTAAA-CTCATGCCAATTGGATTAGAAAAACCTTAAATTTACTACTCAATCA
129 CATATGGTGGGAGTTAAACCT-ATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCA
* * *
34606022 AAATTTTATTTTGATTTTTTATACAATTTTTTTAAATAT-TCACAATTTATTATATTCACCAGTT
193 AAACTTTATTTT-ATTTTTTATAC-ATTTTTTT-AATATGT-ACAATTTATTATCTCCACCAGTT
* *
34606086 GTATATTTATACTATTAATAAAATCCCTAGCTGAGTG
254 GTATATCTATACTATTAATAAAATCCCTAGCTAAGTG
* * * * * *
34606123 GTGTCACAGTTTAACTGGGTACCAACTCGGTTAGGAAATTATATAAATGTCCTTCCATAATTAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
* * * ***
34606188 ATAAGTAATATTATTCGATGGTGTTTTAGTCTATTTATTTTAGCAAAAATCAAGAAAAATATGCA
66 ATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAGCAAAAATCAAGAAAAATATGCA
* * * * **
34606253 TATGGTGGTATTTAAACCTATGTCAATTGGAGTAGTAAAATATTAAATTTACCACTCAACCAAAA
131 TATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAAA
* * * * *
34606318 CTTCA--TT-TTTTTCATACA-TTTTTT-ATATGCACAAATTATTATCTCCACTAGTTGTATATC
196 CTTTATTTTATTTTTTATACATTTTTTTAATATGTACAATTTATTATCTCCACCAGTTGTATATC
34606378 TATA
261 TATA
34606382 TTTACTATTA
Statistics
Matches: 675, Mismatches: 126, Indels: 89
0.76 0.14 0.10
Matches are distributed among these distances:
284 2 0.00
285 119 0.18
286 9 0.01
287 11 0.02
288 13 0.02
289 60 0.09
290 6 0.01
291 147 0.22
292 74 0.11
293 132 0.20
294 3 0.00
296 6 0.01
297 1 0.00
298 3 0.00
299 3 0.00
301 1 0.00
303 4 0.01
305 5 0.01
306 76 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (290 bp):
GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
ATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAGCAAAAATCAAGAAAAATATGCA
TATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAAA
CTTTATTTTATTTTTTATACATTTTTTTAATATGTACAATTTATTATCTCCACCAGTTGTATATC
TATACTATTAATAAAATCCCTAGCTAAGTG
Found at i:34606385 original size:291 final size:289
Alignment explanation
Indices: 34605703--34606381 Score: 716
Period size: 293 Copynumber: 2.3 Consensus size: 289
34605693 TTTGATTAGT
* * * * *
34605703 AAAACCTTAAAGTTACCACTCAAGCAAAACTTTATTTTAATATATTTTATAC-ATTCTTTTTAAT
1 AAAACATTAAATTTACCACTCAACCAAAACTTCA-TTT-AT-T-TTTCATACAATT-TTTTTAAT
* * ** *
34605767 ATGTACAATTTATTATCCCCACCAGTTGTATATCTATACTATTAATAAAACCTCTGACTAAGTTG
61 ATGCACAAATTATTATATCCACCAGTTGTATATTTATACTATTAATAAAACCTCTGACTAAGTTG
* * *
34605832 GTGTCATAGGTTAACCGGGCACCAACTTAGTTAGGAAATTATGAAAATGTCATTCCGTAATAAAA
126 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATGAAAATGTCATTCCATAATAAAA
* * *
34605897 ATAAATTATATTATTCAAAGGCACTTTAGTCTTTTCATTTAGGAAAAACAAGAAAAATATGCATG
191 ATAAATAATATTATTCAAAGGCACTTTAGTCTTTTCATTTAGCAAAAACAAGAAAAATATGCATA
*
34605962 TGGTGGGAGTTAAACTCATGCCAATTGGATTAGA
256 TGGTGGGAGTTAAACTCATGCCAATTGGAGTAGA
* * * * * *
34605996 AAAACCTTAAATTTACTACTCAATCAAAATTTTATTTTGATTTTTTATACAATTTTTTTAAATAT
1 AAAACATTAAATTTACCACTCAACCAAAACTTCA-TTT-ATTTTTCATACAATTTTTTT-AATAT
* * * *
34606061 TCACAATTTATTATATTCACCAGTTGTATATTTATACTATTAATAAAATCC-CT-AGCTGAG-TG
63 GCACAAATTATTATATCCACCAGTTGTATATTTATACTATTAATAAAA-CCTCTGA-CTAAGTTG
* * * * * *
34606123 GTGTCACAGTTTAACTGGGTACCAACTCGGTTAGGAAATTAT-ATAAATGTCCTTCCATAATTAA
126 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATGA-AAATGTCATTCCATAATAAA
* * * ***
34606187 AATAAGTAATATTATTCGATGGTGTTTTAGTCTATTT-ATTTTAGCAAAAATCAAGAAAAATATG
190 AATAAATAATATTATTCAAAGGCACTTTAGTCT-TTTCA-TTTAGCAAAAA-CAAGAAAAATATG
* * * *
34606251 CATATGGTGGTATTTAAAC-CTATGTCAATTGGAGTAGT
252 CATATGGTGGGAGTTAAACTC-ATGCCAATTGGAGTAGA
*
34606289 AAAATATTAAATTTACCACTCAACCAAAACTTCA-TT-TTTTTCATAC-A-TTTTTT-ATATGCA
1 AAAACATTAAATTTACCACTCAACCAAAACTTCATTTATTTTTCATACAATTTTTTTAATATGCA
* * *
34606349 CAAATTATTATCTCCACTAGTTGTATATCTATA
66 CAAATTATTATATCCACCAGTTGTATATTTATA
34606382 TTTACTATTA
Statistics
Matches: 329, Mismatches: 48, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
285 34 0.10
287 6 0.02
288 1 0.00
289 9 0.03
290 1 0.00
291 98 0.30
292 71 0.22
293 109 0.33
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (289 bp):
AAAACATTAAATTTACCACTCAACCAAAACTTCATTTATTTTTCATACAATTTTTTTAATATGCA
CAAATTATTATATCCACCAGTTGTATATTTATACTATTAATAAAACCTCTGACTAAGTTGGTGTC
ACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATGAAAATGTCATTCCATAATAAAAATAAA
TAATATTATTCAAAGGCACTTTAGTCTTTTCATTTAGCAAAAACAAGAAAAATATGCATATGGTG
GGAGTTAAACTCATGCCAATTGGAGTAGA
Found at i:34616666 original size:61 final size:56
Alignment explanation
Indices: 34616594--34616740 Score: 152
Period size: 57 Copynumber: 2.5 Consensus size: 56
34616584 AATTGACGGT
* *
34616594 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAG-CGTCCCGAAGAATAAGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAACAAGTG-G
* * *
34616656 AAAAAGATCTAGCTCGGACAGGTGATCTTGATATAGCCCTCCCGAAGAACATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAACAAGTGG
* *
34616712 AAAATAGATTTAGCCCGGACGGGTAATCT
1 AAAA-AGATCTAGCCCGGACGGGTGATCT
34616741 GAATTAGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 13 0.18
57 35 0.47
58 1 0.01
60 1 0.01
61 19 0.26
62 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (56 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAACAAGTGG
Found at i:34616913 original size:67 final size:67
Alignment explanation
Indices: 34616805--34616939 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
34616795 GTAATTGTCG
* *
34616805 TTGCAAGGGATTTAGCCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
34616870 TC
66 TC
* * *
34616872 TTGCAGGGGATTTAACCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
1 TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
34616937 TC
66 TC
34616939 T
1 T
34616940 GAATTGGAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (67 bp):
TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
TC
Found at i:34628092 original size:44 final size:44
Alignment explanation
Indices: 34627956--34628456 Score: 488
Period size: 44 Copynumber: 11.3 Consensus size: 44
34627946 TAATTATATA
* *
34627956 TTCGATCTACTTCATTGCCAATACAGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTATC
* * * ***
34628001 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTT-TC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTG-TTATC
*
34628046 TTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
* * * ***
34628090 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTATC
* * *
34628135 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATT
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
* *
34628179 TTCGATCTACTTCACGCCAATACATGAAGACAAGCTATGCTT-TC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTATC
* * *
34628223 TTTGGTCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
*** * * **
34628267 -TCTGATCTACTTCATATCAACATATGAAGACAAGATCTACTATC
1 TTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
* * * *
34628311 -TCTGATCTACTCCATGTCAATACATGAAGACAAGATTTGTTATC
1 TTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
* * * *** * *
34628355 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATT
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTATC
* * * *
34628400 TTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATT
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
34628444 TTCGATCTACTTC
1 TTCGATCTACTTC
34628457 GCCACCAGTA
Statistics
Matches: 372, Mismatches: 75, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
43 4 0.01
44 246 0.66
45 120 0.32
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATC
Found at i:34628123 original size:89 final size:89
Alignment explanation
Indices: 34627956--34628495 Score: 673
Period size: 89 Copynumber: 6.1 Consensus size: 89
34627946 TAATTATATA
* * *
34627956 TTCGATCTACTTCATTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCA
1 TTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCA
34628021 GTATGGGAAGACAAGATCTGCTTTC
65 GTATGGGAAGACAAGATCTGCTTTC
* *
34628046 TTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAG
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAG
34628111 TATGGGAAGACAAGATCTG-TTATC
66 TATGGGAAGACAAGATCTGCTT-TC
* * * * *
34628135 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC-ACGCCAA
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAG
*** * *
34628199 TACATGAAGACAAGCTATGCTTTC
66 TATGGGAAGACAAGATCTGCTTTC
* * ** *
34628223 TTTGGTCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCATATCAA
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTC-GATCTACTTC--GCCAC
* *
34628287 CA-TAT--GAAGACAAGATCTACTATC
63 CAGTATGGGAAGACAAGATCTGCTTTC
* * * * *
34628311 -TCTGATCTACTCCATGTCAATACATGAAGACAAGATTTGTTATCTTCGATCTACTTCGCCACCA
1 TTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCA
34628375 GTATGGGAAGACAAGATCTGCTATT-
65 GTATGGGAAGACAAGATCTGCT-TTC
* * *
34628400 TTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATTTTCGATCTACTTCGCCACCAG
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAG
*
34628465 TATGGGAAGACAAGATCTGCTATC
66 TATGGGAAGACAAGATCTGCTTTC
*
34628489 TTTGATC
1 TTCGATC
34628496 AATTCCACTG
Statistics
Matches: 390, Mismatches: 46, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
86 4 0.01
87 6 0.02
88 133 0.34
89 227 0.58
90 17 0.04
91 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (89 bp):
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAG
TATGGGAAGACAAGATCTGCTTTC
Found at i:34628446 original size:265 final size:266
Alignment explanation
Indices: 34627961--34628456 Score: 750
Period size: 265 Copynumber: 1.9 Consensus size: 266
34627951 ATATATTCGA
* * * *
34627961 TCTACTTCATTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTATG
1 TCTACTTCATCGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCAACAGTAT-
* * * *
34628026 GGAAGACAAGATCTGCTTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTATCT
65 GGAAGACAAGATCTACTATCTTCGATCTACTCCACGCCAATACATGAAGACAAGATCTGTTATCT
* *
34628091 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTCGATCTACTTCACGCTAAT
130 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT
34628156 ACATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGCTATGCTT
195 ACATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGCTATGCTT
34628221 TCTTTGG
260 TCTTTGG
* *
34628228 TCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCATATCAACA-T
1 TCTACTTCATCGCCAATACAGGAAGACAAGATCTGCTATCTTC-GATCTACTTC--ACCAACAGT
* * *
34628290 AT-GAAGACAAGATCTACTATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATTTGTTA
63 ATGGAAGACAAGATCTACTATCTTC-GATCTACTCCACGCCAATACATGAAGACAAGATCTGTTA
* * *
34628353 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATTTTTGATCTACTTCATGCC
127 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCC
34628418 AATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC
192 AATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC
34628457 GCCACCAGTA
Statistics
Matches: 207, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
264 2 0.01
265 152 0.73
266 37 0.18
267 12 0.06
268 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (266 bp):
TCTACTTCATCGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCAACAGTATG
GAAGACAAGATCTACTATCTTCGATCTACTCCACGCCAATACATGAAGACAAGATCTGTTATCTT
CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
CATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGCTATGCTTT
CTTTGG
Found at i:34628629 original size:44 final size:44
Alignment explanation
Indices: 34628574--34628900 Score: 143
Period size: 44 Copynumber: 7.4 Consensus size: 44
34628564 AAAATCCGCC
* *
34628574 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* * * * * *
34628618 ATCTTCAATCTATTCCATTGCTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* * * * * **
34628659 CTGGCTTCAATGTACTCCACT-GTAACCTCAGGGAGGTAAAATCCACT-
1 AT--CTTCAATCTACTCCACTACT-ACCT-AGGGAGATAAGAT-CTGTA
** * *
34628706 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* ** * * *
34628750 ATCTTCAATCTATTCCACTGTTGCCCA-GGAGGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTACCTAGGGA-GATAAGATCTGTA
* * * * ***
34628791 ATGGCTTCAATGTACTCCACT-GTAACCTCAGGGAGGTAAAATCTACC
1 AT--CTTCAATCTACTCCACTACT-ACCT-AGGGAGATAAGATCTGTA
** * * *
34628838 ATCTTTGATCTGCTCTACTACTACTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* *
34628882 ATCTTCAATATATTCCACT
1 ATCTTCAATCTACTCCACT
34628901 GTTGCCCAGG
Statistics
Matches: 197, Mismatches: 66, Indels: 40
0.65 0.22 0.13
Matches are distributed among these distances:
41 7 0.04
42 4 0.02
43 44 0.22
44 97 0.49
45 38 0.19
46 3 0.02
47 3 0.02
48 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
Found at i:34628716 original size:132 final size:132
Alignment explanation
Indices: 34628510--34628972 Score: 714
Period size: 132 Copynumber: 3.5 Consensus size: 132
34628500 CCACTGCCGA
* * * ** *
34628510 CCAGGGAGTTAGAATTACTGGTTTCAATATACTCCACTGTAATGTC-GGAGAGGTAAAATCCGCC
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG-GAGGTAAAATCCACC
* * * * * *
34628574 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCATTGC
65 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGT
34628639 TGC
130 TGC
*
34628642 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
34628707 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
34628772 GC
131 GC
* *
34628774 CCA-GGAGGATAGAATTAATGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACC
1 CCAGGGA-GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACC
* *
34628838 ATCTTTGATCTGCTCTACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGT
65 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGT
34628903 TGC
130 TGC
* * *
34628906 CCAGGGGGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCTACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
34628971 TC
66 TC
34628973 AACCTGCTCC
Statistics
Matches: 307, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 3 0.01
132 300 0.98
133 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
GC
Found at i:34629790 original size:13 final size:13
Alignment explanation
Indices: 34629772--34629796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34629762 AAATTGTCGA
34629772 GGATAACAAAGAT
1 GGATAACAAAGAT
34629785 GGATAACAAAGA
1 GGATAACAAAGA
34629797 AATTGATTTA
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:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:34633086 original size:19 final size:20
Alignment explanation
Indices: 34633062--34633101 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34633052 AACTGTGTTT
* *
34633062 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
34633081 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
34633101 A
1 A
34633102 TATGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:34642925 original size:31 final size:31
Alignment explanation
Indices: 34642879--34642937 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
34642869 TTTTTTAAAA
*
34642879 ATTTTGTATGAATATTTTTGAAGTTTTGAATC
1 ATTTTGTATGAATATTTTT-AAATTTTGAATC
*
34642911 ATTTT-TATGTATATTTTTAAATTTTGA
1 ATTTTGTATGAATATTTTTAAATTTTGA
34642938 TAAAGTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 12 0.48
32 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.58
Consensus pattern (31 bp):
ATTTTGTATGAATATTTTTAAATTTTGAATC
Found at i:34643168 original size:9 final size:10
Alignment explanation
Indices: 34643156--34643180 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34643146 ATTAAAATTC
34643156 AAAAAAATAA
1 AAAAAAATAA
34643166 AAAAAAATAA
1 AAAAAAATAA
34643176 AAAAA
1 AAAAA
34643181 TTGATTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:34643902 original size:17 final size:17
Alignment explanation
Indices: 34643880--34643913 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
34643870 TACCATTTTT
34643880 GAAGAAAGAA-AAGAAGA
1 GAAG-AAGAAGAAGAAGA
34643897 GAAGAAGAAGAAGAAGA
1 GAAGAAGAAGAAGAAGA
34643914 AGGAGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAGAAGAAGA
Found at i:34643998 original size:17 final size:19
Alignment explanation
Indices: 34643957--34643999 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
34643947 AAGAAAAGAG
*
34643957 AAGGAGAATAGAGAGAGGG
1 AAGGAGAATAGAGAGAGGA
34643976 AAGGAGAA-AGAGA-AGGA
1 AAGGAGAATAGAGAGAGGA
34643993 AAGGAGA
1 AAGGAGA
34644000 GTTTGTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.02
Consensus pattern (19 bp):
AAGGAGAATAGAGAGAGGA
Found at i:34644498 original size:33 final size:33
Alignment explanation
Indices: 34644456--34644519 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
34644446 ATATGTTCTA
34644456 ATTTTTTAAGATTTTATAATTGAGAATAAGAAC
1 ATTTTTTAAGATTTTATAATTGAGAATAAGAAC
34644489 ATTTTTTAAGATTTTATAATTGAGAATAAGA
1 ATTTTTTAAGATTTTATAATTGAGAATAAGA
34644520 GTTTATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (33 bp):
ATTTTTTAAGATTTTATAATTGAGAATAAGAAC
Found at i:34645985 original size:14 final size:14
Alignment explanation
Indices: 34645966--34645996 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34645956 ACATTTTTTT
*
34645966 TTCTAATGATACTA
1 TTCTAACGATACTA
34645980 TTCTAACGATACTA
1 TTCTAACGATACTA
34645994 TTC
1 TTC
34645997 AAACATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:34646668 original size:6 final size:6
Alignment explanation
Indices: 34646659--34646704 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
34646649 CTAGAGGCAA
* * *
34646659 AGCCCG AGCCCG AGCCCG AGCCCA AGACCG AGCCCG AGCCTG AGCC
1 AGCCCG AGCCCG AGCCCG AGCCCG AGCCCG AGCCCG AGCCCG AGCC
34646705 ACAACCGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.46, G:0.30, T:0.02
Consensus pattern (6 bp):
AGCCCG
Found at i:34646928 original size:33 final size:33
Alignment explanation
Indices: 34646858--34646931 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
34646848 CGCGGTATAG
* **
34646858 CACTCCTCTAGGCCCATATCCACTACATTACTC
1 CACTCCTCTAGGCCCATATCCACTACAATACAA
* ** *
34646891 CACTCCTCTTGGGTCATATCCACTGCAATACAA
1 CACTCCTCTAGGCCCATATCCACTACAATACAA
34646924 CACTCCTC
1 CACTCCTC
34646932 CCGGCTCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.41, G:0.08, T:0.27
Consensus pattern (33 bp):
CACTCCTCTAGGCCCATATCCACTACAATACAA
Found at i:34647365 original size:48 final size:48
Alignment explanation
Indices: 34647257--34647357 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
34647247 ATTAATTGCA
* * *
34647257 AAATTACA-ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATAT
1 AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
* *
34647304 AAATTAAATACATTACAACATTAAAAATTGAAACAAACTTTGTAATAT
1 AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
34647352 AAATTA
1 AAATTA
34647358 GGTACATTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 7 0.15
48 41 0.85
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (48 bp):
AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
Found at i:34650887 original size:33 final size:33
Alignment explanation
Indices: 34650834--34651101 Score: 208
Period size: 33 Copynumber: 7.7 Consensus size: 33
34650824 TTATCCGTTA
*
34650834 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* *
34650868 TCGGGGAATTAGCACTTAGCAACC-CTTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC----CA-A--TGAG
* *
34650907 ATACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
*
34650943 TCGGGAAATCAGCACTTAGCAACCACCAATGAG
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
* * *
34650976 TCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
*
34651015 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
34651051 TCGGGGAATCAGCACTTAGCAACC-CC--T---
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
*
34651078 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
34651102 CCCTTTATAT
Statistics
Matches: 195, Mismatches: 19, Indels: 47
0.75 0.07 0.18
Matches are distributed among these distances:
27 23 0.12
30 1 0.01
32 3 0.02
33 87 0.45
34 10 0.05
35 2 0.01
36 8 0.04
37 2 0.01
38 2 0.01
39 10 0.05
40 2 0.01
41 6 0.03
42 38 0.19
43 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:34650992 original size:108 final size:108
Alignment explanation
Indices: 34650843--34651074 Score: 410
Period size: 108 Copynumber: 2.1 Consensus size: 108
34650833 ATCGGTGGAT
* * *
34650843 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATTAGCACTTAGCAACCCTTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
* *
34650908 TACGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGAAA
66 TACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGAAA
34650951 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
*
34651016 TACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAA
66 TACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGAAA
34651059 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
34651075 CCTTGGGGGA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 118 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (108 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
TACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGAAA
Found at i:34653538 original size:16 final size:16
Alignment explanation
Indices: 34653517--34653558 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
34653507 AAATCACAAT
*
34653517 AAACAAAATAACTTTA
1 AAACAAAACAACTTTA
34653533 AAACAAAACAACTTTA
1 AAACAAAACAACTTTA
34653549 AAACAAAACA
1 AAACAAAACA
34653559 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACAAAACAACTTTA
Found at i:34658611 original size:13 final size:13
Alignment explanation
Indices: 34658589--34658618 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34658579 TTGAAAGCCT
*
34658589 AGAGAGAAGGGGG
1 AGAGAAAAGGGGG
34658602 AGAGAAAAGGGGG
1 AGAGAAAAGGGGG
34658615 AGAG
1 AGAG
34658619 TTTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (13 bp):
AGAGAAAAGGGGG
Found at i:34670754 original size:108 final size:110
Alignment explanation
Indices: 34670573--34670784 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
34670563 CATTTTGTAT
* *
34670573 CTTAGCAAAATTTACTATTTTGATTAATTTATTCATTTCGAGCTTTATTCTCAATAAAATTTCAT
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTCAT
* *
34670638 CTTATCCATTGTGCTAATCCTTTT-AATC-TTTTTCATTCTGAAC
66 CTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATTCTGAAC
* * *
34670681 CTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATTAAA-TTCTA
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTC-A
* * *
34670745 TCTTGTCCATTTTGATAATCTTTTTCAAGCATTTTTCATT
65 TCTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATT
34670785 GAAATAACGA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
107 3 0.03
108 76 0.84
109 3 0.03
110 9 0.10
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (110 bp):
CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTCAT
CTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATTCTGAAC
Found at i:34671236 original size:24 final size:25
Alignment explanation
Indices: 34671201--34671252 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
34671191 ATGTCCCAAA
34671201 ATTACAAGTGGACTT-AACCTTGAAG
1 ATTACAAGTGGA-TTAAACCTTGAAG
*
34671226 ATTAC-AGTGGATTAAACTTTGAAG
1 ATTACAAGTGGATTAAACCTTGAAG
34671250 ATT
1 ATT
34671253 GTAGTGGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 18 0.72
25 5 0.20
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (25 bp):
ATTACAAGTGGATTAAACCTTGAAG
Found at i:34671632 original size:44 final size:44
Alignment explanation
Indices: 34671575--34672263 Score: 759
Period size: 44 Copynumber: 15.7 Consensus size: 44
34671565 CCATATCAAG
* *
34671575 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * * ** *****
34671619 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
34671662 TCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGTAGA
* *
34671706 TCCTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
34671750 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
34671794 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * * * ** *****
34671838 TCTTATCTTCCTAAACAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
*
34671881 TCCTATCTCCTTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGTAGA
*
34671925 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
34671969 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
*
34672013 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG-ACGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA-G-A
* * * ** *****
34672057 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* * *
34672100 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* * *
34672144 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
*
34672188 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-GAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * *
34672232 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
34672264 AGATGATCAG
Statistics
Matches: 547, Mismatches: 83, Indels: 30
0.83 0.13 0.05
Matches are distributed among these distances:
42 3 0.01
43 98 0.18
44 442 0.81
45 3 0.01
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
Found at i:34671954 original size:219 final size:219
Alignment explanation
Indices: 34671575--34672263 Score: 1227
Period size: 219 Copynumber: 3.1 Consensus size: 219
34671565 CCATATCAAG
34671575 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
34671640 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
*
34671705 ATCCTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
34671770 GTGGAGCAGGTCAAAGATGGTAGA
196 GTGGAGCAGGTCAAAGATGGTAGA
*
34671794 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAACAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
*
34671859 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
34671924 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
34671989 GTGGAGCAGGTCAAAGATGGTAGA
196 GTGGAGCAGGTCAAAGATGGTAGA
*
34672013 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
* * *
34672078 TGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
* *
34672143 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
* * *
34672208 GTGGAGCAGATCGAAGACGGT-GAA
196 GTGGAGCAGGTCAAAGATGGTAG-A
* * *
34672232 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
34672264 AGATGATCAG
Statistics
Matches: 452, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
218 1 0.00
219 451 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (219 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
GTGGAGCAGGTCAAAGATGGTAGA
Found at i:34672261 original size:175 final size:176
Alignment explanation
Indices: 34671575--34672263 Score: 815
Period size: 175 Copynumber: 3.9 Consensus size: 176
34671565 CCATATCAAG
* * * * *
34671575 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-ATCCTATCTCCCTAAGCAGTA
* ** * *** *
34671639 GTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATG-
65 GTGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGACGA
* *
34671701 -GTAGATCCTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
129 CG-A-ATCCTATCTCCTTAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
*
34671750 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * * * * * ** *
34671815 TGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAACAGTAGTGAAGCAGATTTAAG-CCAC
66 TGGAGCAGATCAAAGACGGTAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAC
* * *
34671878 CAGTCCTATCTCCTTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
130 GAATCCTATCTCCTTAAGCAGTAGTGAAGCAGA-TCGAAGATGGTAGA
34671925 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* *
34671990 TGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
66 TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
* ** *****
34672055 AATCTTATCTTCC-TAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
131 AATCCTATC-TCCTTAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
* *
34672100 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * * **
34672165 TGGAGTAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG
66 TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
*
34672230 AATCTTATCTTCC-TAAGCAGTAGTGAAGCAGATC
131 AATCCTATC-TCCTTAAGCAGTAGTGAAGCAGATC
34672264 AGATGATCAG
Statistics
Matches: 450, Mismatches: 53, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
174 1 0.00
175 381 0.85
176 63 0.14
177 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (176 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
AATCCTATCTCCTTAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
Found at i:34673303 original size:42 final size:42
Alignment explanation
Indices: 34673244--34673466 Score: 216
Period size: 43 Copynumber: 5.2 Consensus size: 42
34673234 GTGGACAAAT
* * * * *
34673244 GCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCGAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAAAAC
* * * *
34673286 GCCGTTAAAGAGCATGATCTTTAGCGGCACTTTTCCC-ATAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCTA-AAAC
* *
34673329 GCCGCTAAAGAACATGACCTTTAGTGGCGC-TTCCCTAAAGAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAAA-AC
*
34673371 GCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCTAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTT-CCCTAAAAC
* * * ** * *
34673414 GCCGTTAAAAAACATGACTTTTAGCAACACTTTTCCCAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCTAAAAC
34673457 GCCGCTAAAG
1 GCCGCTAAAG
34673467 GTCATGAAAA
Statistics
Matches: 149, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
41 7 0.05
42 56 0.38
43 76 0.51
44 10 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAAAAC
Found at i:34673393 original size:85 final size:85
Alignment explanation
Indices: 34673240--34673466 Score: 242
Period size: 85 Copynumber: 2.7 Consensus size: 85
34673230 TTATGTGGAC
* * * * * * *
34673240 AAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCGAAAACGCCGTTAAAGAGCATGATC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAAACGCCGCTAAAGAACATAACC
34673305 TTTAGCGGCACTTTTCCCAT-
66 TTTAGCGGCAC-TTTCCCATA
* *
34673325 AAATGCCGCTAAAGAACATGACCTTTAGTGGCGC-TTCCCTAAAGACGCCGCTAAAGAACATAAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAA-ACGCCGCTAAAGAACATAAC
*
34673389 CTTTAGCGGCACTTTCCCCTA
65 CTTTAGCGGCACTTTCCCATA
* * * * ** * * *
34673410 AAACGCCGTTAAAAAACATGACTTTTAGCAACACTTTTCCCAAAAATGCCGCTAAAG
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTCCCGAAAACGCCGCTAAAG
34673467 GTCATGAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
84 14 0.12
85 85 0.72
86 11 0.09
87 8 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAAACGCCGCTAAAGAACATAACC
TTTAGCGGCACTTTCCCATA
Found at i:34679081 original size:13 final size:13
Alignment explanation
Indices: 34679063--34679088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34679053 GTTATTATGA
34679063 TTGATTAAAAAAC
1 TTGATTAAAAAAC
34679076 TTGATTAAAAAAC
1 TTGATTAAAAAAC
34679089 AAGTATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TTGATTAAAAAAC
Found at i:34679184 original size:54 final size:54
Alignment explanation
Indices: 34679126--34679473 Score: 195
Period size: 54 Copynumber: 6.0 Consensus size: 54
34679116 ATTCAAGGAA
* * * *
34679126 TAAATTATATATTATT-ATTAAATTATATTTAATAATAATTATTTTAAATTTTAT
1 TAAATCATATATT-TTAATTAAAATATATTTAATAATAATTATTTCAAATTATAT
*
34679180 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATA--T
* * * * * *
34679236 TATAGTATCATATATTATGATTTTAGTAAAT-TCATATAAGAAT-ATTGATTATTAAGAATTTTA
1 TA-A--ATCATATATT-TTA-ATTA--AAATAT-ATTTAATAATAATT-A-T-TTCA-AATTATA
34679299 T
54 T
* *
34679300 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTA--TAT
* * ** * * *
34679356 TATATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTAT
1 TA-A-ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATAATAATTATTTCA-AATTATAT
* *
34679419 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATAT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATAT
34679473 T
1 T
34679474 TTATAGTATC
Statistics
Matches: 226, Mismatches: 36, Indels: 64
0.69 0.11 0.20
Matches are distributed among these distances:
53 2 0.01
54 67 0.30
55 6 0.03
56 13 0.06
57 17 0.08
58 13 0.06
59 18 0.08
60 9 0.04
61 21 0.09
62 8 0.04
63 20 0.09
64 9 0.04
65 17 0.08
66 6 0.03
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (54 bp):
TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATAT
Found at i:34679321 original size:18 final size:17
Alignment explanation
Indices: 34679293--34679327 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34679283 ATTATTAAGA
*
34679293 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34679310 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34679328 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34679423 original size:119 final size:120
Alignment explanation
Indices: 34679172--34679588 Score: 730
Period size: 120 Copynumber: 3.5 Consensus size: 120
34679162 AATTATTTTA
* *
34679172 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
34679236 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
34679292 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
34679357 ATA-TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
34679411 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
34679476 ATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
34679531 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGATTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
34679589 ATGATTAAAT
Statistics
Matches: 285, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 115 0.40
120 162 0.57
121 8 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:34679446 original size:16 final size:16
Alignment explanation
Indices: 34679425--34679471 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
34679415 TTATTAAATT
34679425 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
34679441 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
34679456 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
34679472 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:34679549 original size:61 final size:61
Alignment explanation
Indices: 34679364--34679551 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
34679354 TTTATATATC
*
34679364 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * *
34679425 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AAT
*
34679483 C
61 T
*
34679484 ATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
34679545 ATATATT
1 ATATATT
34679552 TTAATTATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
58 3 0.03
59 31 0.33
60 19 0.20
61 39 0.41
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:34679571 original size:15 final size:15
Alignment explanation
Indices: 34679536--34679577 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34679526 TTAAGAATTT
*
34679536 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34679550 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34679564 TATTTAATAATAAT
1 TATTTAATTATAAT
34679578 TATGATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34679827 original size:16 final size:16
Alignment explanation
Indices: 34679800--34679846 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
34679790 TTGATTTGCT
*
34679800 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
34679816 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
*
34679832 ATTATGCCTCTATTC
1 ATTACGCCTCTATTC
34679847 AAATACAGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:34683977 original size:22 final size:21
Alignment explanation
Indices: 34683929--34684012 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
34683919 AAATCTCAAC
* *
34683929 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAATCATAAA
* *
34683950 CTTTAAACCCATAATTCATAAA
1 CCTTAAA-CCATAAATCATAAA
** * *
34683972 CCTTAAAATAGTAACTCTTAAA
1 CCTTAAACCA-TAAATCATAAA
*
34683994 CCTTAAACCCTAAATCATA
1 CCTTAAACCATAAATCATA
34684013 TACCCTCAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
21 14 0.30
22 33 0.70
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (21 bp):
CCTTAAACCATAAATCATAAA
Found at i:34684041 original size:14 final size:14
Alignment explanation
Indices: 34683997--34684035 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
34683987 TCTTAAACCT
34683997 TAAACCCTAAATCA
1 TAAACCCTAAATCA
* *
34684011 TATACCCTCAATCA
1 TAAACCCTAAATCA
34684025 TAAACCCTAAA
1 TAAACCCTAAA
34684036 CTATAATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:34688530 original size:51 final size:52
Alignment explanation
Indices: 34688474--34688581 Score: 200
Period size: 51 Copynumber: 2.1 Consensus size: 52
34688464 GTAATTAATT
34688474 CCTTTTAGAGGCTTAAAATATAACTCTTTTCAAGAGTTATCA-AACCCCAAA
1 CCTTTTAGAGGCTTAAAATATAACTCTTTTCAAGAGTTATCACAACCCCAAA
*
34688525 CCTTTTAGAGGCTTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
1 CCTTTTAGAGGCTTAAAATATAACTCTTTTCAAGAGTTATCACAACCCCAAA
34688577 CCTTT
1 CCTTT
34688582 AATTATTGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 42 0.76
52 13 0.24
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (52 bp):
CCTTTTAGAGGCTTAAAATATAACTCTTTTCAAGAGTTATCACAACCCCAAA
Found at i:34689682 original size:29 final size:30
Alignment explanation
Indices: 34689632--34689704 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
34689622 GACAAAATAA
* * *
34689632 AAATGAATAAAAA-CTACATGAATG-CATG
1 AAATAAATAAAAATCAAAATGAATGACATG
34689660 AAATAAATAAAAATCAAAATGAATGACCATG
1 AAATAAATAAAAATCAAAATGAATGA-CATG
*
34689691 AAA-ATATAAAAATC
1 AAATAAATAAAAATC
34689705 CAAGCTTGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.32
29 9 0.24
30 10 0.26
31 7 0.18
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (30 bp):
AAATAAATAAAAATCAAAATGAATGACATG
Found at i:34692177 original size:14 final size:14
Alignment explanation
Indices: 34692158--34692184 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34692148 TGCGATAAGC
34692158 CCACAAGGCTTCAT
1 CCACAAGGCTTCAT
34692172 CCACAAGGCTTCA
1 CCACAAGGCTTCA
34692185 CCCGACGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (14 bp):
CCACAAGGCTTCAT
Found at i:34707990 original size:43 final size:43
Alignment explanation
Indices: 34707876--34708126 Score: 224
Period size: 43 Copynumber: 5.9 Consensus size: 43
34707866 TTTTAGAAAT
* * * * *
34707876 AAACGCCGCTAAAAGTCATGAACTTTACCGGCGCTTATCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* * *
34707919 AAACGCCGCTAATA--TCATGACTTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCT-ATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* *
34707961 AAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* * * **
34708004 AAACGCTGCTATAGGTCATCATTTTTAGCGATGCTTTTCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
*** **
34708047 AAACGCCGCTATAAAACA--AATTTTTAGCGGCGCTTTTTCATAC
1 AAACGCCGCTATAGGTCATGAA-TTTTAGCGGCGC-TTTTCCCAC
** **
34708090 AAACGCCGCTATAGAAC-TGACCTTTAGCGGCGCTTTT
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTT
34708127 TACACAAATG
Statistics
Matches: 170, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.02
42 45 0.26
43 118 0.69
44 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
Found at i:34708042 original size:85 final size:86
Alignment explanation
Indices: 34707876--34708060 Score: 234
Period size: 85 Copynumber: 2.2 Consensus size: 86
34707866 TTTTAGAAAT
* *
34707876 AAACGCCGCTAAAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATGACT
1 AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATCACT
*
34707941 TTTAGCGGTGCTTTTT-CCAC
66 TTTAGCGATGCTTTTTCCCAC
* * * * *
34707961 AAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTT-TCCCCACAAACGCTGCT-ATAGGTCATC
1 AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTAT-CCCACAAACGCCGCTAATA--TCATC
*
34708024 ATTTTTAGCGATGC-TTTTCCCAC
63 ACTTTTAGCGATGCTTTTTCCCAC
34708047 AAACGCCGCTATAA
1 AAACGCCGCTATAA
34708061 AACAAATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
84 4 0.05
85 49 0.58
86 32 0.38
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATCACT
TTTAGCGATGCTTTTTCCCAC
Found at i:34708073 original size:85 final size:83
Alignment explanation
Indices: 34707876--34708100 Score: 213
Period size: 85 Copynumber: 2.6 Consensus size: 83
34707866 TTTTAGAAAT
* * * *
34707876 AAACGCCGCTA-AAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATGAC
1 AAACGCCGCTATAAA-ACA-GAATTTTAGCGGCGCTT-TCCCACAAACGCCGCTAATATCATCAC
* *
34707940 TTTTAGCGGTGCTTTTTCCAC
63 TTTTAGCGATGCTTTTCCCAC
* *** *
34707961 AAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTCCCCACAAACGCTGCT-ATAGGTCATCA
1 AAACGCCGCTATAAAACA-GAATTTTAGCGGCGCTTT-CCCACAAACGCCGCTAATA--TCATCA
*
34708025 TTTTTAGCGATGCTTTTCCCAC
62 CTTTTAGCGATGCTTTTCCCAC
**
34708047 AAACGCCGCTATAAAACA-AATTTTTAGCGGCGCTTTTTCATACAAACGCCGCTA
1 AAACGCCGCTATAAAACAGAA-TTTTAGCGGCGC--TTTCCCACAAACGCCGCTA
34708101 TAGAACTGAC
Statistics
Matches: 115, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
84 6 0.05
85 55 0.48
86 51 0.44
87 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (83 bp):
AAACGCCGCTATAAAACAGAATTTTAGCGGCGCTTTCCCACAAACGCCGCTAATATCATCACTTT
TAGCGATGCTTTTCCCAC
Found at i:34708125 original size:85 final size:85
Alignment explanation
Indices: 34707899--34708148 Score: 249
Period size: 85 Copynumber: 3.0 Consensus size: 85
34707889 AGTCATGAAC
* *
34707899 TTTACCGGCGCTTATCC-CACAAACGCCGCTA-ATATCATGACTTTTAGCGGTGCTTTTTCCACA
1 TTTAGCGGCGCTT-TCCACACAAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCCACA
***
34707962 AATGCCGCTATAGGTCATGAAT
65 AATGCCGCTATAAAACA-GAAT
* * * * * * *
34707984 TTTAGCGGCGCTTTCCCCACAAACGCTGCTATAGGTCATCATTTTTAGCGATGCTTTTCCCACAA
1 TTTAGCGGCGCTTTCCACACAAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCCACAA
*
34708049 ACGCCGCTATAAAACA-AATT
66 ATGCCGCTATAAAACAGAA-T
* * * * * *
34708069 TTTAGCGGCGCTTTTTCATACAAACGCCGCTATAGAAC-TGACCTTTAGCGGCGCTTTTTACACA
1 TTTAGCGGCGC-TTTCCACACAAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCCACA
*
34708133 AATGCCACTA-AAAACA
65 AATGCCGCTATAAAACA
34708149 TATCTTTAAA
Statistics
Matches: 134, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
84 11 0.08
85 64 0.48
86 59 0.44
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (85 bp):
TTTAGCGGCGCTTTCCACACAAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCCACAA
ATGCCGCTATAAAACAGAAT
Found at i:34708127 original size:43 final size:43
Alignment explanation
Indices: 34708045--34708148 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
34708035 TGCTTTTCCC
**
34708045 ACAAACGCCGCTATAAAACAAATTTTTAGCGGCGCTTTTTCAT
1 ACAAACGCCGCTATAAAACAAACCTTTAGCGGCGCTTTTTCAT
* ** *
34708088 ACAAACGCCGCTATAGAACTGACCTTTAGCGGCGCTTTTT-AC
1 ACAAACGCCGCTATAAAACAAACCTTTAGCGGCGCTTTTTCAT
* *
34708130 ACAAATGCCACTA-AAAACA
1 ACAAACGCCGCTATAAAACA
34708149 TATCTTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 4 0.08
42 12 0.24
43 35 0.69
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTATAAAACAAACCTTTAGCGGCGCTTTTTCAT
Found at i:34708484 original size:43 final size:43
Alignment explanation
Indices: 34708412--34708502 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
34708402 ACATATGCAA
* * * *
34708412 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATGTACTTAATCAAGGAAATCTT
* *
34708455 GGTAATAAAAGATATAATACATGTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATGTACTTAATCAAGGAAATCTT
34708498 -GTAAT
1 GGTAAT
34708503 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATGTACTTAATCAAGGAAATCTT
Found at i:34712276 original size:22 final size:23
Alignment explanation
Indices: 34712229--34712277 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
34712219 CCATTAAACT
34712229 ATAAA-CCATAAATCATAATCGC
1 ATAAACCCATAAATCATAATCGC
34712251 -TAAACCCAT-AATCCATAATC-C
1 ATAAACCCATAAAT-CATAATCGC
34712272 ATAAAC
1 ATAAAC
34712278 TTTAAGATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAACCCATAAATCATAATCGC
Found at i:34712307 original size:7 final size:7
Alignment explanation
Indices: 34712293--34712341 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
34712283 GATAGTAACT
34712293 CCTAAAC
1 CCTAAAC
*
34712300 CTTAAAC
1 CCTAAAC
34712307 CCTAAAC
1 CCTAAAC
* *
34712314 CATATAC
1 CCTAAAC
34712321 CCTAAAC
1 CCTAAAC
*
34712328 CATAAAC
1 CCTAAAC
34712335 CCTAAAC
1 CCTAAAC
34712342 TATAATGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:34712310 original size:14 final size:14
Alignment explanation
Indices: 34712293--34712346 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
34712283 GATAGTAACT
*
34712293 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
34712307 CCTAAACCATATAC
1 CCTAAACCATAAAC
34712321 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
34712335 CCTAAACTATAA
1 CCTAAACCATAA
34712347 TGATAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:34712426 original size:8 final size:7
Alignment explanation
Indices: 34712391--34712434 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
34712381 ACTAGTTAAT
34712391 CTAAACC
1 CTAAACC
34712398 CTAAA--
1 CTAAACC
34712403 CTATAACC
1 CTA-AACC
34712411 CTAAACC
1 CTAAACC
34712418 CTAAAACC
1 CT-AAACC
34712426 CTAAACC
1 CTAAACC
34712433 CT
1 CT
34712435 TAACACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 18 0.55
8 10 0.30
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:34712427 original size:15 final size:15
Alignment explanation
Indices: 34712393--34712434 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
34712383 TAGTTAATCT
34712393 AAACCCTAAA--CTA
1 AAACCCTAAACCCTA
*
34712406 TAACCCTAAACCCTA
1 AAACCCTAAACCCTA
34712421 AAACCCTAAACCCT
1 AAACCCTAAACCCT
34712435 TAACACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:34712480 original size:7 final size:7
Alignment explanation
Indices: 34712470--34712580 Score: 64
Period size: 7 Copynumber: 15.7 Consensus size: 7
34712460 CCACAGCCTT
*
34712470 TAAATCA
1 TAAACCA
34712477 TAAACCA
1 TAAACCA
34712484 TAAACCA
1 TAAACCA
34712491 TAAACCA
1 TAAACCA
**
34712498 TAGCCCA
1 TAAACCA
*
34712505 TAATCCA
1 TAAACCA
*
34712512 TAAACCT
1 TAAACCA
***
34712519 TAAAATGG
1 T-AAACCA
34712527 TAACACC-
1 TAA-ACCA
*
34712534 TAAACCT
1 TAAACCA
34712541 TAAACTC-
1 TAAAC-CA
34712548 TAAACCA
1 TAAACCA
* *
34712555 TATACCC
1 TAAACCA
34712562 TAAACCA
1 TAAACCA
* *
34712569 AAAACCC
1 TAAACCA
34712576 TAAAC
1 TAAAC
34712581 TATAGTGATA
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
6 4 0.05
7 70 0.88
8 6 0.08
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:34712861 original size:40 final size:40
Alignment explanation
Indices: 34712811--34712905 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
34712801 TTAAATACTC
*
34712811 AATTAAAAATAAATTGAATTTTAATTAATATAAATAAATA
1 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
*
34712851 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATC
1 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
34712891 AATTAAATAATAAAT
1 AATTAAA-AATAAAT
34712906 AGATAGACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 45 0.87
41 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (40 bp):
AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
Found at i:34713106 original size:40 final size:40
Alignment explanation
Indices: 34713057--34713168 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
34713047 TCCTAGAAGA
* *
34713057 CGCCACTAATGCTCTATTTTTAGCGGCCTTTTTAAAAAAG
1 CGCCGCTAATGCTCTATTTTTAGCGGCATTTTTAAAAAAG
*** *
34713097 CGCCGCTAATGCTCTA-TTTTAGCGGCATTTTCCTAAGAG
1 CGCCGCTAATGCTCTATTTTTAGCGGCATTTTTAAAAAAG
* * *
34713136 CGCCGCTAATGCTCGATTTATAGCGGCGTTTTT
1 CGCCGCTAATGCTCTATTTTTAGCGGCATTTTT
34713169 TATCCAAACG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 33 0.54
40 28 0.46
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (40 bp):
CGCCGCTAATGCTCTATTTTTAGCGGCATTTTTAAAAAAG
Found at i:34713294 original size:75 final size:75
Alignment explanation
Indices: 34713171--34713326 Score: 312
Period size: 75 Copynumber: 2.1 Consensus size: 75
34713161 GCGTTTTTTA
34713171 TCCAAACGCCACTAAAAATACCGCTAAAAGCCTGTTTTACTGTAGTGAGAGTACCGCTTACTGTT
1 TCCAAACGCCACTAAAAATACCGCTAAAAGCCTGTTTTACTGTAGTGAGAGTACCGCTTACTGTT
34713236 AATATTACTG
66 AATATTACTG
34713246 TCCAAACGCCACTAAAAATACCGCTAAAAGCCTGTTTTACTGTAGTGAGAGTACCGCTTACTGTT
1 TCCAAACGCCACTAAAAATACCGCTAAAAGCCTGTTTTACTGTAGTGAGAGTACCGCTTACTGTT
34713311 AATATTACTG
66 AATATTACTG
34713321 TCCAAA
1 TCCAAA
34713327 GACTTGATAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (75 bp):
TCCAAACGCCACTAAAAATACCGCTAAAAGCCTGTTTTACTGTAGTGAGAGTACCGCTTACTGTT
AATATTACTG
Found at i:34715245 original size:43 final size:43
Alignment explanation
Indices: 34715185--34715348 Score: 258
Period size: 43 Copynumber: 3.8 Consensus size: 43
34715175 TTATACAAAT
* *
34715185 AAACGCCGC-AAAGACCATGTTCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
*
34715227 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
34715270 AAACGCCGCTAAAGAACATGTTCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
**
34715313 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT
34715349 CCTTCACAAA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 9 0.08
43 103 0.92
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:34715392 original size:86 final size:86
Alignment explanation
Indices: 34715185--34715410 Score: 233
Period size: 86 Copynumber: 2.6 Consensus size: 86
34715175 TTATACAAAT
* ** *
34715185 AAACGCCGC-AAAGACCATGTTCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCATGTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGTT
*
34715249 CTTTAGCGGCGCTTTTCTCAC
66 CTTTAGCGGCGCTTCTCTCAC
** * * **
34715270 AAACGCCGCTAAAGAACATGTTCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGTT
34715335 CTTTAGCGGCGCTTC-CTTCAC
66 CTTTAGCGGCGCTTCTC-TCAC
* ** *** * * *
34715356 AAACGCTGCTATTGTTGATGACCTTTTA-TGGCGCTTTTCCTAAAAACGCCACTAA
1 AAACGCCGCTAAAGAACATGACC-TTTAGCGGCGCTTTTCCCAAAAACGCCGCTAA
34715411 TTTTGGGATT
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
85 10 0.08
86 104 0.88
87 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGTT
CTTTAGCGGCGCTTCTCTCAC
Found at i:34717932 original size:21 final size:21
Alignment explanation
Indices: 34717908--34717978 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
34717898 TTTCTGCTTG
*
34717908 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCCGC
*
34717929 CTCTGCTTCCCTCGCTGCCAC
1 CTCTGCTTCCCTCGCTGCCGC
34717950 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
34717971 CTCTGCTT
1 CTCTGCTT
34717979 TAAGTTCTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.01, C:0.49, G:0.17, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCCGC
Found at i:34719722 original size:9 final size:9
Alignment explanation
Indices: 34719708--34720112 Score: 114
Period size: 9 Copynumber: 46.3 Consensus size: 9
34719698 ACTATAAATG
34719708 AGTTATGTA
1 AGTTATGTA
34719717 AGTTATGATA
1 AGTTATG-TA
* * *
34719727 TGATATAT-
1 AGTTATGTA
*
34719735 ATTTATGT-
1 AGTTATGTA
*
34719743 A-TTAGGTA
1 AGTTATGTA
*
34719751 AATTATGTA
1 AGTTATGTA
34719760 AGTTATGT-
1 AGTTATGTA
*
34719768 A-TTATATA
1 AGTTATGTA
34719776 AGTTATGTA
1 AGTTATGTA
34719785 AGTTATGT-
1 AGTTATGTA
34719793 A-TTATGTA
1 AGTTATGTA
*
34719801 AGCTATGTA
1 AGTTATGTA
* *
34719810 ACTTATTTA
1 AGTTATGTA
*
34719819 AGTTACGTA
1 AGTTATGTA
*
34719828 AGTTGTGT-
1 AGTTATGTA
*
34719836 A-TTATGTT
1 AGTTATGTA
34719844 AGTTATGT-
1 AGTTATGTA
*
34719852 A-CTATGTA
1 AGTTATGTA
*
34719860 AGTTATGTGT
1 AGTTATGT-A
34719870 A-TTATGT-
1 AGTTATGTA
34719877 A-TTATGTA
1 AGTTATGTA
*
34719885 TGTTATGTATA
1 AGTTATG--TA
*
34719896 ATATTAAT-TA
1 A-GTT-ATGTA
*
34719906 AGTTGTGT-
1 AGTTATGTA
*
34719914 A-TTGTGT-
1 AGTTATGTA
34719921 A-TTATGTA
1 AGTTATGTA
*
34719929 TGTTATGTATA
1 AGTTATG--TA
*
34719940 ATATTAAT-TA
1 A-GTT-ATGTA
*
34719950 AGTTGTGT-
1 AGTTATGTA
34719958 A-TTATGTA
1 AGTTATGTA
34719966 AGTTATGT-
1 AGTTATGTA
*
34719974 ATTTAAGTGTA
1 AGTT-A-TGTA
*
34719985 TGTTATGTA
1 AGTTATGTA
* *
34719994 ACTTGTGT-
1 AGTTATGTA
* *
34720002 A-TAATGTT
1 AGTTATGTA
**
34720010 AGTTATCAA
1 AGTTATGTA
34720019 AGTTATGT-
1 AGTTATGTA
* *
34720027 A-CTATTTA
1 AGTTATGTA
34720035 AGTTATGTA
1 AGTTATGTA
*
34720044 AGTTGTGT-
1 AGTTATGTA
34720052 A-TTATGTA
1 AGTTATGTA
34720060 AGTTAT-TA
1 AGTTATGTA
*
34720068 TGTTATTATGTA
1 AG---TTATGTA
*
34720080 AGTTATGCA
1 AGTTATGTA
*
34720089 AGTTTATATATA
1 AG--T-TATGTA
34720101 AGTTATGTA
1 AGTTATGTA
34720110 AGT
1 AGT
34720113 ATATCACTTT
Statistics
Matches: 289, Mismatches: 63, Indels: 88
0.66 0.14 0.20
Matches are distributed among these distances:
7 63 0.22
8 31 0.11
9 149 0.52
10 18 0.06
11 11 0.04
12 13 0.04
13 4 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:34719768 original size:25 final size:25
Alignment explanation
Indices: 34719737--34719974 Score: 134
Period size: 25 Copynumber: 9.9 Consensus size: 25
34719727 TGATATATAT
* *
34719737 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
34719762 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
34719787 TTATGTATTATGTAAGCTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
* * *
34719812 TTATTTAAGTTACGTAAGTTGTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
34719837 TTATGTTAGTTATGT-A-CTATGTAAG
1 TTATG-TA-TTATGTAAGTTATGTAAG
*
34719862 TTATGTGTATTATGT-A-TTATGTATG
1 TTA--TGTATTATGTAAGTTATGTAAG
*
34719887 TTATGTA-TA-AT-A-TTAAT-TAAG
1 TTATGTATTATGTAAGTT-ATGTAAG
* * *
34719908 TTGTGTATTGTGT-A-TTATGTATG
1 TTATGTATTATGTAAGTTATGTAAG
*
34719931 TTATGTA-TA-AT-A-TTAAT-TAAG
1 TTATGTATTATGTAAGTT-ATGTAAG
*
34719952 TTGTGTATTATGTAAGTTATGTA
1 TTATGTATTATGTAAGTTATGTA
34719975 TTTAAGTGTA
Statistics
Matches: 168, Mismatches: 28, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
21 26 0.15
22 12 0.07
23 22 0.13
24 5 0.03
25 84 0.50
26 5 0.03
27 14 0.08
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:34719771 original size:16 final size:16
Alignment explanation
Indices: 34719752--34720086 Score: 104
Period size: 16 Copynumber: 20.9 Consensus size: 16
34719742 TATTAGGTAA
34719752 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
34719768 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
34719784 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* * *
34719800 AAGCTATGTAACTTATTT
1 -A-TTATGTAAGTTATGT
* *
34719818 AAGTTACGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
*
34719836 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
*
34719852 ACTATGTAAGTTATGTGT
1 ATTATGTAAGTTA--TGT
34719870 ATTATGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
34719884 ATGTTATGT-A--TA-AT
1 A--TTATGTAAGTTATGT
*
34719898 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
*
34719914 ATTGTGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
34719928 ATGTTATGT-A--TA-AT
1 A--TTATGTAAGTTATGT
*
34719942 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
34719958 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
34719974 A-T-T-TAAGTGTATG-
1 ATTATGTAAGT-TATGT
* *
34719987 -TTATGTAACTTGTGT
1 ATTATGTAAGTTATGT
* * **
34720002 ATAATGTTAGTTATCAA
1 ATTATGTAAGTTAT-GT
* *
34720019 AGTTATGT-A-CTATTT
1 A-TTATGTAAGTTATGT
*
34720034 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
34720052 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
34720072 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
34720087 CAAGTTTATA
Statistics
Matches: 241, Mismatches: 41, Indels: 73
0.68 0.12 0.21
Matches are distributed among these distances:
12 6 0.02
13 12 0.05
14 23 0.10
15 15 0.06
16 116 0.48
17 14 0.06
18 40 0.17
19 4 0.02
20 11 0.05
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:34719924 original size:44 final size:44
Alignment explanation
Indices: 34719865--34719975 Score: 195
Period size: 44 Copynumber: 2.5 Consensus size: 44
34719855 ATGTAAGTTA
34719865 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
34719909 TGTGTATTGTGTATTATGTATGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
34719953 TGTGTATTATGTAAGTTATGTAT
1 TGTGTATTATGT-A-TTATGTAT
34719976 TTAAGTGTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 54 0.86
45 1 0.02
46 8 0.13
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (44 bp):
TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
Found at i:34719990 original size:28 final size:28
Alignment explanation
Indices: 34719925--34720003 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
34719915 TTGTGTATTA
* *
34719925 TGTATGTTATGTATAATAT-TAATTAAGT
1 TGTATGTTATGTA-ATTATGTATTTAAGT
* *
34719953 TGTGTATTATGTAAGTTATGTATTTAAG-
1 TGTATGTTATGTAA-TTATGTATTTAAGT
*
34719981 TGTATGTTATGTAACTTGTGTAT
1 TGTATGTTATGTAA-TTATGTAT
34720004 AATGTTAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 33 0.80
29 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (28 bp):
TGTATGTTATGTAATTATGTATTTAAGT
Found at i:34720038 original size:25 final size:25
Alignment explanation
Indices: 34720005--34720065 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
34719995 CTTGTGTATA
*
34720005 ATGTTAGTTATCAAAGTTATGTACT
1 ATGTAAGTTATCAAAGTTATGTACT
* ** * *
34720030 ATTTAAGTTATGTAAGTTGTGTATT
1 ATGTAAGTTATCAAAGTTATGTACT
34720055 ATGTAAGTTAT
1 ATGTAAGTTAT
34720066 TATGTTATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (25 bp):
ATGTAAGTTATCAAAGTTATGTACT
Found at i:34720347 original size:17 final size:17
Alignment explanation
Indices: 34720327--34720360 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34720317 TATCCATACC
34720327 ATATATAAAAATTTTAA
1 ATATATAAAAATTTTAA
*
34720344 ATATATATAAATTTTAA
1 ATATATAAAAATTTTAA
34720361 GTAATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATAAAAATTTTAA
Found at i:34720379 original size:18 final size:18
Alignment explanation
Indices: 34720356--34720444 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
34720346 ATATATAAAT
34720356 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
34720374 TTTAAGTAATGTAAATTATAAA
1 TTTAAGTAATGT-AA-TAT--A
*
34720396 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
*
34720413 TTTAAGTAATGTAACATA
1 TTTAAGTAATGTAATATA
*
34720431 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
34720445 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 27 0.44
19 5 0.08
20 5 0.08
21 2 0.03
22 9 0.15
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:34720415 original size:39 final size:41
Alignment explanation
Indices: 34720349--34720426 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 41
34720339 TTTAAATATA
34720349 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
34720390 TATAAATTTT-AGTAA-GTAATATATTTAAGTAATGTAA
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAA
34720427 CATATTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 22 0.59
40 5 0.14
41 10 0.27
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (41 bp):
TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
Found at i:34720426 original size:22 final size:22
Alignment explanation
Indices: 34720361--34720453 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
34720351 TAAATTTTAA
34720361 GTAATGTAATATATTTAAGTAAT
1 GTAA-GTAATATATTTAAGTAAT
* * *
34720384 GTAAATTATAAATTT---T-A-
1 GTAAGTAATATATTTAAGTAAT
34720401 GTAAGTAATATATTTAAGTAAT
1 GTAAGTAATATATTTAAGTAAT
* *
34720423 GTAA--CATATTTTAGTAAGTAAT
1 GTAAGTAATATATT--TAAGTAAT
34720445 GTAAGTAAT
1 GTAAGTAAT
34720454 GTAATATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 17
0.67 0.12 0.22
Matches are distributed among these distances:
17 12 0.23
18 1 0.02
19 1 0.02
20 7 0.13
21 1 0.02
22 24 0.46
23 4 0.08
24 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (22 bp):
GTAAGTAATATATTTAAGTAAT
Found at i:34720443 original size:39 final size:39
Alignment explanation
Indices: 34720354--34720448 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 39
34720344 ATATATATAA
34720354 ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
1 ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
34720393 AAATTTT-AGTAA-GTAATATATTTAAGTAATGTAACA-TAT
1 --ATTTTAAGTAATGTAATATATTTAAGTAATGTAA-ATTAT
34720432 -TTTAGTAAGTAATGTAA
1 ATTT--TAAGTAATGTAA
34720449 GTAATGTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
36 3 0.06
38 1 0.02
39 30 0.61
40 10 0.20
41 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (39 bp):
ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
Found at i:34720487 original size:47 final size:46
Alignment explanation
Indices: 34720428--34720609 Score: 209
Period size: 47 Copynumber: 4.0 Consensus size: 46
34720418 GTAATGTAAC
* *
34720428 ATAT-TTTAGTAAGTAATGTAAGTAATGTAATATATACTTAAAAAT
1 ATATATTTCGTAAGTAATGTAAGTAATGTAATATATACTTAAGAAT
34720473 ATATATTTCGGTAAGTAATGTAAGTAATGTAATATATACTTAAGAAT
1 ATATATTTC-GTAAGTAATGTAAGTAATGTAATATATACTTAAGAAT
* * * *
34720520 ATATA-TT--TAAGTAATGTAAGTGAA-GTAA-ACT-GAGTTATGTA-
1 ATATATTTCGTAAGTAATGTAAGT-AATGTAATA-TATACTTAAGAAT
*
34720561 ATATATTTCAGTAAGTAATGTAAGTAATGTAATATATGCTTAAGAAT
1 ATATATTTC-GTAAGTAATGTAAGTAATGTAATATATACTTAAGAAT
34720608 AT
1 AT
34720610 TGCGTTTTTT
Statistics
Matches: 114, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
41 5 0.04
42 9 0.08
43 19 0.17
44 4 0.04
45 23 0.20
46 11 0.10
47 43 0.38
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.38
Consensus pattern (46 bp):
ATATATTTCGTAAGTAATGTAAGTAATGTAATATATACTTAAGAAT
Found at i:34721317 original size:17 final size:19
Alignment explanation
Indices: 34721276--34721327 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
34721266 TTAGTAAAGT
34721276 ATATATTCCAGCAACTGGA
1 ATATATTCCAGCAACTGGA
*
34721295 ATATATTCTAGCAACTGGA
1 ATATATTCCAGCAACTGGA
34721314 ATATATTCCAGCAA
1 ATATATTCCAGCAA
34721328 GTATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (19 bp):
ATATATTCCAGCAACTGGA
Found at i:34723340 original size:37 final size:36
Alignment explanation
Indices: 34723298--34723407 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 36
34723288 TAAAGCATAA
*
34723298 CCCCTAACCCCTAAAGCATAACCACTAAACCCTAAAT
1 CCCCTAACCCATAAAGCATAACC-CTAAACCCTAAAT
* **
34723335 CCCCTAATCTTTAAAGCATAACCCTTAAACCCTAAAT
1 CCCCTAACCCATAAAGCATAACCC-TAAACCCTAAAT
* * *
34723372 CCATCTAGCTCATAAAGCATAACCCCT-AACCCTAAA
1 CC-CCTAACCCATAAAGCATAA-CCCTAAACCCTAAA
34723408 CCACAAAACC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
36 1 0.02
37 43 0.70
38 14 0.23
39 3 0.05
ACGTcount: A:0.39, C:0.36, G:0.04, T:0.21
Consensus pattern (36 bp):
CCCCTAACCCATAAAGCATAACCCTAAACCCTAAAT
Found at i:34723370 original size:21 final size:21
Alignment explanation
Indices: 34723276--34723370 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
34723266 CCCTTAAATC
*
34723276 CCCCTTAACCCTTAAAGCATAA
1 CCCCTAAACCC-TAAAGCATAA
*
34723298 CCCCTAACCCCTAAAGCATAA
1 CCCCTAAACCCTAAAGCATAA
*
34723319 CCACTAAACCCT-AA--AT--
1 CCCCTAAACCCTAAAGCATAA
* **
34723335 CCCCTAATCTTTAAAGCATAA
1 CCCCTAAACCCTAAAGCATAA
*
34723356 CCCTTAAACCCTAAA
1 CCCCTAAACCCTAAA
34723371 TCCATCTAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
16 8 0.14
17 2 0.04
18 2 0.04
19 2 0.04
20 2 0.04
21 31 0.55
22 9 0.16
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCCTAAACCCTAAAGCATAA
Found at i:34723637 original size:14 final size:14
Alignment explanation
Indices: 34723618--34723651 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
34723608 GAAACGGATG
34723618 AAATTTGGTATAAT
1 AAATTTGGTATAAT
34723632 AAATTTGGTATAAT
1 AAATTTGGTATAAT
34723646 AAATTT
1 AAATTT
34723652 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
AAATTTGGTATAAT
Found at i:34724512 original size:21 final size:21
Alignment explanation
Indices: 34724425--34724515 Score: 58
Period size: 21 Copynumber: 4.1 Consensus size: 21
34724415 CTAACCGTTG
* *
34724425 AAACCCTAAACCCCAAATCCCT
1 AAACCTTAAATCCCAAA-CCCT
* *
34724447 AACCCTTAAATCCCCCTAACCCCT
1 AAACCTTAAAT--CCC-AAACCCT
* * * *
34724471 AAAGCATAACA-CCTAACCCCT
1 AAACCTTAA-ATCCCAAACCCT
34724492 AAACCTTAAATCCCAAACCCT
1 AAACCTTAAATCCCAAACCCT
34724513 AAA
1 AAA
34724516 TCCGTACCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
20 1 0.02
21 25 0.48
22 10 0.19
24 13 0.25
25 3 0.06
ACGTcount: A:0.41, C:0.42, G:0.01, T:0.16
Consensus pattern (21 bp):
AAACCTTAAATCCCAAACCCT
Found at i:34724825 original size:13 final size:13
Alignment explanation
Indices: 34724790--34724827 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
34724780 GTTATATTTG
*
34724790 TAATTTGAAAGCT
1 TAATTTGAAAACT
34724803 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
34724817 TAATTTGAAAA
1 TAATTTGAAAA
34724828 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:34724865 original size:29 final size:27
Alignment explanation
Indices: 34724791--34724865 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
34724781 TTATATTTGT
* * * *
34724791 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
34724818 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
34724847 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
34724866 GTCTTGAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:34725821 original size:14 final size:14
Alignment explanation
Indices: 34725802--34725831 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34725792 CCAAAATGGT
34725802 TGGAAACTTGAAGG
1 TGGAAACTTGAAGG
34725816 TGGAAACTTGAAGG
1 TGGAAACTTGAAGG
34725830 TG
1 TG
34725832 CTACAGACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.23
Consensus pattern (14 bp):
TGGAAACTTGAAGG
Found at i:34729084 original size:21 final size:21
Alignment explanation
Indices: 34729060--34729115 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
34729050 CTGAACAATT
*
34729060 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
34729081 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
34729101 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
34729116 CGATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:34729101 original size:20 final size:23
Alignment explanation
Indices: 34729071--34729115 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
34729061 AGAAAAAGAG
34729071 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
34729092 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
34729114 AA
1 AA
34729116 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:34731241 original size:13 final size:13
Alignment explanation
Indices: 34731223--34731261 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
34731213 AATTTCCAAA
34731223 TTTTCAAATTAAG
1 TTTTCAAATTAAG
34731236 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
*
34731250 CTTTCAAATTAA
1 TTTTCAAATTAA
34731262 AAATATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:34731254 original size:14 final size:13
Alignment explanation
Indices: 34731224--34731261 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
34731214 ATTTCCAAAT
*
34731224 TTTCAAATTAAGT
1 TTTCAAATTAAGC
34731237 TTTCAAACTTAAGC
1 TTTCAAA-TTAAGC
34731251 TTTCAAATTAA
1 TTTCAAATTAA
34731262 AAATATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (13 bp):
TTTCAAATTAAGC
Found at i:34732952 original size:114 final size:113
Alignment explanation
Indices: 34732829--34733144 Score: 323
Period size: 116 Copynumber: 2.8 Consensus size: 113
34732819 GCTTCTAGAG
* *
34732829 AAACGCCGCTAGATCCCCAAAATCTCAGAAAACAGCGTCGTTGGGCTTAGGTTATTTTGCGGCAC
1 AAACGCCGCTA-ATCCCCAAAATCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCAC
* * * * ** **
34732894 TTCTCCAAAAACGCCGCTAAAGCTATGAGCATTAGCGGTGCTCCCTTAA
65 TTCTTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAA
* * * * *
34732943 AAACACCGCTAAATCCCTGAAAAGCTCAG-AAACGGTGTCGTTGTGCTTAGGTTTTTTTTTGCGG
1 AAACGCCGCT-AATCCC-CAAAATCTCAGAAAACGGCGTCGTTGGGCTTAGG--TTTTTTTGCGG
* * * **
34733007 CGCTTCTTCAAAAACGCCGCTAAAGCCCTAAGTATTAGCAGCACTTTAATAA
62 CACTTCTTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAA
* ** *
34733059 AAACGCCGCTAAACCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGC
1 AAACGCCGCTAATCCCCAAAAT-CTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGC-G-GC
34733124 A-TT-TTCAAAAACGCCGCTAAA
63 ACTTCTTCAAAAACGCCGCTAAA
34733145 TCCCCTAAAG
Statistics
Matches: 164, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
114 62 0.38
115 23 0.14
116 79 0.48
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (113 bp):
AAACGCCGCTAATCCCCAAAATCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCACT
TCTTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAA
Found at i:34733044 original size:116 final size:114
Alignment explanation
Indices: 34732717--34733144 Score: 344
Period size: 114 Copynumber: 3.7 Consensus size: 114
34732707 CTTTGGAGAG
* * * *
34732717 CGCCACTAAATCCCTCG-AAAGCACAGAAAACGACGTCGTTGGGCTTA-GTTTTTCTTGAGGCGC
1 CGCCGCTAAAT-CC-CGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT-TTGCGGCGC
* ** * * * *** * * * * * * *
34732780 TACCCCAAAAACGTCGTTAAATCCCCGAGCACTAGCGGCGCTTCTAGAGAAA
63 TTCTTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAAAAA
* * * * * *
34732832 CGCCGCTAGATCCCCAAAATCTCAGAAAACAGCGTCGTTGGGCTTAGGTTATTTTGCGGCACTTC
1 CGCCGCTAAATCCCGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTC
* * * * ** **
34732897 TCCAAAAACGCCGCTAAAGCTATGAGCATTAGCGGTGCTCCCTTAAAAA
66 TTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAAAAA
* * *
34732946 CACCGCTAAATCCCTGAAAAGCTCAG-AAACGGTGTCGTTGTGCTTAGGTTTTTTTTTGCGGCGC
1 CGCCGCTAAATCCC-GAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG--TTTTTTTGCGGCGC
* * **
34733010 TTCTTCAAAAACGCCGCTAAAGCCCTAAGTATTAGCAGCACTTTAATAAAAA
63 TTCTTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAAAAA
* * * *
34733062 CGCCGCTAAACCCCCG-AATGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGCAT
1 CGCCGCTAAA-TCCCGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGC-T
34733126 T-TTCAAAAACGCCGCTAAA
64 TCTTCAAAAACGCCGCTAAA
34733145 TCCCCTAAAG
Statistics
Matches: 252, Mismatches: 53, Indels: 17
0.78 0.16 0.05
Matches are distributed among these distances:
113 1 0.00
114 134 0.53
115 33 0.13
116 81 0.32
117 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (114 bp):
CGCCGCTAAATCCCGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTC
TTCAAAAACGCCGCTAAAGCCATAAGCATTAGCAGCACTCCAATAAAAA
Found at i:34734819 original size:18 final size:18
Alignment explanation
Indices: 34734777--34734820 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34734767 AAAGGAGGAT
* *
34734777 TAGATGAACCAATTGAAT
1 TAGAAGAACCAATTGAAG
* *
34734795 TAAAAGAACCAATTGGAG
1 TAGAAGAACCAATTGAAG
34734813 TAGAAGAA
1 TAGAAGAA
34734821 ACACTAAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (18 bp):
TAGAAGAACCAATTGAAG
Found at i:34735448 original size:41 final size:41
Alignment explanation
Indices: 34735393--34735609 Score: 227
Period size: 41 Copynumber: 5.3 Consensus size: 41
34735383 ATGTTTTTAA
* * * *
34735393 AAAAAGTGCTGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
* * * ** * *
34735434 AAAAAGTGTCGCTAATGCTCATATATTTAGCGGCATTTTTA
1 AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
*
34735475 AAAAAGCGCCGCTAATGCTCAGAGATTTAGCGGCGTTTTTC
1 AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
* * * * * *
34735516 AAGAAGCGCCGCTAATGCTCCGGGCTTTAGTGGTGTTTTCC
1 AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
* * * * *
34735557 AAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTG
1 AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
34735598 AAAAAGCGCCGC
1 AAAAAGCGCCGC
34735610 AAAAACATTT
Statistics
Matches: 150, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
AAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTC
Found at i:34735754 original size:26 final size:26
Alignment explanation
Indices: 34735706--34735756 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
34735696 AAAATGGATA
** * *
34735706 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
34735732 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
34735757 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:34736044 original size:14 final size:15
Alignment explanation
Indices: 34736016--34736048 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34736006 AAGGTTTATA
34736016 GATTATGGAATTAGG
1 GATTATGGAATTAGG
34736031 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
34736045 GATT
1 GATT
34736049 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:34736125 original size:21 final size:20
Alignment explanation
Indices: 34736072--34736125 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
34736062 TGTGATTTAA
* *
34736072 GGTTTATGGGTTAGGGGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
*
34736093 GGGTTAGAGGTTAAGAGTTAG
1 GGTTTAG-GGTTAAGAGTTAG
34736114 GGATTTAGGGTT
1 GG-TTTAGGGTT
34736126 TATGGATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.35
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:34737360 original size:22 final size:23
Alignment explanation
Indices: 34737335--34737390 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
34737325 TTCCCCTGAG
34737335 ATCCCCAACTTTCCCCCC-TAAA
1 ATCCCCAACTTTCCCCCCTTAAA
* *
34737357 ATCCCTAA-TTTCCCCCCTTGAA
1 ATCCCCAACTTTCCCCCCTTAAA
*
34737379 ACCCCCAACTTT
1 ATCCCCAACTTT
34737391 ACAAACACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 16 0.57
23 3 0.11
ACGTcount: A:0.25, C:0.46, G:0.02, T:0.27
Consensus pattern (23 bp):
ATCCCCAACTTTCCCCCCTTAAA
Found at i:34737662 original size:24 final size:23
Alignment explanation
Indices: 34737635--34737684 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
34737625 GTCGAAAGTT
34737635 ACAACCAAAAAACCTAAAATATGA
1 ACAACC-AAAAACCTAAAATATGA
*
34737659 ACAATCAAAAACCTAAAATATGA
1 ACAACCAAAAACCTAAAATATGA
34737682 ACA
1 ACA
34737685 CTAATCGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.62, C:0.20, G:0.04, T:0.14
Consensus pattern (23 bp):
ACAACCAAAAACCTAAAATATGA
Found at i:34741349 original size:43 final size:43
Alignment explanation
Indices: 34741272--34741387 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
34741262 TCAAAAAGCT
* * *
34741272 CTGCTAAAAGTTATCT-T-TATAGTGGCGTTTGTGGTATAAG-C
1 CTGCTAAAAGTTAT-TATCTTTAGCGGCGTTTGTGGTAGAAGTC
*
34741313 GTCGCTAAAAGTTATTATCTTTAGCGGCGTTTGTGGTAGAAGTC
1 CT-GCTAAAAGTTATTATCTTTAGCGGCGTTTGTGGTAGAAGTC
* * * *
34741357 CTACTAAAGGTCATGATCTTTAGCGGCGTTT
1 CTGCTAAAAGTTATTATCTTTAGCGGCGTTT
34741388 TCCCACATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.03
42 13 0.21
43 45 0.73
44 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (43 bp):
CTGCTAAAAGTTATTATCTTTAGCGGCGTTTGTGGTAGAAGTC
Found at i:34749131 original size:16 final size:16
Alignment explanation
Indices: 34749062--34749129 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
34749052 TTTGGTTCGC
34749062 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
34749078 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
34749094 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
34749110 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
34749126 TGTA
1 TGTA
34749130 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:34749164 original size:45 final size:44
Alignment explanation
Indices: 34749110--34749200 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
34749100 GGATTAGAGG
*
34749110 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCTAA-TGTTTGGTTGAA
* *
34749155 TGTAATGGAATAGAGGCGTAATAGTAATCTTATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCTAATGTTTGGTTGAA
34749199 TG
1 TG
34749201 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 18 0.43
45 24 0.57
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCTAATGTTTGGTTGAA
Found at i:34749382 original size:16 final size:16
Alignment explanation
Indices: 34749345--34749386 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34749335 TTAATCATAT
*
34749345 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
34749361 TT-AAATATATTATAA
1 TTAAAATATATTATAA
34749376 TTAAAATATAT
1 TTAAAATATAT
34749387 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:34749393 original size:14 final size:15
Alignment explanation
Indices: 34749354--34749395 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34749344 TTTAAACATA
*
34749354 ATTATTATTAAATAT
1 ATTATAATTAAATAT
34749369 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
34749383 A-TATAATTTAATA
1 ATTATAATTAAATA
34749396 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:34749465 original size:107 final size:108
Alignment explanation
Indices: 34749343--34749553 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
34749333 ATTTAATCAT
**
34749343 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATA
* *
34749408 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
34749451 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATA
34749515 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
34749554 TAATACTATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 95 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:34749491 original size:16 final size:16
Alignment explanation
Indices: 34749448--34749493 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
34749438 CATAATATAG
*
34749448 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
34749464 ATTATT-AAATATATT
1 ATAATTAAAATATATT
34749479 ATAATTAAAATATAT
1 ATAATTAAAATATAT
34749494 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:34749500 original size:14 final size:15
Alignment explanation
Indices: 34749448--34749502 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
34749438 CATAATATAG
34749448 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
34749464 ATTATTAAATATATT
1 ATAATTAAATATATT
34749479 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
34749492 ATAATTTAATA
1 ATAATTAAATA
34749503 AAATCCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:34749604 original size:107 final size:107
Alignment explanation
Indices: 34749346--34749609 Score: 335
Period size: 107 Copynumber: 2.5 Consensus size: 107
34749336 TAATCATATT
* * ** *
34749346 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATAATC
* * *
34749411 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
34749454 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATAATCA
*
34749519 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
34749562 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
34749610 ATATGATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
102 5 0.04
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 97 0.68
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATCCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:34750371 original size:13 final size:13
Alignment explanation
Indices: 34750353--34750379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34750343 TGAATAAAAG
34750353 TATATGGTTGGAT
1 TATATGGTTGGAT
34750366 TATATGGTTGGAT
1 TATATGGTTGGAT
34750379 T
1 T
34750380 TCTAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:34754864 original size:16 final size:16
Alignment explanation
Indices: 34754840--34754871 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34754830 CGGCTAGACC
*
34754840 TAAATATATTATATTA
1 TAAAAATATTATATTA
34754856 TAAAAATATTATATTA
1 TAAAAATATTATATTA
34754872 ATTATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAATATTATATTA
Found at i:34754880 original size:16 final size:16
Alignment explanation
Indices: 34754842--34754915 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
34754832 GCTAGACCTA
34754842 AATATATTATATT-AT
1 AATATATTATATTAAT
*
34754857 AAAAATATTATATTAAT
1 -AATATATTATATTAAT
34754874 --TATA-TATATTAAAT
1 AATATATTATATT-AAT
*
34754888 AATAT-TTATA-TATT
1 AATATATTATATTAAT
*
34754902 TATAT-TTATATTAA
1 AATATATTATATTAA
34754916 ATCACCAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
13 6 0.13
14 17 0.36
15 3 0.06
16 19 0.40
17 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATATTATATTAAT
Found at i:34754882 original size:18 final size:18
Alignment explanation
Indices: 34754843--34754907 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
34754833 CTAGACCTAA
*
34754843 ATATATTATATT-A-TAA
1 ATATATTATATTAATTAT
*
34754859 AAATATTATATTAATTAT
1 ATATATTATATTAATTAT
* *
34754877 ATATATTA-AATAATATTT
1 ATATATTATATTAAT-TAT
34754895 ATATATTTATATT
1 ATATA-TTATATT
34754908 TATATTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.29
17 6 0.16
18 16 0.42
19 3 0.08
20 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATATTATATTAATTAT
Found at i:34756998 original size:50 final size:50
Alignment explanation
Indices: 34756881--34757066 Score: 139
Period size: 50 Copynumber: 3.8 Consensus size: 50
34756871 ACATTAAGAG
* * *
34756881 GATGAG-A-TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAACTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
** ** *
34756929 GATGAGAGGTCCCCGGTAAGACCATGTTTGAGACATGGCATGGGCACCGA
1 GATGAGAACTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
* ** * * * * **
34756979 TATGAGAACTTTCATGTAAGACCATATCTGGGATATGACATTTGCA--GTA
1 GATGAGAACTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCG-A
* * *
34757028 CAGGA-AACATCCCATGTAAGACCATGTCTGGGACATGGC
1 GATGAGAAC-TCCCATGTAAGACCATGTCTGAGACATGGC
34757067 TTTTGCATGT
Statistics
Matches: 106, Mismatches: 28, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
48 10 0.09
49 29 0.27
50 67 0.63
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAACTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
Found at i:34761324 original size:20 final size:20
Alignment explanation
Indices: 34761289--34761337 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34761279 ATCATGGTCT
*
34761289 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
34761308 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
34761328 TTGCTTACTT
1 TTGCTTACTT
34761338 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:34767077 original size:31 final size:29
Alignment explanation
Indices: 34767012--34767079 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
34767002 TAGCTTCAAT
34767012 TTAGTCACTCAACTTTCAAAAATAACAAA
1 TTAGTCACTCAACTTTCAAAAATAACAAA
* * *
34767041 ATAGTCACT-AACATTATCGAAAAGTGACAAA
1 TTAGTCACTCAAC-TT-TC-AAAAATAACAAA
34767072 TTAGTCAC
1 TTAGTCAC
34767080 CTATTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 10 0.31
30 2 0.06
31 17 0.53
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (29 bp):
TTAGTCACTCAACTTTCAAAAATAACAAA
Done.