Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 100 of 131
Found at i:33231823 original size:11 final size:11
Alignment explanation
Indices: 33231807--33231831 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33231797 AAGATGATTC
33231807 TTTTTTTCTTT
1 TTTTTTTCTTT
33231818 TTTTTTTCTTT
1 TTTTTTTCTTT
33231829 TTT
1 TTT
33231832 GGGGTCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:33236199 original size:29 final size:27
Alignment explanation
Indices: 33236137--33236199 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
33236127 TGCGACGCGC
* *
33236137 TTCAATCAAGCCCATTTTGTTTTTTTT
1 TTCAATTAAGCCCATTTTGTTTTTTGT
*
33236164 TTAAATTAAGCCGCATATTTCG-TTTTTGT
1 TTCAATTAAGCC-CAT-TTT-GTTTTTTGT
33236193 TTCAATT
1 TTCAATT
33236200 TGGCCCATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 10 0.34
28 3 0.10
29 15 0.52
30 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (27 bp):
TTCAATTAAGCCCATTTTGTTTTTTGT
Found at i:33236422 original size:12 final size:12
Alignment explanation
Indices: 33236387--33236427 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
33236377 AAAAAACATT
33236387 ATTATTATTAT-
1 ATTATTATTATC
33236398 ATTATATATTATC
1 ATTAT-TATTATC
*
33236411 ATTATTACTATC
1 ATTATTATTATC
33236423 ATTAT
1 ATTAT
33236428 CTCTATGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:33243230 original size:167 final size:167
Alignment explanation
Indices: 33242949--33243282 Score: 641
Period size: 167 Copynumber: 2.0 Consensus size: 167
33242939 ACGAGGAAGG
33242949 GTTAGCACCCTCGTAACGCCCAAAATTGGTACCAAATCAATTATTTAATGTCTTAGTGTCGTGGG
1 GTTAGCACCCTCGTAACGCCCAAAATTGGTACCAAATCAATTATTTAATGTCTTAGTGTCGTGGG
33243014 CTAAAAAGCAGTTTTAAAAAAACAAATGATGAAATCAGAAAAAGATAATCAATTGTTCAAGACAT
66 CTAAAAAGCAGTTTTAAAAAAACAAATGATGAAATCAGAAAAAGATAATCAATTGTTCAAGACAT
33243079 GTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATT
131 GTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATT
*
33243116 GTTAGCACCCTCGTAACGCCCAAAATTGGTACCAAATCGATTATTTAATGTCTTAGTGTCGTGGG
1 GTTAGCACCCTCGTAACGCCCAAAATTGGTACCAAATCAATTATTTAATGTCTTAGTGTCGTGGG
* *
33243181 TTAAAAAGCAGTTTTAAAAAAACAAATGATGAAATCAGAAAAGGATAATCAATTGTTCAAGACAT
66 CTAAAAAGCAGTTTTAAAAAAACAAATGATGAAATCAGAAAAAGATAATCAATTGTTCAAGACAT
33243246 GTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATT
131 GTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATT
33243283 TCTCAAAATT
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 164 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (167 bp):
GTTAGCACCCTCGTAACGCCCAAAATTGGTACCAAATCAATTATTTAATGTCTTAGTGTCGTGGG
CTAAAAAGCAGTTTTAAAAAAACAAATGATGAAATCAGAAAAAGATAATCAATTGTTCAAGACAT
GTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATT
Found at i:33244744 original size:502 final size:495
Alignment explanation
Indices: 33244071--33245071 Score: 1844
Period size: 502 Copynumber: 2.0 Consensus size: 495
33244061 ATCTATGTAC
*
33244071 AAAAATAATGGGACACATGAAATAACGAAAAAATATTTATGATAATAAAAAAAATGTATGTATAT
1 AAAAATAATGGGACACATGAAATAACGAAAAAATATTTATAATAATAAAAAAAATGTATGTATAT
33244136 TATGGAAAATGTATAAATGTATGTTTTGAATTACAAAATATGAGAAATATATGTGTACTAAAATG
66 TATGGAAAATGTATAAATGTATGTTTTGAATTACAAAATATGAGAAATATATGTGTACTAAAATG
33244201 TGTAAATATATATATCTGTAAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATATATAT
131 TGTAAATATATATATCTGTAAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATATATAT
33244266 ATATATTTTTAAAAAAAACCAAGGTATAGAAG-TATATATATGTATATAAAAGTGATGAAATAAA
196 ATATA-TTTTAAAAAAAACCAAGGTATAGAAGATATATATATGTATATAAAAGTGATGAAATAAA
33244330 ATAATAAACTATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATATACATA
260 ATAATAAACTATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATATACATA
*
33244395 TATTACATAAAAAACGACGCATACATATGGCTATAAAAAAATAAAAAATAAAAAAAATAGTAGAT
325 TATTACATAAAAAACGACGCACACATATGGCTATAAAAAAATAAAAAA-AAAAAAAATAGTA-AT
33244460 AATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATT
388 AATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATT
33244525 CAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAATA
453 CAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAA-A
*
33244569 AAAAATAATGGGTCACATGAAATAACG-AAAAATATTTATAATAATAAAAAATAAAAAGTGTATG
1 AAAAATAATGGGACACATGAAATAACGAAAAAATATTTATAATAAT---AAA-AAAAA-TGTATG
33244633 TATATTATGGAAAATGTATAAATGTATGTTTTGAATTACAAAATATGAGAAATATATGTGTACTA
61 TATATTATGGAAAATGTATAAATGTATGTTTTGAATTACAAAATATGAGAAATATATGTGTACTA
33244698 AAATGTGTAAATATATATATCTGTAAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATA
126 AAATGTGTAAATATATATATCTGTAAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATA
33244763 TATATATATATTTTAAAAAAAACCAAGGTATAGAAGTATATATATATGTATATAAAAGTGATGAA
191 TATATATATATTTTAAAAAAAACCAAGGTATAGAAG-ATATATATATGTATATAAAAGTGATGAA
33244828 ATAAAATAATAAACTATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATAT
255 ATAAAATAATAAACTATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATAT
* * *
33244893 ACATATATTACATAAAAAACGACGCACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGT
320 ACATATATTACATAAAAAACGACGCACACATATGGCTATAAAAAAATAAAAAAAAAAAAAATAGT
33244958 AATAATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAA
385 AATAATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAA
33245023 ATTCAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAAA
450 ATTCAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAAA
33245069 AAA
1 AAA
33245072 CAACTTGATT
Statistics
Matches: 490, Mismatches: 6, Indels: 12
0.96 0.01 0.02
Matches are distributed among these distances:
497 17 0.03
498 26 0.05
500 7 0.01
501 140 0.29
502 157 0.32
503 143 0.29
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (495 bp):
AAAAATAATGGGACACATGAAATAACGAAAAAATATTTATAATAATAAAAAAAATGTATGTATAT
TATGGAAAATGTATAAATGTATGTTTTGAATTACAAAATATGAGAAATATATGTGTACTAAAATG
TGTAAATATATATATCTGTAAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATATATAT
ATATATTTTAAAAAAAACCAAGGTATAGAAGATATATATATGTATATAAAAGTGATGAAATAAAA
TAATAAACTATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATATACATAT
ATTACATAAAAAACGACGCACACATATGGCTATAAAAAAATAAAAAAAAAAAAAATAGTAATAAT
AATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATTCAA
CTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAAA
Found at i:33245199 original size:381 final size:380
Alignment explanation
Indices: 33244722--33245496 Score: 1270
Period size: 400 Copynumber: 2.0 Consensus size: 380
33244712 ATATATCTGT
***
33244722 AAAAAATATGGAAAATAATATAAAAAAAACATATGTGTATATATATATATATTTTAAAAAAAACC
1 AAAAAATATGGAAAATAATAT-AAAAAAACATATGTGTATATATATATATATAAAAAAAAAAACC
*
33244787 AAGGTATAGAAGTATATATATATGTATATAAAAGTGATGAAATAAAATAATAAAC-TATGTATAA
65 AAAGTATAGAAGTATATATATATGTATATAAAAGTGATGAAATAAAATAATAAACATATGTATAA
33244851 AATATGTACCAATATACGTGCATTATATACAAAACAATATATACATATATTACATAAAAAACGAC
130 AATATGTACCAATATACGTGCATTATATACAAAACAATATATACATATATTACATAAAAAACGAC
33244916 GCACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGTAATAATAATAGCATAATATAATA
195 GCACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGTAATAATAATAGCATAATATAATA
33244981 ATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATTCAACTAAAGACGAAAAAGTG
260 ATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATTCAACTAAAGACGAAAAAGTG
33245046 GGGGCAGAAAATAAATAAATAAAAAACAACTTGATTGCGTAGGAAACAATGTTGTA
325 GGGGCAGAAAATAAATAAATAAAAAACAACTTGATTGCGTAGGAAACAATGTTGTA
33245102 AAAAAATATGGAAAATAATAT-AAAAAACATATGTGTATATATATAT-T-TAAAAAAAATTTTGA
1 AAAAAATATGGAAAATAATATAAAAAAACATATGTGTATATATATATATATAAAAAAAA-----A
33245164 AACCAAAGTATAGAAGTATATATATATGTATATAAAAGTGATGAAATAAAATAATAAACTATGTA
61 AACCAAAGTATAGAAGTATATATATATGTATATAAAAGTGATGAAATAAAATAATAAAC------
33245229 TAAAATAATAAAATATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATATA
120 ------------ATATGTATAAAATATGTACCAATATACGTGCATTATATACAAAACAATATATA
33245294 CATATATTACATAAAAAACGACGCACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGTA
173 CATATATTACATAAAAAACGACGCACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGTA
33245359 ATAATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAA
238 ATAATAATAGCATAATATAATAATGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAA
33245424 TTCAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAAAAAACAACTTGATTGCGTAGG
303 TTCAACTAAAGACGAAAAAGTGGGGGCAGAAAATAAATAAATAAAAAACAACTTGATTGCGTAGG
33245489 AAACAATG
368 AAACAATG
33245497 GAGGACCAAA
Statistics
Matches: 367, Mismatches: 4, Indels: 28
0.92 0.01 0.07
Matches are distributed among these distances:
376 6 0.02
377 1 0.00
378 25 0.07
380 21 0.06
381 59 0.16
400 255 0.69
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (380 bp):
AAAAAATATGGAAAATAATATAAAAAAACATATGTGTATATATATATATATAAAAAAAAAAACCA
AAGTATAGAAGTATATATATATGTATATAAAAGTGATGAAATAAAATAATAAACATATGTATAAA
ATATGTACCAATATACGTGCATTATATACAAAACAATATATACATATATTACATAAAAAACGACG
CACACATATGGCTGTAAAAAAATAAAAAAAATAATAATAGTAATAATAATAGCATAATATAATAA
TGATAATTATGTTTAAAAAAAGGTTCAAACAGATGGACCAAATTCAACTAAAGACGAAAAAGTGG
GGGCAGAAAATAAATAAATAAAAAACAACTTGATTGCGTAGGAAACAATGTTGTA
Found at i:33245231 original size:19 final size:19
Alignment explanation
Indices: 33245209--33245254 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
33245199 AAGTGATGAA
*
33245209 ATAAAATAATAAACTATGT
1 ATAAAATAATAAAATATGT
33245228 ATAAAATAATAAAATATGT
1 ATAAAATAATAAAATATGT
33245247 ATAAAATA
1 ATAAAATA
33245255 TGTACCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAATAATAAAATATGT
Found at i:33245250 original size:11 final size:11
Alignment explanation
Indices: 33245217--33245258 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
33245207 AAATAAAATA
*
33245217 ATAAACTATGT
1 ATAAAATATGT
33245228 ATAAAATA---
1 ATAAAATATGT
33245236 ATAAAATATGT
1 ATAAAATATGT
33245247 ATAAAATATGT
1 ATAAAATATGT
33245258 A
1 A
33245259 CCAATATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.30
11 19 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (11 bp):
ATAAAATATGT
Found at i:33247239 original size:45 final size:45
Alignment explanation
Indices: 33247123--33247337 Score: 229
Period size: 44 Copynumber: 4.8 Consensus size: 45
33247113 NNNNNNNNNN
33247123 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
* * **** * * *
33247168 CTTC-ACGCCAGTACATAAAGACAAGATCTGTTTTCTTTGATCTG
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
33247212 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
* * *** * * * *
33247257 CTTC-ACGCCAGTACATGAAGATAAGATCTGCTTTCTTTGATCTG
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
* *
33247301 CTTCGCCACCAGTATGGGAAGGCAAGAT-TTGTATCTT
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTT
33247338 CAACCTGCTC
Statistics
Matches: 131, Mismatches: 37, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
44 76 0.58
45 55 0.42
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTA
Found at i:33247283 original size:89 final size:89
Alignment explanation
Indices: 33247123--33247337 Score: 378
Period size: 89 Copynumber: 2.4 Consensus size: 89
33247113 NNNNNNNNNN
33247123 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAG
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAG
*
33247188 ACAAGATCTGTTTTCTTTGATCTG
66 ACAAGATCTGCTTTCTTTGATCTG
*
33247212 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAG
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAG
*
33247277 ATAAGATCTGCTTTCTTTGATCTG
66 ACAAGATCTGCTTTCTTTGATCTG
* *
33247301 CTTCGCCACCAGTATGGGAAGGCAAGAT-TTGTATCTT
1 CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTT
33247338 CAACCTGCTC
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 8 0.07
89 113 0.93
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (89 bp):
CTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATAAAG
ACAAGATCTGCTTTCTTTGATCTG
Found at i:33251388 original size:19 final size:20
Alignment explanation
Indices: 33251364--33251403 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
33251354 AACTGTGCTT
* *
33251364 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
33251383 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
33251403 A
1 A
33251404 TGCGAAGAGA
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:33251454 original size:13 final size:13
Alignment explanation
Indices: 33251436--33251461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33251426 TGTTCAATTT
33251436 TTTACTAGAAAAC
1 TTTACTAGAAAAC
33251449 TTTACTAGAAAAC
1 TTTACTAGAAAAC
33251462 AAATCTCTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:33252755 original size:193 final size:193
Alignment explanation
Indices: 33252414--33252796 Score: 556
Period size: 193 Copynumber: 2.0 Consensus size: 193
33252404 TCGCCAAGCT
33252414 GTCGAAACCGTTTTTTAAAAACAAAAATTTTTAGTTTCGATTTAAAAATAAAAACTGGAGTCGCC
1 GTCGAAACCGTTTTTTAAAAACAAAAA-TTTTAGTTTCGATTTAAAAATAAAAACTGGAGTCGCC
* * * *
33252479 ACCGATCCTTTATTAAGGTGTGATCGGCTCACCTTAAAAATTATTCTGGTCCACGAATTTTGAGA
65 ACCGATCCTTTATTAAGGTGTAATCGGCCCACCTTAAAAATTATTCTGGTCCACGAATTCTAAGA
* *
33252544 AAATGAGTTCGGGAGTCAGTTACGCACGAGGAAGAATTAGCACCCTCGTAACGCCCAAAAATCG
130 AAACGAGTTCCGGAGTCAGTTACGCACGAGGAAGAATTAGCACCCTCGTAACGCCCAAAAATCG
* *
33252608 GTCG-AACCGTTTTTTAAAAATAAAAA-TTTAGTTGTCGGCTTTAAAAAT-AAAACTGGAGTCGC
1 GTCGAAACCGTTTTTTAAAAACAAAAATTTTAGTT-TC-GATTTAAAAATAAAAACTGGAGTCGC
* * * * * *
33252670 CACTGATCCTTTATTAGGGTGTAATTGGCCCACCTTAAAAATTATTTTGGTCTACGAGTTCTAAG
64 CACCGATCCTTTATTAAGGTGTAATCGGCCCACCTTAAAAATTATTCTGGTCCACGAATTCTAAG
* **
33252735 AAAACGAGTTTCCGGAGTCAGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCCCAAAA
129 AAAACGAG-TTCCGGAGTCAGTTACGCACGAGGAAGAATTAGCACCCTCGTAACGCCCAAAA
33252797 TTGGTACCAA
Statistics
Matches: 169, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
191 7 0.04
192 78 0.46
193 80 0.47
194 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (193 bp):
GTCGAAACCGTTTTTTAAAAACAAAAATTTTAGTTTCGATTTAAAAATAAAAACTGGAGTCGCCA
CCGATCCTTTATTAAGGTGTAATCGGCCCACCTTAAAAATTATTCTGGTCCACGAATTCTAAGAA
AACGAGTTCCGGAGTCAGTTACGCACGAGGAAGAATTAGCACCCTCGTAACGCCCAAAAATCG
Found at i:33253574 original size:177 final size:177
Alignment explanation
Indices: 33253232--33253658 Score: 459
Period size: 177 Copynumber: 2.4 Consensus size: 177
33253222 TGGCGTAAAG
* * * * *
33253232 TAGATC-AAGGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAATAGATA
1 TAGATCGAA-GAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATC
* *** * * * * * *
33253296 TTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGC
65 TTGTCTTCCCATACTGGCGCGAAGCAGATCAAAGAAAACAGATCCTGTCTTCATATATCGGTAGC
* * * * * *
33253361 GAAGTGGATCGAATATACAAATTTTATCTTCCCATACTGGTGGT-GAA
130 GAAGTAGATCAAAGAAACAAATCTTATCTCCCCATACTGGTGGTGGAA
* *
33253408 GTAGATCGGAA-AAAGCAGATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGAT
1 -TAGATC-GAAGAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGAT
* * *
33253472 CTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTA-CTGGT
64 CTTGTCTTCCCATACTGG-CGCGAAGCAGATCAAAGAAAACAGATCCTGTCTTCATATATC-GGT
* * *
33253536 -GTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAA
127 AGCGAAGTAGATCAAAGAAACAAATCTTATCTCCCCATACTGGTGGTGGAA
** * * * *
33253586 TAGATCGAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCC
1 TAGATCGAAGAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCT
33253651 TGTCTTCC
66 TGTCTTCC
33253659 TATATCGGTA
Statistics
Matches: 208, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
176 3 0.01
177 166 0.80
178 37 0.18
179 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (177 bp):
TAGATCGAAGAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCT
TGTCTTCCCATACTGGCGCGAAGCAGATCAAAGAAAACAGATCCTGTCTTCATATATCGGTAGCG
AAGTAGATCAAAGAAACAAATCTTATCTCCCCATACTGGTGGTGGAA
Found at i:33253590 original size:133 final size:133
Alignment explanation
Indices: 33253194--33253890 Score: 455
Period size: 133 Copynumber: 5.2 Consensus size: 133
33253184 GAGCAGGTTG
** * * * ** * *
33253194 AAAGATAATAGATCTTGTCTTCATGTATTGG-CGTAAAGTAGATCAAGGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCTATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCTTGTCT
* * * * * *
33253258 TCATGTATTGG-CGTGAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTA
66 TCCTATACTGGTGGTGAAGTAGATCAAAG-AAACAGATATTGTCTTCATGTACTGGCGTGAAGTA
33253322 GATC
130 GATC
* * * * * * * * * * *
33253326 AAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAA-TATACAAATTTTATC
1 AAAGATACCAGATCTTGTCTTCCTATACT-GGTCGCGAAGTAGATCAAAGAAAACAGATCTTGTC
* * *
33253389 TTCCCATACTGGTGGTGAAGTAGATCGGAAA-AAGCAGATAGTGTCTTCATGTACTGGCGTGAAG
65 TTCCTATACTGGTGGTGAAGTAGATC--AAAGAAACAGATATTGTCTTCATGTACTGGCGTGAAG
33253453 TAGATC
128 TAGATC
* * *
33253459 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCTATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCTTGTCT
* * * * *** *
33253524 TCATGTACTGGT-GTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAA-T
66 TCCTATACTGGTGGTGAAGTAGATCAAAGAAACAGATATTGTCTTCATGTACTGG-CGT-GAAGT
33253587 AGATC
129 AGATC
* * ** * * * * * * * * *
33253592 GAAGAAAATAGATATTATCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAGGTCCTGTCT
1 AAAGATACCAGATCTTGTCTTCCTATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCTTGTCT
* * * * * * * * * *** *
33253656 TCCTATA-TCGGTAGCGAAGTGGATCGAATATACAAATTTTATCTTCCCATACTGGTGGTGAAGT
66 TCCTATACT-GGTGGTGAAGTAGATCAAAGAAACAGATATTGTCTTCATGTACTGG-CGTGAAGT
33253720 AGATC
129 AGATC
* ** * * * * * * *
33253725 GGAAA-A-AGCAGATAGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACAAATCTCGC
1 --AAAGATACCAGATCTTGTCTTCCTATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCTTGT
* * * * *
33253787 CTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGTACTGGCGTGAA
64 CTTCCTATACTGGTGGTGAAGTAGATC-AAAGAA-ACAGATATTGTCTTCATGTACTGGCGTGAA
*
33253852 ATAGATC
127 GTAGATC
*
33253859 AAAGATACCAGATCTTGTCTTCCCATACTGGT
1 AAAGATACCAGATCTTGTCTTCCTATACTGGT
33253891 GGTGACGGTG
Statistics
Matches: 433, Mismatches: 111, Indels: 39
0.74 0.19 0.07
Matches are distributed among these distances:
131 5 0.01
132 99 0.23
133 248 0.57
134 58 0.13
135 23 0.05
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (133 bp):
AAAGATACCAGATCTTGTCTTCCTATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCTTGTCT
TCCTATACTGGTGGTGAAGTAGATCAAAGAAACAGATATTGTCTTCATGTACTGGCGTGAAGTAG
ATC
Found at i:33253698 original size:88 final size:87
Alignment explanation
Indices: 33253387--33253724 Score: 324
Period size: 89 Copynumber: 3.8 Consensus size: 87
33253377 ACAAATTTTA
* * * *
33253387 TCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGAA
1 TCTTCCCATACTGGTGGCGAAGTAGATC-GAAAAA-CAAATATTATCTTCATGTACTGGCGTGAA
*
33253452 GTAGATCAAAGATACCAGATCTTG
64 GTAGATCAAAGATAACAGATCTTG
* * * * * *
33253476 TCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAA
1 TCTTCCCATACTGGTGGCGAAGTAGATC-GA-AAAACAAATATTATCTTCATGTACTGGCGTGAA
33253541 GTAGATCAAAGA-AACAGATCTTG
64 GTAGATCAAAGATAACAGATCTTG
* *
33253564 TCTCCCCATACTGGTGGTGGAA-TAGATCGAAGAAA-ATAGATATTATCTTCATGTACTGGCGTG
1 TCTTCCCATACTGGTGG-CGAAGTAGATCGAA-AAACA-A-ATATTATCTTCATGTACTGGCGTG
* * *
33253627 AAGTAGATCAAAGATAGCAGGTCCTG
62 AAGTAGATCAAAGATAACAGATCTTG
* * * * * *** *
33253653 TCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATACAAATTTTATCTTCCCATACTGGTGGTGA
1 TCTTCCCATACT-GGTGGCGAAGTAGATCGAA-AAACAAATATTATCTTCATGTACTGG-CGTGA
33253717 AGTAGATC
63 AGTAGATC
33253725 GGAAAAAGCA
Statistics
Matches: 208, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
86 2 0.01
87 4 0.02
88 86 0.41
89 111 0.53
90 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (87 bp):
TCTTCCCATACTGGTGGCGAAGTAGATCGAAAAACAAATATTATCTTCATGTACTGGCGTGAAGT
AGATCAAAGATAACAGATCTTG
Found at i:33253719 original size:177 final size:177
Alignment explanation
Indices: 33253391--33253724 Score: 424
Period size: 177 Copynumber: 1.9 Consensus size: 177
33253381 ATTTTATCTT
* *
33253391 CCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGAAGTAG
1 CCCATACTGGTGGTGAAGTAGATCGGAAAAAACAGATAGTATCTTCATGTACTGGCGTGAAGTAG
* * * *
33253456 ATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTG
66 ATCAAAGATACCAGATCCTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAACAAATCTTA
**
33253521 TCTTCATGTACTGGTGTGAAGTAGATCAAAGAAACAGATCTTGTCTC
131 TCTTCACATACTGGTGTGAAGTAGATCAAAGAAACAGATCTTGTCTC
* *
33253568 CCCATACTGGTGGTGGAA-TAGATC-GAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGT
1 CCCATACTGGTGGT-GAAGTAGATCGGAA-AAAACAGATAGTATCTTCATGTACTGGCGTGAAGT
* * * ** * * * *
33253631 AGATCAAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAA-TATACAAATT
64 AGATCAAAGATACCAGATCCTGTCTTCCCATACT-GGTAGCGAAGCAGATCAAAGAAAACAAATC
*
33253694 TTATCTTCCCATACTGGTGGTGAAGTAGATC
128 TTATCTTCACATACTGGT-GTGAAGTAGATC
33253725 GGAAAAAGCA
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
176 24 0.18
177 106 0.80
178 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
CCCATACTGGTGGTGAAGTAGATCGGAAAAAACAGATAGTATCTTCATGTACTGGCGTGAAGTAG
ATCAAAGATACCAGATCCTGTCTTCCCATACTGGTAGCGAAGCAGATCAAAGAAAACAAATCTTA
TCTTCACATACTGGTGTGAAGTAGATCAAAGAAACAGATCTTGTCTC
Found at i:33253765 original size:310 final size:312
Alignment explanation
Indices: 33253193--33253894 Score: 1169
Period size: 310 Copynumber: 2.3 Consensus size: 312
33253183 GGAGCAGGTT
* * * * *
33253193 GAAAGATAATAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCAAGGAAAGCAGATCTTGTCT
1 GAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAA-CAGATCTTGTCT
*** * *
33253258 TCATGTATTGG-CGT-GAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGT
65 TCCCATACTGGTGGTGGAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGT
33253321 AGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAAATTTT
130 AGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAAATTTT
33253386 ATCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGA
195 ATCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGA
* * * *
33253451 AGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATC
260 AGTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
* *
33253504 -AAAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGAAACAGATCTTGTCTC
1 GAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTT
*
33253568 CCCATACTGGTGGTGGAA-TAGATCGAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTA
66 CCCATACTGGTGGTGGAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTA
33253632 GATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAAATTTTA
131 GATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAAATTTTA
33253697 TCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGAA
196 TCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGAA
33253762 GTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
261 GTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
* * * *
33253814 GAAGGAATACAGATCTTGTCTTCATGTACTGGCGTGAAATAGATCAAAGATACCAGATCTTGTCT
1 GAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AACAGATCTTGTCT
33253879 TCCCATACTGGTGGTG
65 TCCCATACTGGTGGTG
33253895 ACGGTGCGGT
Statistics
Matches: 364, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
309 18 0.05
310 270 0.74
311 48 0.13
312 28 0.08
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (312 bp):
GAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTT
CCCATACTGGTGGTGGAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTA
GATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAAATTTTA
TCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAGATAGTGTCTTCATGTACTGGCGTGAA
GTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
Found at i:33253780 original size:89 final size:89
Alignment explanation
Indices: 33253687--33253895 Score: 278
Period size: 90 Copynumber: 2.3 Consensus size: 89
33253677 GATCGAATAT
* * *
33253687 ACAAATTTTATCTTCCCATACTGGTGGTGAAGTAGATCGGAA-AA-AGCAGATAGTGTCTTCATG
1 ACAAATCTTGTCTTCCCATACTGGTGGTGAAGCAGATC-GAAGAATA-CAGATAGTGTCTTCATG
*
33253750 TACTGGCGTGAAGTAGATCAAAGATA
64 TACTGGCGTGAAATAGATCAAAGATA
* * * **
33253776 ACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGT
1 ACAAATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAA-GAATACAGATAGTGTCTTCATGT
33253841 ACTGGCGTGAAATAGATCAAAGATA
65 ACTGGCGTGAAATAGATCAAAGATA
* *
33253866 CCAGATCTTGTCTTCCCATACTGGTGGTGA
1 ACAAATCTTGTCTTCCCATACTGGTGGTGA
33253896 CGGTGCGGTG
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
88 3 0.03
89 32 0.31
90 67 0.65
91 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (89 bp):
ACAAATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAATACAGATAGTGTCTTCATGTA
CTGGCGTGAAATAGATCAAAGATA
Found at i:33253888 original size:44 final size:44
Alignment explanation
Indices: 33253194--33253889 Score: 408
Period size: 44 Copynumber: 15.7 Consensus size: 44
33253184 GAGCAGGTTG
* * * *
33253194 AAAGATAATAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* * *
33253238 AAGGA-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGATAA-CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* * * * *
33253282 AAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* * * * * * *
33253326 AAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATC
1 AAAGATAACAGATCTTGTCTTCATATACT-GG-CGTGAAGTAGATC
* * * * * ** *
33253371 GAATAT-ACAAATTTTATCTTCCCATACTGGTGGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATC
* ** *
33253415 GGAAA-A-AGCAGATAGTGTCTTCATGTACTGGCGTGAAGTAGATC
1 --AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* ** * * *
33253459 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATC
* * *
33253504 AAAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* ** *
33253548 AAAGA-AACAGATCTTGTCTCCCCATACTGGTGGTGGAA-TAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGG-CGT-GAAGTAGATC
* * * * * *
33253592 GAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* * * * * * *
33253636 AAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATC
1 AAAGATAACAGATCTTGTCTTCATATACT-GG-CGTGAAGTAGATC
* * * * * ** *
33253681 GAATAT-ACAAATTTTATCTTCCCATACTGGTGGTGAAGTAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATC
* ** *
33253725 GGAAA-A-AGCAGATAGTGTCTTCATGTACTGGCGTGAAGTAGATC
1 --AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* * * ** * * *
33253769 AAAGATAACAAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGATAACAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATC
* * *
33253814 GAAGGA-ATACAGATCTTGTCTTCATGTACTGGCGTGAAATAGATC
1 -AAAGATA-ACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
* **
33253859 AAAGATACCAGATCTTGTCTTCCCATACTGG
1 AAAGATAACAGATCTTGTCTTCATATACTGG
33253890 TGGTGACGGT
Statistics
Matches: 489, Mismatches: 136, Indels: 54
0.72 0.20 0.08
Matches are distributed among these distances:
42 6 0.01
43 30 0.06
44 283 0.58
45 144 0.29
46 26 0.05
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
AAAGATAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATC
Found at i:33255519 original size:12 final size:12
Alignment explanation
Indices: 33255484--33255524 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
33255474 AAAAAACATT
33255484 ATTATTATTAT-
1 ATTATTATTATC
33255495 ATTATATATTATC
1 ATTAT-TATTATC
*
33255508 ATTATTACTATC
1 ATTATTATTATC
33255520 ATTAT
1 ATTAT
33255525 CTCTATGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:33260919 original size:38 final size:38
Alignment explanation
Indices: 33260877--33260991 Score: 221
Period size: 38 Copynumber: 3.0 Consensus size: 38
33260867 TCAAAACAAG
33260877 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
1 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
*
33260915 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGGTAA
1 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
33260953 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
1 TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
33260991 T
1 T
33260992 TTGTAAATAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAAATGGGGTAATAAATTGGCCAAAAGGTGTGATAA
Found at i:33267732 original size:17 final size:18
Alignment explanation
Indices: 33267710--33267744 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33267700 AAACCGCAAA
33267710 AAAATAA-AAGAATTTTT
1 AAAATAATAAGAATTTTT
*
33267727 AAAATAATAGGAATTTTT
1 AAAATAATAAGAATTTTT
33267745 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAATAATAAGAATTTTT
Found at i:33267814 original size:20 final size:22
Alignment explanation
Indices: 33267779--33267818 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
33267769 TTTCAAAACT
33267779 TATAAAATTTATTTAAAAATAA
1 TATAAAATTTATTTAAAAATAA
33267801 TATAAAA-TTA-TTAAAAAT
1 TATAAAATTTATTTAAAAAT
33267819 TAGAATTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAAAATTTATTTAAAAATAA
Found at i:33268128 original size:10 final size:9
Alignment explanation
Indices: 33268080--33268156 Score: 52
Period size: 10 Copynumber: 8.1 Consensus size: 9
33268070 TCATGTCTCC
33268080 TATAATTTGT
1 TATAATTT-T
33268090 TAT-ATTTT
1 TATAATTTT
33268098 TATAATTGTT
1 TATAATT-TT
*
33268108 ATACAAATTTT
1 -TA-TAATTTT
33268119 TAATAATTTT
1 T-ATAATTTT
*
33268129 GTATTATTTT
1 -TATAATTTT
33268139 TAGT-A-TTT
1 TA-TAATTTT
33268147 TATAATTTT
1 TATAATTTT
33268156 T
1 T
33268157 TGCTTTTTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.02
8 10 0.18
9 14 0.25
10 20 0.36
11 6 0.11
12 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:33268278 original size:21 final size:23
Alignment explanation
Indices: 33268248--33268293 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
33268238 TTAGTAGTTT
33268248 TTTTTATAAC-TTTTGAAAATTC
1 TTTTTATAACTTTTTGAAAATTC
33268270 TTTTT-TAACTTTTTTGAAAATTC
1 TTTTTATAAC-TTTTTGAAAATTC
33268293 T
1 T
33268294 AAATTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 5 0.23
23 13 0.59
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTTATAACTTTTTGAAAATTC
Found at i:33268302 original size:18 final size:19
Alignment explanation
Indices: 33268279--33268321 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
33268269 CTTTTTTAAC
33268279 TTTTTTGAAAATTCT-AAA
1 TTTTTTGAAAATTCTAAAA
* *
33268297 TTTTTTGTAAATTTTAAAA
1 TTTTTTGAAAATTCTAAAA
33268316 TTTTTT
1 TTTTTT
33268322 TAATGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTTTGAAAATTCTAAAA
Found at i:33273003 original size:30 final size:30
Alignment explanation
Indices: 33272969--33273028 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33272959 ACTTAACAAG
33272969 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
33272999 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
33273029 TAATAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:33281727 original size:17 final size:17
Alignment explanation
Indices: 33281701--33281735 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33281691 AACAAACAAA
*
33281701 CAACCTCCCCCCCCCCC
1 CAACCCCCCCCCCCCCC
33281718 CAACCCCCCCCCCCCCC
1 CAACCCCCCCCCCCCCC
33281735 C
1 C
33281736 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.86, G:0.00, T:0.03
Consensus pattern (17 bp):
CAACCCCCCCCCCCCCC
Found at i:33283338 original size:79 final size:79
Alignment explanation
Indices: 33283207--33283364 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
33283197 AACGAGTACA
33283207 ACATATGAACAAATTTCAAAGTCTTAAACTATATTATTCCCAGACATCAATAACCCAACCATAAT
1 ACATATGAACAAATTTCAAAGTCTTAAACTATATTATTCCCAGACATCAATAACCCAACCATAAT
33283272 TGTGACAGGAAGTT
66 TGTGACAGGAAGTT
33283286 ACATATGAACAAATTTCAAAGTCTTAAACTATATTATTCCCAGACATCAATAACCCAACCATAAT
1 ACATATGAACAAATTTCAAAGTCTTAAACTATATTATTCCCAGACATCAATAACCCAACCATAAT
33283351 TGTGACAGGAAGTT
66 TGTGACAGGAAGTT
33283365 CCGTCTAAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (79 bp):
ACATATGAACAAATTTCAAAGTCTTAAACTATATTATTCCCAGACATCAATAACCCAACCATAAT
TGTGACAGGAAGTT
Found at i:33291125 original size:46 final size:46
Alignment explanation
Indices: 33291058--33291197 Score: 262
Period size: 46 Copynumber: 3.0 Consensus size: 46
33291048 ACAATGCTAT
* *
33291058 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
33291104 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
33291150 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
33291196 AA
1 AA
33291198 TTTGCCATGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:33291380 original size:31 final size:31
Alignment explanation
Indices: 33291345--33291442 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 31
33291335 ACAATATACG
33291345 AATTAATACAATATATCATTCCCACATTAAC
1 AATTAATACAATATATCATTCCCACATTAAC
* * *
33291376 AATTAAT-C-ATA-ATTCA--ACAACAATATAC
1 AATTAATACAATATA-TCATTCCCACATTA-AC
33291404 GAATTAATACAATATATCATTCCCACATTAAC
1 -AATTAATACAATATATCATTCCCACATTAAC
33291436 AATTAAT
1 AATTAAT
33291443 CATAAAAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 6 0.11
28 3 0.06
29 13 0.25
30 2 0.04
31 20 0.38
32 3 0.06
33 6 0.11
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (31 bp):
AATTAATACAATATATCATTCCCACATTAAC
Found at i:33291393 original size:60 final size:60
Alignment explanation
Indices: 33291320--33291447 Score: 256
Period size: 60 Copynumber: 2.1 Consensus size: 60
33291310 TTTTTACCAC
33291320 AATCATAATTCAACAACAATATACGAATTAATACAATATATCATTCCCACATTAACAATT
1 AATCATAATTCAACAACAATATACGAATTAATACAATATATCATTCCCACATTAACAATT
33291380 AATCATAATTCAACAACAATATACGAATTAATACAATATATCATTCCCACATTAACAATT
1 AATCATAATTCAACAACAATATACGAATTAATACAATATATCATTCCCACATTAACAATT
33291440 AATCATAA
1 AATCATAA
33291448 AAGTTCAGCC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.30
Consensus pattern (60 bp):
AATCATAATTCAACAACAATATACGAATTAATACAATATATCATTCCCACATTAACAATT
Found at i:33291411 original size:29 final size:29
Alignment explanation
Indices: 33291320--33291411 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
33291310 TTTTTACCAC
33291320 AATCATAATTCAACAACAATATACGAATT
1 AATCATAATTCAACAACAATATACGAATT
* * *
33291349 AATACA-ATATATCATTCCCACATTA-AC-AATT
1 AAT-CATA-AT-TCA--ACAACAATATACGAATT
33291380 AATCATAATTCAACAACAATATACGAATT
1 AATCATAATTCAACAACAATATACGAATT
33291409 AAT
1 AAT
33291412 ACAATATATC
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 14 0.29
30 8 0.16
31 11 0.22
32 2 0.04
33 6 0.12
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.29
Consensus pattern (29 bp):
AATCATAATTCAACAACAATATACGAATT
Found at i:33298543 original size:17 final size:17
Alignment explanation
Indices: 33298492--33298549 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
33298482 TATTTTCTCT
*
33298492 TTTTTCTAACATAAAAT-
1 TTTTTATAA-ATAAAATA
*
33298509 TTATTTATTAAA-ACAATA
1 TT-TTTA-TAAATAAAATA
33298527 TTTTTATAAATAAAATA
1 TTTTTATAAATAAAATA
33298544 TTTTTA
1 TTTTTA
33298550 AAAAAACCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 4 0.12
17 21 0.62
18 6 0.18
19 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTATAAATAAAATA
Found at i:33299977 original size:13 final size:13
Alignment explanation
Indices: 33299959--33300001 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33299949 TAGATTTTTC
33299959 CTAAATATTATTA
1 CTAAATATTATTA
33299972 CTAAATA--ATT-
1 CTAAATATTATTA
*
33299982 CTAAATATTATCA
1 CTAAATATTATTA
33299995 CTAAATA
1 CTAAATA
33300002 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:33300010 original size:23 final size:23
Alignment explanation
Indices: 33299959--33300008 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
33299949 TAGATTTTTC
*
33299959 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
33299982 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
33300005 -TAAA
1 CTAAA
33300009 ATTCAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:33309924 original size:13 final size:13
Alignment explanation
Indices: 33309906--33309948 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33309896 TAGATTTTTC
33309906 CTAAATATTATCA
1 CTAAATATTATCA
*
33309919 CTAAATAAT-TCA
1 CTAAATATTATCA
33309931 --AAATATTATCA
1 CTAAATATTATCA
33309942 CTAAATA
1 CTAAATA
33309949 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:33309938 original size:23 final size:23
Alignment explanation
Indices: 33309908--33309957 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
33309898 GATTTTTCCT
33309908 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
33309931 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
33309954 AAAT
1 AAAT
33309958 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:33309970 original size:23 final size:23
Alignment explanation
Indices: 33309908--33309963 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
33309898 GATTTTTCCT
**
33309908 AAATATTATCACTAAATAATTCA
1 AAATATTAAAACTAAATAATTCA
**
33309931 AAATATTATCACTAAATAATTCA
1 AAATATTAAAACTAAATAATTCA
33309954 AAAT-TTAAAA
1 AAATATTAAAA
33309964 ATTAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTAAAACTAAATAATTCA
Found at i:33311257 original size:9 final size:9
Alignment explanation
Indices: 33311241--33311275 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
33311231 TTAATTAAAA
33311241 AATTAATTT
1 AATTAATTT
*
33311250 ATTTAATTT
1 AATTAATTT
*
33311259 AATGAATTT
1 AATTAATTT
33311268 AATTAATT
1 AATTAATT
33311276 AATATTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
AATTAATTT
Found at i:33318888 original size:21 final size:21
Alignment explanation
Indices: 33318864--33318906 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33318854 TCAGCTCTCT
33318864 GGCCATCTTCCAT-CAAACATG
1 GGCC-TCTTCCATCCAAACATG
* *
33318885 GGCCTTTTCCTTCCAAACATG
1 GGCCTCTTCCATCCAAACATG
33318906 G
1 G
33318907 AGAGATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (21 bp):
GGCCTCTTCCATCCAAACATG
Found at i:33321978 original size:16 final size:18
Alignment explanation
Indices: 33321935--33321978 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
33321925 CCAAAGCCCT
33321935 ACAAGCCCAAATTACATCCA
1 ACAAGCCCAAATTACA--CA
33321955 ACAAGCCCAAATTACA-A
1 ACAAGCCCAAATTACACA
33321972 A-AAGCCC
1 ACAAGCCC
33321979 TAATGGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
20 16 0.67
ACGTcount: A:0.48, C:0.34, G:0.07, T:0.11
Consensus pattern (18 bp):
ACAAGCCCAAATTACACA
Found at i:33322328 original size:21 final size:20
Alignment explanation
Indices: 33322275--33322331 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
33322265 GATTAAGGTG
*
33322275 TTTCTTCCTTTTTGTTTTTTT
1 TTTCTTCCTTTTT-TTTTTAT
* *
33322296 TTTCATT-ATTTTTATTTTAT
1 TTTC-TTCCTTTTTTTTTTAT
33322316 TTTCTTCCTTTTTTTT
1 TTTCTTCCTTTTTTTT
33322332 CGAAGCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.07
20 16 0.55
21 9 0.31
22 2 0.07
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTCTTCCTTTTTTTTTTAT
Found at i:33322804 original size:3 final size:3
Alignment explanation
Indices: 33322796--33322836 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
33322786 ACTTTAAATT
* * *
33322796 TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33322837 CTTAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:33324855 original size:29 final size:28
Alignment explanation
Indices: 33324800--33324862 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
33324790 TGATAACATT
* **
33324800 AGTGACTAAAATAGAAAATTTTAAACTCG
1 AGTGACCAAAATAGAAAATGATAAACT-G
33324829 AGTGACCAAAATAGAAATATGAT-AACTG
1 AGTGACCAAAATAGAAA-ATGATAAACTG
33324857 AGTGAC
1 AGTGAC
33324863 TATTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (28 bp):
AGTGACCAAAATAGAAAATGATAAACTG
Found at i:33325715 original size:19 final size:19
Alignment explanation
Indices: 33325679--33325719 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
33325669 TTACATATTC
33325679 TAAAAAATTTAATAAATTT
1 TAAAAAATTTAATAAATTT
*
33325698 TAAAATAATTTAATAATTTT
1 TAAAA-AATTTAATAAATTT
33325718 TA
1 TA
33325720 CTTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAAAATTTAATAAATTT
Found at i:33328195 original size:3 final size:3
Alignment explanation
Indices: 33328187--33328217 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33328177 TACTGAAGTG
33328187 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
33328218 AGTTACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:33328797 original size:14 final size:14
Alignment explanation
Indices: 33328778--33328830 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
33328768 ACATAAAACA
33328778 TAAACCCTTAACCCT
1 TAAA-CCTTAACCCT
* * *
33328793 TAACCCCTAAACCT
1 TAAACCTTAACCCT
* *
33328807 TAAACCTCAACCCC
1 TAAACCTTAACCCT
33328821 TAAACCTTAA
1 TAAACCTTAA
33328831 ACTATAATCC
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
14 26 0.90
15 3 0.10
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAACCCT
Found at i:33328809 original size:21 final size:21
Alignment explanation
Indices: 33328778--33328832 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
33328768 ACATAAAACA
* *
33328778 TAAACCCTTAACCCTTAACCCC
1 TAAA-CCTTAAACCTCAACCCC
33328800 TAAACCTTAAACCTCAACCCC
1 TAAACCTTAAACCTCAACCCC
33328821 TAAACCTTAAAC
1 TAAACCTTAAAC
33328833 TATAATCCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTTAAACCTCAACCCC
Found at i:33328842 original size:21 final size:21
Alignment explanation
Indices: 33328797--33328890 Score: 60
Period size: 21 Copynumber: 4.7 Consensus size: 21
33328787 AACCCTTAAC
* *
33328797 CCCTAAACCTTAAACCT-CAAC
1 CCCTAAACCTTAAA-CTATAAT
33328818 CCCTAAACCTTAAACTATAAT
1 CCCTAAACCTTAAACTATAAT
*
33328839 CCCTACACC-----C-ATAAT
1 CCCTAAACCTTAAACTATAAT
* *
33328854 CCATAAACCTTAAAATAATAA-
1 CCCTAAACCTTAAACT-ATAAT
33328875 CTCCTAAACCTTAAAC
1 C-CCTAAACCTTAAAC
33328891 CTTAAATCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
15 12 0.21
16 1 0.02
20 2 0.04
21 25 0.45
22 16 0.29
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
CCCTAAACCTTAAACTATAAT
Found at i:33328902 original size:21 final size:21
Alignment explanation
Indices: 33328876--33328925 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33328866 AAATAATAAC
*
33328876 TCCTAAACCTTAAACCTTAAA
1 TCCTAAACCTTAAACCCTAAA
* *
33328897 TCCTAAGCCTTATACCCTAAA
1 TCCTAAACCTTAAACCCTAAA
33328918 -CTCTAAAC
1 TC-CTAAAC
33328926 TACAATGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (21 bp):
TCCTAAACCTTAAACCCTAAA
Found at i:33329325 original size:40 final size:39
Alignment explanation
Indices: 33329232--33329327 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
33329222 CATTTTCGAT
* * * * *
33329232 AAAGCGACGCTAAAGCTCGATCTATAGCGGCGTTTTTCA
1 AAAGCGCCGCTAATGCTCCATCTATAGCGACGTTTTACA
*
33329271 AAACGCGCCGCTAATGCTCCATCTCTAGCGACGTTTTACTA
1 AAA-GCGCCGCTAATGCTCCATCTATAGCGACGTTTTAC-A
33329312 AAAGCGCCGCTAATGC
1 AAAGCGCCGCTAATGC
33329328 CACTAAAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.06
40 42 0.86
41 4 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AAAGCGCCGCTAATGCTCCATCTATAGCGACGTTTTACA
Found at i:33329463 original size:115 final size:114
Alignment explanation
Indices: 33329258--33329557 Score: 375
Period size: 115 Copynumber: 2.6 Consensus size: 114
33329248 TCGATCTATA
* * * * * *
33329258 GCGGCGTTTTTCAAAACGCGCCGCTAATGCTCCATCTCTAGCGACGTTTTACTAAAAGCGCCGCT
1 GCGGCGTTTTTCAAAA-GCGCCGCTAATGCTCGATCTATAGCGGCGTTTTACAAAAAACGCCACT
* * *
33329323 AATGCCACTAAAACTCAACATAAAACGATGGTGTTGTGCTTAAATTTTTT
65 AATGCCACTAAAACTCAACACAAAACGACGGCGTTGTGCTTAAATTTTTT
* * * ** * *
33329373 GCGGCATTTTTCTAAAAGCACCGCTAATGCTCGATATATAGCGGTATTTTCCAAAAAACGCCTCT
1 GCGGCGTTTTTC-AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTACAAAAAACGCCACT
** * * *
33329438 AATGCCACTAAAGGTTAACACAAAACGACGGCGTTGTGTTTAATTTTTTT
65 AATGCCACTAAAACTCAACACAAAACGACGGCGTTGTGCTTAAATTTTTT
*
33329488 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAACGCCACT
1 GCGGCGTTTTTC-AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTACAAAAAACGCCACT
33329553 AATGC
65 AATGC
33329558 TCGATATGTA
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
115 152 0.97
116 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (114 bp):
GCGGCGTTTTTCAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTACAAAAAACGCCACTA
ATGCCACTAAAACTCAACACAAAACGACGGCGTTGTGCTTAAATTTTTT
Found at i:33329532 original size:40 final size:40
Alignment explanation
Indices: 33329488--33329771 Score: 183
Period size: 40 Copynumber: 7.3 Consensus size: 40
33329478 TAATTTTTTT
33329488 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * *
33329528 GCGGCGTTTTTCAAAAAACGCCACTAATGCTCGATATGTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
33329568 GCGGCGTTTTTCAAAAAGTGCCGTTAATGC-C-A-C-A-A
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
** ** * ** * ** * * *
33329603 -AAGC--TTAACACAAAA-CGACTGCGTTGTGTTTAATTTTTT
1 GCGGCGTTTTTCA-AAAAGCG-CCGC-TAATGCTCGATCTATA
* * * * *
33329642 GCGGTG-TTATCAAAAAGCGCCGCTAATGTTTGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
33329681 GCGTCGTTTTTCAAAATGTGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * **
33329721 GCAGCGTTTTTCAGAAAGCGCCGCTAATAATCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
33329761 GCGGCATTTTT
1 GCGGCGTTTTT
33329772 TATCCAAATG
Statistics
Matches: 179, Mismatches: 53, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
32 5 0.03
33 6 0.03
34 5 0.03
35 1 0.01
36 1 0.01
38 1 0.01
39 14 0.08
40 139 0.78
41 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:33329728 original size:153 final size:154
Alignment explanation
Indices: 33329373--33329748 Score: 472
Period size: 153 Copynumber: 2.4 Consensus size: 154
33329363 TAAATTTTTT
* * * * *
33329373 GCGGCATTTTTCTAAAAGCACCGCTAATGCTCGATATATAGCG-GTATTTTCCAAAAAACGCC-T
1 GCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATATATAGCGCGT-TTTT-CAAAAAGCGCCGT
* * *
33329436 CTAATGCCACTAAAGGTTAACACAAAACGACGGCGTTGTGTTTAATTTTTTTGCGGCGTTTTTCA
64 -TAATGCCACAAAAGCTTAACACAAAACGACGGCGTTGTGTTTAATTTTTTTGCGGCGTTTATCA
*
33329501 AAAAGCGCCGCTAATGCTCGATCTATA
128 AAAAGCGCCGCTAATGCTCGACCTATA
* * *
33329528 GCGGCGTTTTTCAAAAAACGCCACTAATGCTCGATATGTAGCGGCGTTTTTCAAAAAGTGCCGTT
1 GCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATATATAGC-GCGTTTTTCAAAAAGCGCCGTT
* *
33329593 AATGCCACAAAAGCTTAACACAAAACGACTGCGTTGTGTTTAA-TTTTTTGCGGTG-TTATCAAA
65 AATGCCACAAAAGCTTAACACAAAACGACGGCGTTGTGTTTAATTTTTTTGCGGCGTTTATCAAA
* *
33329656 AAGCGCCGCTAATGTTTGACCTATA
130 AAGCGCCGCTAATGCTCGACCTATA
* *** * * *
33329681 GCGTCGTTTTTCAAAATGTGCCGCTAATGCTCGATCTATAGCAGCGTTTTTCAGAAAGCGCCGCT
1 GCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATATATAGC-GCGTTTTTCAAAAAGCGCCGTT
33329746 AAT
65 AAT
33329749 AATCGATCTA
Statistics
Matches: 191, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
153 86 0.45
154 11 0.06
155 86 0.45
156 6 0.03
157 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (154 bp):
GCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATATATAGCGCGTTTTTCAAAAAGCGCCGTTA
ATGCCACAAAAGCTTAACACAAAACGACGGCGTTGTGTTTAATTTTTTTGCGGCGTTTATCAAAA
AGCGCCGCTAATGCTCGACCTATA
Found at i:33330969 original size:25 final size:27
Alignment explanation
Indices: 33330939--33330988 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33330929 ATTAGCAATT
*
33330939 AAATAA-ATTTCAA-TTTTTTAAAAAA
1 AAATAATATTTAAAGTTTTTTAAAAAA
*
33330964 AAATAATTTTTAAAGTTTTTTAAAA
1 AAATAATATTTAAAGTTTTTTAAAA
33330989 TAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 5 0.24
27 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATAATATTTAAAGTTTTTTAAAAAA
Found at i:33350797 original size:72 final size:73
Alignment explanation
Indices: 33350707--33350851 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
33350697 TTAATGAATA
33350707 AATAAATAATTTCTAATAAATATTTTTATTGTTTTAAAAAATAAATAAATAATTTTTGAAAATTT
1 AATAAATAATTTCTAATAAATATTTTTATTGTTTTAAAAAATAAATAAATAATTTTTGAAAATTT
33350772 TCATTTTC
66 TCATTTTC
33350780 AATAAATAA-TTCTAATAAATATTTTTATTGTTTTAAAAAATAAATAAATAATTTTTGAAAATTT
1 AATAAATAATTTCTAATAAATATTTTTATTGTTTTAAAAAATAAATAAATAATTTTTGAAAATTT
33350844 TCATTTTC
66 TCATTTTC
33350852 TTGTATTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 63 0.88
73 9 0.12
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (73 bp):
AATAAATAATTTCTAATAAATATTTTTATTGTTTTAAAAAATAAATAAATAATTTTTGAAAATTT
TCATTTTC
Found at i:33366102 original size:15 final size:16
Alignment explanation
Indices: 33366082--33366113 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33366072 CAATAAATAA
33366082 ATTTTTAA-ATTTTTT
1 ATTTTTAATATTTTTT
33366097 ATTTTTAATATTTTTT
1 ATTTTTAATATTTTTT
33366113 A
1 A
33366114 ATAAATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTAATATTTTTT
Found at i:33367042 original size:20 final size:20
Alignment explanation
Indices: 33367017--33367055 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33367007 AAAAGTTTTT
33367017 TTTTTATAAAAACACATAAG
1 TTTTTATAAAAACACATAAG
* *
33367037 TTTTTATAACAATACATAA
1 TTTTTATAAAAACACATAA
33367056 CACAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTTATAAAAACACATAAG
Found at i:33367156 original size:15 final size:15
Alignment explanation
Indices: 33367110--33367156 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
33367100 ACATAACATT
* *
33367110 TATTTCTTAAAATAA
1 TATTTTTTAAAAAAA
33367125 TATTTTTATAAATAAAA
1 TATTTTT-TAAA-AAAA
33367142 TATTTTTTAAAAAAA
1 TATTTTTTAAAAAAA
33367157 CCTCACAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTTTTTAAAAAAA
Found at i:33374453 original size:18 final size:18
Alignment explanation
Indices: 33374426--33374460 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33374416 CGGAAAAGGA
* *
33374426 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
33374444 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
33374461 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:33375121 original size:7 final size:7
Alignment explanation
Indices: 33375111--33375135 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33375101 TTATATACAT
33375111 AATACTA
1 AATACTA
33375118 AATACTA
1 AATACTA
33375125 AATACTA
1 AATACTA
33375132 AATA
1 AATA
33375136 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33376780 original size:29 final size:29
Alignment explanation
Indices: 33376741--33376797 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
33376731 GAAATTATAA
*
33376741 AAAAAT-TTAAAATTATTTTTAAAAAATAT
1 AAAAATATAAAAATTA-TTTTAAAAAATAT
33376770 AAAAATATAAAAATTATTTTAAAAAATA
1 AAAAATATAAAAATTATTTTAAAAAATA
33376798 AAATTGAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATATAAAAATTATTTTAAAAAATAT
Found at i:33376852 original size:29 final size:29
Alignment explanation
Indices: 33376820--33376903 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
33376810 AATTGAAATT
33376820 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
33376849 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
33376871 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
33376900 AAAT
1 AAAT
33376904 TGAGAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:33376854 original size:51 final size:51
Alignment explanation
Indices: 33376798--33376909 Score: 197
Period size: 51 Copynumber: 2.2 Consensus size: 51
33376788 TTAAAAAATA
* *
33376798 AAATTGAGGGGTAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
*
33376849 AAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
33376900 AAATTGAGAG
1 AAATTGAGAG
33376910 AATTTTGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
AAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:33376906 original size:22 final size:22
Alignment explanation
Indices: 33376881--33376928 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
33376871 AAATATGGGT
33376881 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
33376903 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
33376925 TTGA
1 TTGA
33376929 AGATAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:33377437 original size:16 final size:16
Alignment explanation
Indices: 33377416--33377446 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33377406 CCTGTTATGA
33377416 TTTAAATTTAAAATTT
1 TTTAAATTTAAAATTT
33377432 TTTAAATTTAAAATT
1 TTTAAATTTAAAATT
33377447 CTTGATCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAAATTT
Found at i:33380533 original size:21 final size:21
Alignment explanation
Indices: 33380509--33380551 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33380499 TCAGCTCTCT
33380509 GGCCATCTTCCAT-CAAACATG
1 GGCC-TCTTCCATCCAAACATG
* *
33380530 GGCCTTTTCCTTCCAAACATG
1 GGCCTCTTCCATCCAAACATG
33380551 G
1 G
33380552 AGGAACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (21 bp):
GGCCTCTTCCATCCAAACATG
Found at i:33385552 original size:84 final size:86
Alignment explanation
Indices: 33385399--33385563 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 86
33385389 GACAAGGCAT
* * *
33385399 TGACTCCCTTAAAATGAAAAAAAATTCATTTAGACCCTTTAAAATTTTAAAAAATTTAAATTAAT
1 TGACTCCCTAAAAATGAAAAAAAATTCATTTAGACCCTTTAAAATTATAAAAAATATAAATTAAT
33385464 AAAT-GTAAAATTACACTTTA
66 AAATGGTAAAATTACACTTTA
* * * *
33385484 TGAC-CCCTAAAAAT-AATAAAAATTTGATTTA-ACCCTTTAAAAATTAT-AAAGATATAAGTTA
1 TGACTCCCTAAAAATGAA-AAAAAATTCATTTAGACCCTTT-AAAATTATAAAAAATATAAATTA
* *
33385545 TTAAAATGGTGAAATTACA
64 AT-AAATGGTAAAATTACA
33385564 TTTTTACTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
83 21 0.31
84 32 0.48
85 14 0.21
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (86 bp):
TGACTCCCTAAAAATGAAAAAAAATTCATTTAGACCCTTTAAAATTATAAAAAATATAAATTAAT
AAATGGTAAAATTACACTTTA
Found at i:33390390 original size:13 final size:13
Alignment explanation
Indices: 33390372--33390398 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33390362 CTACATCAAG
33390372 AAAAGCCATATAA
1 AAAAGCCATATAA
33390385 AAAAGCCATATAA
1 AAAAGCCATATAA
33390398 A
1 A
33390399 CAGATAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAGCCATATAA
Found at i:33391273 original size:15 final size:15
Alignment explanation
Indices: 33391253--33391281 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33391243 ATATTAAAAA
33391253 TTCACAGTATCAAAT
1 TTCACAGTATCAAAT
33391268 TTCACAGTATCAAA
1 TTCACAGTATCAAA
33391282 GTTATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (15 bp):
TTCACAGTATCAAAT
Found at i:33395502 original size:27 final size:27
Alignment explanation
Indices: 33395480--33395534 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
33395470 GCTAACTTTC
33395480 TAACTGCTAACTGACTTAGTAACAGCT
1 TAACTGCTAACTGACTTAGTAACAGCT
33395507 TAACTGCTAACTGACTTAGTAACAGCT
1 TAACTGCTAACTGACTTAGTAACAGCT
33395534 T
1 T
33395535 TGACTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (27 bp):
TAACTGCTAACTGACTTAGTAACAGCT
Found at i:33398887 original size:27 final size:27
Alignment explanation
Indices: 33398849--33398903 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
33398839 GCTAACTTTC
33398849 TAACTGCTAACTGACTTAGTAATAGCT
1 TAACTGCTAACTGACTTAGTAATAGCT
33398876 TAACTGCTAACTGACTTAGTAATAGCT
1 TAACTGCTAACTGACTTAGTAATAGCT
33398903 T
1 T
33398904 TGACTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
TAACTGCTAACTGACTTAGTAATAGCT
Found at i:33400620 original size:18 final size:18
Alignment explanation
Indices: 33400599--33400640 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33400589 ATTATTATTG
*
33400599 TTATTAGTACTGTTACTA
1 TTATTAGTACTGGTACTA
* *
33400617 TTATTATTATTGGTACTA
1 TTATTAGTACTGGTACTA
33400635 TTATTA
1 TTATTA
33400641 CACTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (18 bp):
TTATTAGTACTGGTACTA
Found at i:33403304 original size:21 final size:21
Alignment explanation
Indices: 33403280--33403322 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33403270 TCAGCTCTCT
33403280 GGCCATCTTCCAT-CAAACATG
1 GGCC-TCTTCCATCCAAACATG
* *
33403301 GGCCTTTTCCTTCCAAACATG
1 GGCCTCTTCCATCCAAACATG
33403322 G
1 G
33403323 AGTAATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (21 bp):
GGCCTCTTCCATCCAAACATG
Found at i:33408270 original size:20 final size:19
Alignment explanation
Indices: 33408240--33408280 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
33408230 TTACATATTC
33408240 TAAAAAATTTAATAATTTT
1 TAAAAAATTTAATAATTTT
33408259 TAAAATAATTTAATAATTTT
1 TAAAA-AATTTAATAATTTT
33408279 TA
1 TA
33408281 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAAATTTAATAATTTT
Found at i:33408773 original size:15 final size:15
Alignment explanation
Indices: 33408753--33408782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33408743 TTGTACAATC
33408753 GGTCCCCATATTTTT
1 GGTCCCCATATTTTT
*
33408768 GGTCCCTATATTTTT
1 GGTCCCCATATTTTT
33408783 TATTTTCAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GGTCCCCATATTTTT
Found at i:33409225 original size:31 final size:29
Alignment explanation
Indices: 33409187--33409263 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
33409177 CTAACGGCTC
* *
33409187 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
33409218 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
33409247 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
33409264 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:33411668 original size:17 final size:19
Alignment explanation
Indices: 33411629--33411686 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
33411619 TATATTTATT
** *
33411629 TTTTTTGAAAACACGAAAA
1 TTTTTTGAAAACATTAGAA
33411648 TTTTTT-AAAA-A-TAGAA
1 TTTTTTGAAAACATTAGAA
33411664 TTTTTTGAAAACATTAGAA
1 TTTTTTGAAAACATTAGAA
33411683 TTTT
1 TTTT
33411687 GAAGAACGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.26
17 5 0.15
18 5 0.15
19 15 0.44
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTTTTGAAAACATTAGAA
Found at i:33411745 original size:18 final size:19
Alignment explanation
Indices: 33411710--33411745 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33411700 TTTTTTATTT
33411710 TTATTTTGTGAAAACACGA
1 TTATTTTGTGAAAACACGA
*
33411729 TTATTTT-TGAAACCACG
1 TTATTTTGTGAAAACACG
33411746 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (19 bp):
TTATTTTGTGAAAACACGA
Found at i:33411958 original size:19 final size:19
Alignment explanation
Indices: 33411934--33411974 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33411924 GACACGAAAA
*
33411934 TTTCGAAACACA-GGAATTT
1 TTTCGAAA-ACATGAAATTT
33411953 TTTCGAAAACATGAAATTT
1 TTTCGAAAACATGAAATTT
33411972 TTT
1 TTT
33411975 GAATACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (19 bp):
TTTCGAAAACATGAAATTT
Found at i:33412153 original size:9 final size:9
Alignment explanation
Indices: 33412139--33412163 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33412129 AATTAAATTA
33412139 AAAATGCAT
1 AAAATGCAT
33412148 AAAATGCAT
1 AAAATGCAT
33412157 AAAATGC
1 AAAATGC
33412164 TAATAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (9 bp):
AAAATGCAT
Found at i:33412315 original size:13 final size:13
Alignment explanation
Indices: 33412284--33412349 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
33412274 AAATTGAACC
33412284 TTTTTTCT-TTTT
1 TTTTTTCTCTTTT
33412296 TCCTTTTTCTCTTTT
1 T--TTTTTCTCTTTT
33412311 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
**
33412324 TTCCTTCTC-TTT
1 TTTTTTCTCTTTT
33412336 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
33412349 T
1 T
33412350 CTGGCCTGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
12 11 0.24
13 23 0.50
14 7 0.15
15 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:33412331 original size:26 final size:26
Alignment explanation
Indices: 33412284--33412349 Score: 91
Period size: 25 Copynumber: 2.5 Consensus size: 26
33412274 AAATTGAACC
33412284 TTTTT-TCTTTTTTCCTTTTTCTCTTTTT
1 TTTTTCTCTTTTTTCC--TTTCTC-TTTT
33412312 TTTTTCTCTTTTTTCC-TTCTCTTTT
1 TTTTTCTCTTTTTTCCTTTCTCTTTT
33412337 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
33412350 CTGGCCTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 17 0.46
26 5 0.14
28 5 0.14
29 10 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTCTCTTTTTTCCTTTCTCTTTT
Found at i:33412474 original size:14 final size:14
Alignment explanation
Indices: 33412451--33412484 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33412441 CTGGAAAGGC
*
33412451 CTGCTATTTTTTTA
1 CTGCTGTTTTTTTA
*
33412465 CTGCTGTTTTTTTG
1 CTGCTGTTTTTTTA
33412479 CTGCTG
1 CTGCTG
33412485 CTATTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.18, G:0.18, T:0.59
Consensus pattern (14 bp):
CTGCTGTTTTTTTA
Found at i:33412639 original size:7 final size:7
Alignment explanation
Indices: 33412614--33412703 Score: 65
Period size: 7 Copynumber: 12.4 Consensus size: 7
33412604 AAAAAAATTG
33412614 TTTTC-T
1 TTTTCTT
*
33412620 TTTTCCT
1 TTTTCTT
33412627 TTTTCTT
1 TTTTCTT
33412634 TTTTCTT
1 TTTTCTT
*
33412641 CTTTCTT
1 TTTTCTT
**
33412648 CTTCCCATT
1 -TTTTC-TT
33412657 TTCTTCTT
1 TT-TTCTT
*
33412665 TCTTTCTC
1 T-TTTCTT
*
33412673 CTTTCTT
1 TTTTCTT
33412680 TTTTCTT
1 TTTTCTT
*
33412687 CTTTCTT
1 TTTTCTT
*
33412694 TCTTCTT
1 TTTTCTT
33412701 TTT
1 TTT
33412704 CTTCCTTTCT
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
6 5 0.08
7 44 0.69
8 11 0.17
9 4 0.06
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCTT
Found at i:33412686 original size:46 final size:46
Alignment explanation
Indices: 33412628--33412717 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
33412618 CTTTTTCCTT
33412628 TTTCTTTTTTCTTCTTTC-TTCTTCCCATTTTCTT-CTTTCTTTCTCC
1 TTTCTTTTTTCTTCTTTCTTTCTT--CATTTTCTTCCTTTCTTTCTCC
*
33412674 TTTCTTTTTTCTTCTTTCTTTCTTCTTTTTCTTCCTTTCTTTCT
1 TTTCTTTTTTCTTCTTTCTTTCTTCATTTTCTTCCTTTCTTTCT
33412718 TCCCCGATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
45 8 0.20
46 28 0.68
47 5 0.12
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (46 bp):
TTTCTTTTTTCTTCTTTCTTTCTTCATTTTCTTCCTTTCTTTCTCC
Found at i:33412688 original size:21 final size:20
Alignment explanation
Indices: 33412614--33412718 Score: 81
Period size: 20 Copynumber: 5.0 Consensus size: 20
33412604 AAAAAAATTG
*
33412614 TTTTCTT-TTTCCTTTTTCTT
1 TTTTCTTCTTT-CTCTTTCTT
*
33412634 TTTTCTTCTTTCTTCTTCCCATT
1 TTTTCTTCTTTC-TCTT-TC-TT
33412657 TTCTTCTTTCTTTCTCCTTTCTT
1 TT-TTC-TTCTTTCT-CTTTCTT
*
33412680 TTTTCTTCTTTCTTTCTTC-T
1 TTTTCTTCTTTCTCT-TTCTT
*
33412700 TTTTCTTCCTT-TCTTTCTT
1 TTTTCTTCTTTCTCTTTCTT
33412719 CCCCGATCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
18 3 0.04
19 3 0.04
20 20 0.29
21 17 0.24
22 4 0.06
23 8 0.11
24 5 0.07
25 10 0.14
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTCTTTCTCTTTCTT
Found at i:33412715 original size:14 final size:13
Alignment explanation
Indices: 33412614--33412706 Score: 77
Period size: 14 Copynumber: 7.1 Consensus size: 13
33412604 AAAAAAATTG
33412614 TTTTCTT-TTTCCT
1 TTTTCTTCTTT-CT
*
33412627 TTTTCTTTTTTCT
1 TTTTCTTCTTTCT
* *
33412640 TCTTTCTTCTTCCCA
1 T-TTTCTTCTT-TCT
33412655 TTTTCTTCTTTC-
1 TTTTCTTCTTTCT
*
33412667 -TTTCTCCTTTCTT
1 TTTTCTTCTTTC-T
33412680 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
33412693 TTCTTCTT-TTTCT
1 TT-TTCTTCTTTCT
33412706 T
1 T
33412707 CCTTTCTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
11 10 0.15
13 20 0.30
14 35 0.52
15 2 0.03
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:33412719 original size:21 final size:20
Alignment explanation
Indices: 33412614--33412719 Score: 92
Period size: 21 Copynumber: 5.0 Consensus size: 20
33412604 AAAAAAATTG
33412614 TTTTCTT-TTTCCTTT-TTCTT
1 TTTTCTTCTTT-CTTTCTTC-T
*
33412634 TTTTCTTCTTTC-TTCTTCCCA
1 TTTTCTTCTTTCTTTCTT--CT
33412655 TTTTCTTCTTTCTTTCTCCTTTCTT
1 TTTTCTTCTTTC-TT-T-C-TTC-T
33412680 TTTTCTTCTTTCTTTCTTCT
1 TTTTCTTCTTTCTTTCTTCT
33412700 TTTTCTTCCTTTCTTTCTTC
1 TTTTCTT-CTTTCTTTCTTC
33412720 CCCGATCAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 21
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.03
20 18 0.25
21 30 0.41
22 2 0.03
23 2 0.03
24 4 0.05
25 13 0.18
26 2 0.03
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCTTCT
Found at i:33412860 original size:32 final size:29
Alignment explanation
Indices: 33412819--33412883 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 29
33412809 CCCCTTTTTC
*
33412819 TTTTTTTCTTCTTTGCTCTTTTTTTTCTTCTT
1 TTTTTTTCTT-TTTGCT-TGTTTTTT-TTCTT
33412851 TTTTTTTCTTTTTGCTTGTTTTTTTTCTT
1 TTTTTTTCTTTTTGCTTGTTTTTTTTCTT
33412880 TTTT
1 TTTT
33412884 CTTGCCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 9 0.28
30 7 0.22
31 6 0.19
32 10 0.31
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.82
Consensus pattern (29 bp):
TTTTTTTCTTTTTGCTTGTTTTTTTTCTT
Found at i:33412861 original size:29 final size:29
Alignment explanation
Indices: 33412813--33412883 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
33412803 CCTTTCCCCC
*
33412813 TTTTTCTTTTTTTCTTC-TTTGCTCTTTTT
1 TTTTTCTTTTTTTCTTCTTTTGCT-TGTTT
33412842 TTTCTTCTTTTTTT-TTCTTTTTGCTTGTTT
1 TTT-TTCTTTTTTTCTTC-TTTTGCTTGTTT
33412872 TTTTTCTTTTTT
1 TTTTTCTTTTTT
33412884 CTTGCCTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
29 15 0.39
30 17 0.45
31 6 0.16
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTTCTTTTTTTCTTCTTTTGCTTGTTT
Found at i:33412862 original size:19 final size:19
Alignment explanation
Indices: 33412821--33412882 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
33412811 CCTTTTTCTT
* *
33412821 TTTTTCTTCTTTGCTCTTT-
1 TTTTTCTTCTTT-TTTTTTC
33412840 TTTTTCTTCTTTTTTTTTC
1 TTTTTCTTCTTTTTTTTTC
*
33412859 TTTTTGCTT-GTTTTTTTTC
1 TTTTT-CTTCTTTTTTTTTC
33412878 TTTTT
1 TTTTT
33412883 TCTTGCCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.11
19 31 0.82
20 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTTC
Found at i:33412887 original size:19 final size:19
Alignment explanation
Indices: 33412839--33412887 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
33412829 CTTTGCTCTT
*
33412839 TTTTTTCTTCTTTTTTTTTC
1 TTTTTTCTT-GTTTTTTTTC
*
33412859 TTTTTGCTTGTTTTTTTTC
1 TTTTTTCTTGTTTTTTTTC
33412878 TTTTTTCTTG
1 TTTTTTCTTG
33412888 CCTCTTGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTTTTCTTGTTTTTTTTC
Found at i:33413462 original size:30 final size:31
Alignment explanation
Indices: 33413402--33413563 Score: 99
Period size: 30 Copynumber: 5.4 Consensus size: 31
33413392 AAAAGTGCAA
* * *
33413402 TTTTAG-AAAAA-TATGGGGCCAAAATATAAT
1 TTTTAGAAAAAACTA-GGGGTCTAAATGTAAT
***
33413432 TTTTAG-AAATTTTAGGGGTCTAAATGTAA-
1 TTTTAGAAAAAACTAGGGGTCTAAATGTAAT
* * * *
33413461 -TTTATAAAATATTAGGGGTC-AAGGTGTAA-
1 TTTTAGAAAAAACTAGGGGTCTAA-ATGTAAT
* * *
33413490 ATTTAGAAAAATCTAGGGGTCAAAATGTAAT
1 TTTTAGAAAAAACTAGGGGTCTAAATGTAAT
33413521 TTTT-GAAAAAACTAGGGG-CTAAAATGTAAT
1 TTTTAGAAAAAACTAGGGGTCT-AAATGTAAT
**
33413551 TTTTTTAAAAAAC
1 TTTTAGAAAAAAC
33413564 GCAAATTCGT
Statistics
Matches: 107, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
28 6 0.06
29 19 0.18
30 68 0.64
31 14 0.13
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (31 bp):
TTTTAGAAAAAACTAGGGGTCTAAATGTAAT
Found at i:33413463 original size:59 final size:62
Alignment explanation
Indices: 33413384--33413554 Score: 153
Period size: 59 Copynumber: 2.9 Consensus size: 62
33413374 TTGTAAAATT
* * *
33413384 TCTA-GGGT-AAAAGTGCAATTTTAGAAAAATA-T-GGGGCCAAAATATAATTTTTAG-AAAT
1 TCTAGGGGTCAAAA-TGTAATTTTAGAAAAATACTAGGGGCCAAAATGTAATTTTTAGAAAAA
* * * * * ** *
33413442 TTTAGGGGTCTAAATGTAA-TTTA-TAAAATATTAGGGGTCAAGGTGTAA-ATTTAGAAAAA
1 TCTAGGGGTCAAAATGTAATTTTAGAAAAATACTAGGGGCCAAAATGTAATTTTTAGAAAAA
* *
33413501 TCTAGGGGTCAAAATGTAATTTTTGAAAAA-ACTAGGGGCTAAAATGTAATTTTT
1 TCTAGGGGTCAAAATGTAATTTTAGAAAAATACTAGGGGCCAAAATGTAATTTTT
33413555 TTAAAAAACG
Statistics
Matches: 85, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
57 6 0.07
58 13 0.15
59 39 0.46
60 20 0.24
61 7 0.08
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (62 bp):
TCTAGGGGTCAAAATGTAATTTTAGAAAAATACTAGGGGCCAAAATGTAATTTTTAGAAAAA
Found at i:33413475 original size:29 final size:29
Alignment explanation
Indices: 33413423--33413552 Score: 104
Period size: 30 Copynumber: 4.4 Consensus size: 29
33413413 TATGGGGCCA
* * *
33413423 AAATATAATTTTTAGAAATTTTAGGGGTCT
1 AAATGTAATTTATA-AAATATTAGGGGTCT
33413453 AAATGTAATTTATAAAATATTAGGGGTC-
1 AAATGTAATTTATAAAATATTAGGGGTCT
* * *
33413481 AAGGTGTAAATTTAGAAAA-ATCTAGGGGTCA
1 AA-ATGT-AATTTATAAAATAT-TAGGGGTCT
* * *
33413512 AAATGTAATTTTTGAAAAAACTAGGGG-CT
1 AAATGTAATTTAT-AAAATATTAGGGGTCT
33413541 AAAATGTAATTT
1 -AAATGTAATTT
33413553 TTTTAAAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.02
29 24 0.29
30 54 0.65
31 3 0.04
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTATAAAATATTAGGGGTCT
Found at i:33413555 original size:31 final size:30
Alignment explanation
Indices: 33413444--33413563 Score: 118
Period size: 30 Copynumber: 4.0 Consensus size: 30
33413434 TTAGAAATTT
* * * *
33413444 TAGGGGTCTAAATGTAATTTAT-AAAATAT
1 TAGGGGTCAAAATGTAATTTTTGAAAAAAC
** * * *
33413473 TAGGGGTCAAGGTGTAAATTTAGAAAAATC
1 TAGGGGTCAAAATGTAATTTTTGAAAAAAC
33413503 TAGGGGTCAAAATGTAATTTTTGAAAAAAC
1 TAGGGGTCAAAATGTAATTTTTGAAAAAAC
*
33413533 TAGGGG-CTAAAATGTAATTTTTTTAAAAAAC
1 TAGGGGTC-AAAATGTAA-TTTTTGAAAAAAC
33413564 GCAAATTCGT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
29 17 0.23
30 44 0.60
31 12 0.16
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.33
Consensus pattern (30 bp):
TAGGGGTCAAAATGTAATTTTTGAAAAAAC
Found at i:33413955 original size:90 final size:87
Alignment explanation
Indices: 33413859--33414493 Score: 466
Period size: 77 Copynumber: 7.9 Consensus size: 87
33413849 AAATAGAAAT
* * *
33413859 TTAAAAGAAATACATCGGCATGCG-CCTCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 TTAAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
33413923 TTTTAAAAAAATTTAAAAACAAAAA
66 TTTTAAAAAAA---AAAAACAAAAA
* *
33413948 TTCAAAAGAAATACCTCGGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATGTGAGTT-A-A
1 TT-AAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
33414010 TTTTT---GAAAAAAAACAGAAA
65 TTTTTAAAAAAAAAAAACAAAAA
33414030 TTAAAA-AAATACCTCAGG-ATGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 TTAAAAGAAATACCTC-GGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
33414091 TTTTT-------GAAAACAGAAA
65 TTTTTAAAAAAAAAAAACAAAAA
* * *
33414107 TT-TAACAAATACCTCAGG-ATGTGACC-AGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTAAAAGAAATACCTC-GGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
** * *
33414169 TTTTT---TGAAAAAAATAGAAA
65 TTTTTAAAAAAAAAAAACAAAAA
*
33414189 TT-GAA-AAATACCTCAGG-ATGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 TTAAAAGAAATACCTC-GGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* ** * *
33414248 CTTTT-----CGAAAAATAGAAA
65 TTTTTAAAAAAAAAAAACAAAAA
* * *
33414266 TT-AAA-AAATACCTCGGCGTGTG-TC-CGAGGCTCAACTCACATCTCGCAATATGAGTTGA-TT
1 TTAAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
33414326 TTTT------GAAAAACAGAAAT
66 TTTTAAAAAAAAAAAACA-AAAA
*
33414343 TTAAAAGAAATACCTCGGCATTTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 TTAAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
33414405 TTTT-----GAAAAAATAGAAA
66 TTTTAAAAAAAAAAAACAAAAA
* * * * *
33414422 TTTAAA-AAATACCTCAGCGTGTG-CCT-GAGGCTCAACTCACTTCTCGCATTATGAGTTGATTT
1 TTAAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
33414484 TATTAAAAAA
66 TTTTAAAAAA
33414494 GCAGAAATTG
Statistics
Matches: 477, Mismatches: 43, Indels: 57
0.83 0.07 0.10
Matches are distributed among these distances:
76 45 0.09
77 134 0.28
78 23 0.05
79 35 0.07
80 87 0.18
81 65 0.14
82 25 0.05
85 3 0.01
88 5 0.01
89 3 0.01
90 49 0.10
91 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (87 bp):
TTAAAAGAAATACCTCGGCATGTGACCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTAAAAAAAAAAAACAAAAA
Found at i:33414138 original size:77 final size:78
Alignment explanation
Indices: 33413937--33414507 Score: 696
Period size: 77 Copynumber: 7.2 Consensus size: 78
33413927 AAAAAAATTT
* * *
33413937 AAAAACAAAAATTCAAAAGAAATACCTC-GGCATGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 AAAAACAGAAATT-TAAA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* *
33414001 GTGAGTT-AATTTTTG
63 ATGAGTTGATTTTTTG
*
33414016 AAAAAAAACAGAAATTAAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 ---AAAAACAGAAATTTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
33414081 ATGAGTTGATTTTTTG
63 ATGAGTTGATTTTTTG
* *
33414097 -AAAACAGAAATTTAACAAATACCTCAGGATGTGACCAGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
33414161 AGTTGATTTTTTTTG
66 AGTTGA--TTTTTTG
* *
33414176 AAAAAAATAGAAA-TTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 --AAAAACAGAAATTTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* *
33414240 TGAGTTGACTTTTCG
64 TGAGTTGATTTTTTG
* * * *
33414255 AAAAATAGAAA-TTAAAAAATACCTC-GGCGTGTG-TCCGAGGCTCAACTCACATCTCGCAATAT
1 AAAAACAGAAATTTAAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
33414317 GAGTTGATTTTTTG
65 GAGTTGATTTTTTG
*
33414331 AAAAACAGAAATTTAAAAGAAATACCTC-GGCATTTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 AAAAACAGAAATTT-AAA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
33414395 ATGAGTTGA-TTTTTG
63 ATGAGTTGATTTTTTG
* * * *
33414410 AAAAAATAGAAATTTAAAAAATACCTCAGCG-TGTG-CCTGAGGCTCAACTCACTTCTCGCATTA
1 -AAAAACAGAAATTTAAAAAATACCTCAG-GATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
33414473 TGAGTTGATTTTATTA
64 TGAGTTGATTTT-TTG
*
33414489 AAAAAGCAGAAATTGAAAA
1 AAAAA-CAGAAATTTAAAA
33414508 CTATTTCTTG
Statistics
Matches: 439, Mismatches: 32, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
76 51 0.12
77 130 0.30
78 23 0.05
79 50 0.11
80 95 0.22
81 69 0.16
82 21 0.05
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (78 bp):
AAAAACAGAAATTTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTG
Found at i:33414393 original size:314 final size:315
Alignment explanation
Indices: 33413725--33414507 Score: 923
Period size: 314 Copynumber: 2.4 Consensus size: 315
33413715 CTCAACGTGC
* * ** **
33413725 GACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTTTTTTTTTGAAAAACAGAAATTGGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTTGAAAAACAGAAATTTAAAAA
* * * *
33413790 TACCTCGATGTGTGACCCGATGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTT-AAAAAA
65 TACCTC-AGGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAA
* *
33413852 TAGAAATTTAAAAGAAATACATCGGCATGCGCCTCGAGGCTCAACTCATCTCTCGCAATATGAGT
129 TAGAAA-TT-GAA-AAATACATCGGCATGCGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
33413917 TGATTTTTTTAAAAAAATTTAAAAACAAAAATTCAAAAGAAATACCTCGGCATGTGACCTGAGGC
191 TGA-TCTTTTAAAAAAA-TT----A-AAAAATT-AAAAGAAATACCTCGGCATGTGACCTGAGGC
* *
33413982 TCAACTCACCTCTCGCAATGTGAGTTAATTTTTGAAAAAAAACAGAAATTAAAAAAATACCTCAG
248 TCAACTCACATCTCGCAATATGAGTTAATTTTTG--AAAAAACAGAAATTAAAAAAATACCTCAG
33414047 GATGT
311 GATGT
33414052 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTTAACAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAA-AAA
33414116 TACCTCAGGATGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAA
65 TACCTCAGG-TGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-AAAAA
* *
33414181 AATAGAAATTGAAAAATACCTCAGG-ATGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAG
127 AATAGAAATTGAAAAATACATC-GGCATGCG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAG
** * * *
33414244 TTGA-CTTTTCGAAAAA-T-AGAAATT-AAA-AAATACCTCGGCGTGTGTCC-GAGGCTCAACTC
190 TTGATCTTTTAAAAAAATTAAAAAATTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTC
* *
33414303 ACATCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAGAAATACCTC-GGCATTT
255 ACATCTCGCAATATGAGTT-AATTTTTGAAAAAACAGAAA-TTAAAA-AAATACCTCAGG-ATGT
*
33414366 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAATAGAAATTTAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTT-AAAA
* * * *
33414430 ATACCTCAGCGTGTG-CCTGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTATTAAAAAA
64 ATACCTCAG-GTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAA
**
33414494 GCAGAAATTGAAAA
128 ATAGAAATTGAAAA
33414508 CTATTTCTTG
Statistics
Matches: 408, Mismatches: 31, Indels: 49
0.84 0.06 0.10
Matches are distributed among these distances:
312 29 0.07
313 20 0.05
314 112 0.27
315 52 0.13
316 6 0.01
318 6 0.01
324 1 0.00
325 15 0.04
326 65 0.16
327 32 0.08
328 45 0.11
329 11 0.03
330 2 0.00
331 12 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (315 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAT
ACCTCAGGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAATA
GAAATTGAAAAATACATCGGCATGCGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATC
TTTTAAAAAAATTAAAAAATTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACATCT
CGCAATATGAGTTAATTTTTGAAAAAACAGAAATTAAAAAAATACCTCAGGATGT
Found at i:33414456 original size:157 final size:157
Alignment explanation
Indices: 33413956--33414507 Score: 757
Period size: 157 Copynumber: 3.5 Consensus size: 157
33413946 AATTCAAAAG
* * * *
33413956 AAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATGTGAGTT-AATTTTTGAAAA
1 AAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AA
33414020 AAAACAGAAATTAAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
64 AAAACAGAAATTAAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
33414085 GTTGATTTTTTG-AAAACAGAAATTTAAC
129 GTTGACTTTTTGAAAAATAGAAATTTAAA
*
33414113 AAATACCTCAG-GATGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAATACCTCAGCG-TGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG-
* *
33414177 AAAAAATAGAAATT-GAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
62 AAAAAACAGAAATTAAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
33414241 GAGTTGACTTTTCGAAAAATAGAAA-TTAAA
127 GAGTTGACTTTTTGAAAAATAGAAATTTAAA
* * *
33414271 AAATACCTCGGCGTGTGTCC-GAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTG-AAA
1 AAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
*
33414334 AACAGAAATTTAAAAGAAATACCTC-GGCATTTGACCCGAGGCTCAACTCACCTCTCGCAATATG
66 AACAGAAA-TTAAAA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
33414398 AGTTGA-TTTTTGAAAAAATAGAAATTTAAA
128 AGTTGACTTTTTG-AAAAATAGAAATTTAAA
* *
33414428 AAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTATT-AAA
1 AAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAA
*
33414491 AAAGCAGAAATTGAAAA
65 AAA-CAGAAATTAAAAA
33414508 CTATTTCTTG
Statistics
Matches: 357, Mismatches: 22, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
153 10 0.03
154 2 0.01
155 16 0.04
156 63 0.18
157 136 0.38
158 94 0.26
159 30 0.08
160 6 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (157 bp):
AAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
AACAGAAATTAAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGACTTTTTGAAAAATAGAAATTTAAA
Found at i:33415374 original size:1 final size:1
Alignment explanation
Indices: 33415364--33415434 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
33415354 TTCATCTTGA
* * * * * * * * * *
33415364 TTTTTCTTTTTCTTTTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTGTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
33415429 TTTTTT
1 TTTTTT
33415435 AGGCATAATA
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:33415375 original size:6 final size:6
Alignment explanation
Indices: 33415376--33415431 Score: 98
Period size: 6 Copynumber: 9.7 Consensus size: 6
33415366 TTTCTTTTTC
33415376 TTTT-T TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG- TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
33415422 TTTTGT TTTT
1 TTTTGT TTTT
33415432 TTTAGGCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 9 0.18
6 40 0.82
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:33415403 original size:18 final size:18
Alignment explanation
Indices: 33415376--33415431 Score: 98
Period size: 17 Copynumber: 3.2 Consensus size: 18
33415366 TTTCTTTTTC
33415376 TTTT-TTTTTGTTTTTGT
1 TTTTGTTTTTGTTTTTGT
33415393 TTTTGTTTTTGTTTTTGT
1 TTTTGTTTTTGTTTTTGT
33415411 TTTTG-TTTTGTTTTTGT
1 TTTTGTTTTTGTTTTTGT
33415428 TTTT
1 TTTT
33415432 TTTAGGCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 20 0.53
18 18 0.47
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (18 bp):
TTTTGTTTTTGTTTTTGT
Found at i:33415432 original size:18 final size:17
Alignment explanation
Indices: 33415365--33415431 Score: 100
Period size: 18 Copynumber: 3.9 Consensus size: 17
33415355 TCATCTTGAT
* *
33415365 TTTTCTTTTTCTTTTT-
1 TTTTGTTTTTGTTTTTG
33415381 TTTTGTTTTTGTTTTTG
1 TTTTGTTTTTGTTTTTG
33415398 TTTTTGTTTTTGTTTTTG
1 -TTTTGTTTTTGTTTTTG
33415416 TTTTGTTTTTGTTTTT
1 TTTTGTTTTTGTTTTT
33415432 TTTAGGCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
16 14 0.30
17 16 0.34
18 17 0.36
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (17 bp):
TTTTGTTTTTGTTTTTG
Found at i:33416035 original size:30 final size:30
Alignment explanation
Indices: 33415975--33416116 Score: 107
Period size: 30 Copynumber: 4.8 Consensus size: 30
33415965 AAAAGTGCAA
* *
33415975 TTTTAGAAAAA-TATGGGGCCAAAATATAAT
1 TTTTAGAAAAATTA-GGGGTCTAAATATAAT
* *
33416005 TTTTAGAAATATTAGGGGTCTAAATGTAAT
1 TTTTAGAAAAATTAGGGGTCTAAATATAAT
* * *
33416035 TTATA-AAATATTAGGGGTC-AAGATGTAA-
1 TTTTAGAAAAATTAGGGGTCTAA-ATATAAT
* *
33416063 ATTTAGAAAAACTTAAGGGT-TAAAATATAAT
1 TTTTAGAAAAA-TTAGGGGTCT-AAATATAAT
* *
33416094 TTTT-GAAAAATTTGGGGGCTAAA
1 TTTTAGAAAAATTAGGGGTCTAAA
33416117 ATGCATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
28 5 0.06
29 32 0.36
30 46 0.51
31 7 0.08
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (30 bp):
TTTTAGAAAAATTAGGGGTCTAAATATAAT
Found at i:33420218 original size:14 final size:14
Alignment explanation
Indices: 33420199--33420225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33420189 TTTTACTTCT
33420199 TAAAAATTCAAAAA
1 TAAAAATTCAAAAA
33420213 TAAAAATTCAAAA
1 TAAAAATTCAAAA
33420226 TATTTAAAAG
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATTCAAAAA
Found at i:33425883 original size:40 final size:40
Alignment explanation
Indices: 33425809--33425929 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 40
33425799 AAACTGTTCA
33425809 TGCCACGTCAGCAAATCGCGTCCTAGA-G-GG-CGCGATTTCC
1 TGCCACGTCAGCAAATCGCG--CT-GACGTGGACGCGATTTCC
* *
33425849 TTCCACGTCAGCAAATCGCGCTGACGTGGACGCGATGTCC
1 TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCC
* * *
33425889 TGACACGT-ACCCTGACATCGCGCTGACGTGGACGCGATTTC
1 TGCCACGTCA-GC--AAATCGCGCTGACGTGGACGCGATTTC
33425930 GCGGAAAACG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 3 0.04
40 35 0.51
42 25 0.37
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (40 bp):
TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCC
Found at i:33425992 original size:29 final size:29
Alignment explanation
Indices: 33425934--33426000 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
33425924 GATTTCGCGG
33425934 AAAACGGCCCATTCCGATAAATAATAAAA
1 AAAACGGCCCATTCCGATAAATAATAAAA
* *
33425963 AAAATCGGCCCATTTCGGTAAATTAA-AAAA
1 AAAA-CGGCCCATTCCGATAAA-TAATAAAA
33425993 AAAACGGC
1 AAAACGGC
33426001 TTTTATTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 23 0.68
31 3 0.09
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.18
Consensus pattern (29 bp):
AAAACGGCCCATTCCGATAAATAATAAAA
Found at i:33426847 original size:21 final size:21
Alignment explanation
Indices: 33426823--33426865 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33426813 TCAGCTCTCT
33426823 GGCCATCTTCCAT-CAAACATG
1 GGCC-TCTTCCATCCAAACATG
* *
33426844 GGCCTTTTCCTTCCAAACATG
1 GGCCTCTTCCATCCAAACATG
33426865 G
1 G
33426866 AGGAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (21 bp):
GGCCTCTTCCATCCAAACATG
Found at i:33437592 original size:12 final size:11
Alignment explanation
Indices: 33437563--33437641 Score: 64
Period size: 12 Copynumber: 7.5 Consensus size: 11
33437553 ATTTTAAAAA
*
33437563 TTAAAAAAATT
1 TTAAAAATATT
*
33437574 TAAAAAAAGTATT
1 T-TAAAAA-TATT
33437587 TTAAAAATATT
1 TTAAAAATATT
33437598 TT--AAA-A--
1 TTAAAAATATT
33437604 TTAAAAATA--
1 TTAAAAATATT
33437613 TTAAAAATATTT
1 TTAAAAATA-TT
33437625 TTAAAAATATT
1 TTAAAAATATT
33437636 TTAAAA
1 TTAAAA
33437642 TTAAAAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 13 0.23
11 15 0.26
12 19 0.33
13 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:33437628 original size:38 final size:40
Alignment explanation
Indices: 33437552--33437653 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 40
33437542 GGCCCATTTT
33437552 TATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAA-TTAAAAAAAGTATTTTAAAAA
* *
33437594 TATTTTAAAATTAAAAATATTAAAAATA-T-TTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
33437632 TATTTTAAAATTAAAAAAATTA
1 TATTTTAAAATTAAAAAAATTA
33437654 GGCCGGGCTG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 30 0.53
39 1 0.02
40 8 0.14
41 12 0.21
42 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:33438948 original size:28 final size:28
Alignment explanation
Indices: 33438917--33438973 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33438907 GAAATCATTG
* * *
33438917 ATTTTGATGATACTATTAAGGGATAAAA
1 ATTTGGATGACACTATTAAGGCATAAAA
*
33438945 ATTTGGTTGACACTATTAAGGCATAAAA
1 ATTTGGATGACACTATTAAGGCATAAAA
33438973 A
1 A
33438974 AAATTCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (28 bp):
ATTTGGATGACACTATTAAGGCATAAAA
Found at i:33450483 original size:12 final size:12
Alignment explanation
Indices: 33450466--33450505 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
33450456 AGAAAGAGAA
33450466 AGAAAATTAAAG
1 AGAAAATTAAAG
*
33450478 AGAAAA--GAA-
1 AGAAAATTAAAG
33450487 AGAAAATTAAAG
1 AGAAAATTAAAG
33450499 AGAAAAT
1 AGAAAAT
33450506 AGGAAAGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.26
10 2 0.09
11 2 0.09
12 13 0.57
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (12 bp):
AGAAAATTAAAG
Found at i:33450487 original size:21 final size:21
Alignment explanation
Indices: 33450456--33450504 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
33450446 AAGGAAAGAA
33450456 AGAAAGAGAAAGAAAATTAAAG
1 AGAAA-AGAAAGAAAATTAAAG
33450478 AGAAAAGAAAGAAAATTAAAG
1 AGAAAAGAAAGAAAATTAAAG
33450499 AGAAAA
1 AGAAAA
33450505 TAGGAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.08
Consensus pattern (21 bp):
AGAAAAGAAAGAAAATTAAAG
Found at i:33450896 original size:27 final size:27
Alignment explanation
Indices: 33450865--33450918 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
33450855 TAAATAAATA
*
33450865 TATTTTTTAATTTTAAAATACTTTTTT
1 TATTTTTTAATTTTAAAATAATTTTTT
*
33450892 TATTTTTTATTTTTAAAATAATTTTTT
1 TATTTTTTAATTTTAAAATAATTTTTT
33450919 GGTGTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TATTTTTTAATTTTAAAATAATTTTTT
Found at i:33450926 original size:26 final size:27
Alignment explanation
Indices: 33450870--33450929 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
33450860 AAATATATTT
* * * *
33450870 TTTAATTTTAAAATACTTTTTTTATTT
1 TTTATTTTTAAAATACATTTTTTAGTG
*
33450897 TTTATTTTTAAAATA-ATTTTTTGGTG
1 TTTATTTTTAAAATACATTTTTTAGTG
33450923 TTTATTT
1 TTTATTT
33450930 AAAAAATGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTATTTTTAAAATACATTTTTTAGTG
Found at i:33452425 original size:18 final size:17
Alignment explanation
Indices: 33452398--33452431 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33452388 ATAGTAGTTC
*
33452398 ACAAAATAACTCCCCCA
1 ACAAAATAACACCCCCA
33452415 ACAACAATAACACCCCC
1 ACAA-AATAACACCCCC
33452432 CACTTAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.44, G:0.00, T:0.09
Consensus pattern (17 bp):
ACAAAATAACACCCCCA
Done.