Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 137 of 167
Found at i:45871071 original size:30 final size:30
Alignment explanation
Indices: 45871035--45871094 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
45871025 AATGCTTATG
45871035 TTATTTTGTCATTGAATTGCCATGAATGCT
1 TTATTTTGTCATTGAATTGCCATGAATGCT
45871065 TTATTTTGTCATTGAATTGCCATGAATGCT
1 TTATTTTGTCATTGAATTGCCATGAATGCT
45871095 GAATGATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (30 bp):
TTATTTTGTCATTGAATTGCCATGAATGCT
Found at i:45871282 original size:43 final size:43
Alignment explanation
Indices: 45871205--45871327 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
45871195 ATTGGGATGT
* * * *
45871205 GATTACATGTAAGACCCTATATGGGACAGTGACATTG-TATTAC
1 GATTACGTGTAAGACCCTGTATGGGACAGTGACATCGTTAAT-C
*
45871248 GATTACGTGTAAGACCATGTATGGGACA-TCGACATCGTTAATC
1 GATTACGTGTAAGACCCTGTATGGGACAGT-GACATCGTTAATC
* * *
45871291 GAATT-CGTGTAAGACCCTGTGTGGGATAGTGGCATCG
1 G-ATTACGTGTAAGACCCTGTATGGGACAGTGACATCG
45871328 ATACGTGTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 59 0.88
44 7 0.10
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
GATTACGTGTAAGACCCTGTATGGGACAGTGACATCGTTAATC
Found at i:45874348 original size:40 final size:41
Alignment explanation
Indices: 45874288--45874508 Score: 271
Period size: 40 Copynumber: 5.6 Consensus size: 41
45874278 TATTCGAATG
*
45874288 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
45874328 ATATCCGGACTAAGAT-CCGAAGGCATTTGTTCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
45874368 ATATCCGGGCTAAGA-CCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
45874408 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
45874448 ATATCCGGGCTAAGA-CTCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
45874488 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
45874509 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 137 0.88
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45874776 original size:22 final size:22
Alignment explanation
Indices: 45874736--45874777 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45874726 GAATGTGCAT
*
45874736 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
45874758 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
45874778 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:45876565 original size:27 final size:28
Alignment explanation
Indices: 45876535--45876587 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
45876525 TATTTTATTT
45876535 ATATTAGGA-TAATTAATATTAAGATAA
1 ATATTAGGATTAATTAATATTAAGATAA
* *
45876562 ATATTAGGATTATTTAATTTTAAGAT
1 ATATTAGGATTAATTAATATTAAGAT
45876588 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTAGGATTAATTAATATTAAGATAA
Found at i:45876593 original size:27 final size:26
Alignment explanation
Indices: 45876531--45876593 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
45876521 ATTTTATTTT
45876531 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
** * *
45876558 ATAAATATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
45876586 ATTTTATT
1 ATTTTATT
45876594 TTAATTATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:45876608 original size:10 final size:10
Alignment explanation
Indices: 45876589--45876620 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
45876579 TTTTAAGATT
45876589 TTAT-TTTAA
1 TTATCTTTAA
45876598 TTATCTTTAA
1 TTATCTTTAA
45876608 TTATCTTTAA
1 TTATCTTTAA
45876618 TTA
1 TTA
45876621 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:45880324 original size:7 final size:7
Alignment explanation
Indices: 45880308--45880387 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
45880298 CCAATCTTTC
45880308 TTTTTA-
1 TTTTTAT
45880314 TTTTTA-
1 TTTTTAT
45880320 TTTTTAT
1 TTTTTAT
45880327 TTTTT-T
1 TTTTTAT
45880333 TTTCCTT-T
1 TTT--TTAT
45880341 CTTTTTAT
1 -TTTTTAT
*
45880349 TTATTAT
1 TTTTTAT
*
45880356 TTATTAT
1 TTTTTAT
*
45880363 TTATTAT
1 TTTTTAT
45880370 TTTATT-T
1 TTT-TTAT
45880377 TATTTTAT
1 T-TTTTAT
45880385 TTT
1 TTT
45880388 AGTTAAATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 15
0.79 0.02 0.19
Matches are distributed among these distances:
6 16 0.25
7 35 0.55
8 10 0.16
9 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:45881541 original size:118 final size:118
Alignment explanation
Indices: 45881333--45881798 Score: 860
Period size: 118 Copynumber: 3.9 Consensus size: 118
45881323 GTTTTCCATT
* * * *
45881333 GTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAATCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
45881398 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
45881451 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
45881516 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
45881569 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
45881634 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
45881687 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
* ** *
45881752 TACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTA
45881799 ATCAGAAATA
Statistics
Matches: 340, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 340 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (118 bp):
GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
Found at i:45889486 original size:21 final size:21
Alignment explanation
Indices: 45889426--45889484 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
45889416 GTTAAGAAGA
45889426 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCGCCCTTC
45889447 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCGCCCTTC
*
45889468 CACACGGGCATGT-GCCC
1 CACACGGGCGTGTCGCCC
45889485 CTGTCTGCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.12, C:0.42, G:0.29, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTCGCCCTTC
Found at i:45889993 original size:153 final size:153
Alignment explanation
Indices: 45889715--45890944 Score: 1187
Period size: 153 Copynumber: 8.1 Consensus size: 153
45889705 GGGTGTTACA
* * *
45889715 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAG-AACTTATAGCTTAACTCGATCGATA
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATA
*
45889779 CATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATGTATTACCTCTTTT
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAAT-TATTACCTCTTTT
* *
45889843 ATTAAAAATATAAAACATCACCCAC
129 ATTAAAAATATAAACCATCACCGAC
* * * * * * * * *
45889868 AAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAACTATAGTTTAACTTGATCGATCC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
* **
45889933 ATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
*
45889998 TAAAAATATAAACCATTGA-CGAC
131 TAAAAATATAAACCA-TCACCGAC
* * * * * *
45890021 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAG-AACTTATAACTTAACTCGACCGAT
1 -AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGAT
* * * *
45890085 CCATGCATCTAGCTAATAAATATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTT
64 ACATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTT
* *
45890150 ATTAAAAAAATAAATCATCACCGAC
129 ATTAAAAATATAAACCATCACCGAC
* * * *
45890175 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
* * * ** * *
45890240 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* * *
45890305 TAAAAATATAAACCATCGCAGTC
131 TAAAAATATAAACCATCACCGAC
* ** * * *
45890328 AAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAATGTACAGCTTAACTCAATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
45890393 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* * *
45890458 TAAAAATATAAACCATCGTCGAGAA
131 TAAAAATATAAACCATC-AC-CGAC
* * * * ** * * *
45890483 AAAATCAAGACTAATATGCTGCTAAT-GGTCGTGTTTGAGAATTTAT-GTTTTAAATCGATCAAT
1 AAAATCAAGATTAATGTGCTGCTAATATG-CGTCTTTGAGAAACTATAG-CTTAACTCGATCGAT
* * * * * * * * *
45890546 TCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCTTTT
64 ACATGCAACTAGC-TAATAAATATA-GTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
* * * *
45890609 TTA-AAAAAATATAAACTATCGCCGTC
127 TTATTAAAAATATAAACCATCACCGAC
* * * *
45890635 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
45890700 ATGCAACTAGCTAATAAATATAGCT-GTTGGACTT-CCCTTAATCTC--------ACCTCTTTTA
66 ATGCAACTAGCTAATAAATATAG-TAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTA
*
45890755 TTAAAAATATAAACCATCCCCGAC
130 TTAAAAATATAAACCATCACCGAC
* * * * * * ** * * *
45890779 AAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAG-AACTTATAGTTTAACTCGATCCAT-
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATA
** * * ** * * * ** *
45890842 --TGTGACTACCTAATAAGTATA-TCTTTTGAACCACTCCACTTAATCTCAAATTACGACTTC-T
65 CATGCAACTAGCTAATAAATATAGT-AGTTGGA-C-TTCCCCTTAATCTCAAATTATTACCTCTT
* *
45890903 TTATTAAAAATATAAACTATCACCGGC
127 TTATTAAAAATATAAACCATCACCGAC
45890930 AAAATCAAGATTAAT
1 AAAATCAAGATTAAT
45890945 ATGCAACTAA
Statistics
Matches: 891, Mismatches: 153, Indels: 68
0.80 0.14 0.06
Matches are distributed among these distances:
139 1 0.00
141 21 0.02
142 1 0.00
143 12 0.01
144 75 0.08
151 46 0.05
152 81 0.09
153 391 0.44
154 158 0.18
155 105 0.12
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (153 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
TAAAAATATAAACCATCACCGAC
Found at i:45890270 original size:307 final size:304
Alignment explanation
Indices: 45889715--45890982 Score: 1314
Period size: 307 Copynumber: 4.2 Consensus size: 304
45889705 GGGTGTTACA
* * * *
45889715 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
*
45889780 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAT-TATTACCTCTTTTAT
* * * * * * * *
45889845 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAA
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * ** *
45889910 CTATAGTTTAACTTGATCGATCCATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
*
45889975 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGAC
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * * * *
45890021 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATC
1 -AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATT
* * *
45890086 CATGCATCTAGCTAATAAATATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * *
45890151 TTAAAAAAATAAATCATCACCGACAAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAA
129 TTAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAA
* * **
45890216 CCTATAGCTTAACTCGATCGATACATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTA
194 CCTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTA
* * *
45890281 ATCTTAAAGTATTACCTCTTTTATTAAAAATATAAACCATCGCAGTC
259 ATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGC-GAC
* * * * *
45890328 AAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAA-TGTACAGCTTAACTCAATCGATT
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACT-TATAACTTAACTCGATCGATT
45890392 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * * * * * *
45890457 TTAAAAATATAAACCATCGTCGAGAAAAAATCAAGACTAATATGCTGCTAAT-GGTCGTGTTTGA
129 TTAAAAATATAAACCATC-AC-CGACAAAATCAATATTAATGTGCTGCTAATATG-CGTCTTTGA
** * * * * ** * *
45890521 GAATTTAT-GTTTTAAATCGATCAATTCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTC
191 GAACCTATAG-TTTAACTCGATCGATACATGTAACTAGC-TAATAAATATA-GCAGTTGGACTTC
* * * * * *
45890583 CCCTTAATATGAAATTATTACCTTTTTTA-AAAAAATATAAACTATCGCCGTC
253 CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * *
45890635 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
45890700 ATGCAACTAGCTAATAAATATAGCT-GTTGGACTT-CCCTTAATCTC-------ACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAG-TAGTTGGACTTCCCCTTAATCTCAATTATTACCTCTTTTAT
* * * * * * ** *
45890756 TAAAAATATAAACCATCCCCGACAAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAGAAC
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * * * * * ** * * *
45890821 TTATAGTTTAACTCGATCCAT---TGTGACTACCTAATAAGTATATCTTTTGAACCACTCCACTT
195 CTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGA-C-TTCCCCTT
** * * * *
45890883 AATCTCAAATTACGACTTC-TTTATTAAAAATATAAACTATCACCGGC
258 AATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-GCGAC
* ** * * * *
45890930 AAAATCAAGATTAATATGCAACTAATATTCATCTTTAAAAACTTATAATTTAA
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAA
45890983 TTTAATAACG
Statistics
Matches: 812, Mismatches: 129, Indels: 52
0.82 0.13 0.05
Matches are distributed among these distances:
293 19 0.02
294 7 0.01
295 81 0.10
296 49 0.06
297 2 0.00
298 28 0.03
305 1 0.00
306 142 0.17
307 379 0.47
308 104 0.13
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (304 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAATTATTACCTCTTTTATT
AAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAACC
TATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAAT
CTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGCGAC
Found at i:45890660 original size:460 final size:459
Alignment explanation
Indices: 45889715--45890745 Score: 1309
Period size: 460 Copynumber: 2.2 Consensus size: 459
45889705 GGGTGTTACA
* * *
45889715 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * *
45889780 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTT-CCCTTAATCTCAAAGTATTACCTCTTTTAT
* * * * *
45889845 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAA
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCATTTGAGAAA
* * ** * **
45889910 CTATAGTTTAACTTGATCGATCCATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCAATCGATCCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
* * * *
45889975 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGACAAAAATCAAAATTAATGTA
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGAAAAAAATCAAAACTAATATA
* * * *
45890040 CTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATCCATGCATCTAGCTAATAAA
325 CTGCTAATATGCATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGCTAATAAA
* * * * *
45890105 TATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTTATTAAAAAAATAAATCATCA
390 TATAGCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAAATAAATCATCA
45890170 CCGAC
455 CCGAC
* * * *
45890175 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * * *
45890240 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCC-CTTAATCTCAAAGTATTACCTCTTTTAT
* * ** * * * *
45890305 TAAAAATATAAACCATCGCAGTCAAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAAT
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCATTTGAGAAA
* *
45890370 GTACAGCTTAACTCAATCGATTCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCAATCGATCCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
* *
45890435 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGTCGAGAAAAAATCAAGACTAATAT
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGA-AAAAAATCAAAACTAATAT
* * * * * * *** * * *
45890500 GCTGCTAAT-GGTCGTGTTTGAGAATTTATGTTTTAAATCGATCAATTCTTACAACTA-CTTAAT
324 ACTGCTAATATG-CATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGC-TAAT
*
45890563 AAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCT-TTTT-TAAAAAAATATAAA-
387 AAATATA-GCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAA-ATAAAT
* *
45890624 CTATCGCCGTC
450 C-ATCACCGAC
* * * *
45890635 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
*
45890700 ATGCAACTAGCTAATAAATATAGCTGTTGGACTTCCCTTAATCTCA
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCTTAATCTCA
45890746 CCTCTTTTAT
Statistics
Matches: 485, Mismatches: 79, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
459 18 0.04
460 373 0.77
461 94 0.19
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (459 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCTTAATCTCAAAGTATTACCTCTTTTATT
AAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCATTTGAGAAAC
TACAGCTTAACTCAATCGATCCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAAT
CTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGAAAAAAATCAAAACTAATATAC
TGCTAATATGCATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGCTAATAAAT
ATAGCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAAATAAATCATCAC
CGAC
Found at i:45895903 original size:132 final size:129
Alignment explanation
Indices: 45895642--45895905 Score: 406
Period size: 132 Copynumber: 2.0 Consensus size: 129
45895632 GTTATTGAAT
45895642 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATATAACACTTAC
1 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATATAACACTTAC
45895707 ATGTGATTTTTTTATCTAAGTATTTTTGTCATTTATACCTTAATTTATTATAACATTTACATGTG
66 ATGTGATTTTTTTATCTAAGTATTTTTG--ATTTATACCTTAATTTATTATAACATTTACATGTG
45895772 A
129 A
45895773 TCATTGAGTC-ACATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTT
1 TCATTGAGTCGA-ATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTA-TATAACACTT
** * * *
45895837 ATGTGTGATTTTTTTATCTGAACATTATTTTTG-TTTATACCTTAATTTCTTATAACATTTATAT
64 ACATGTGATTTTTTTATCT--A-AGTATTTTTGATTTATACCTTAATTTATTATAACATTTACAT
45895901 GTGA
126 GTGA
45895905 T
1 T
45895906 ATTTTTACCT
Statistics
Matches: 123, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
130 1 0.01
131 51 0.41
132 61 0.50
134 1 0.01
135 9 0.07
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (129 bp):
TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATATAACACTTAC
ATGTGATTTTTTTATCTAAGTATTTTTGATTTATACCTTAATTTATTATAACATTTACATGTGA
Found at i:45899290 original size:23 final size:23
Alignment explanation
Indices: 45899259--45899308 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
45899249 TCTAAACTCA
**
45899259 AAAACCTTAAACCTAAAAGTATT
1 AAAACCTTAAACCTAAAAACATT
*
45899282 AAAATCTTAAACCTAAAAACATT
1 AAAACCTTAAACCTAAAAACATT
45899305 AAAA
1 AAAA
45899309 ACCCTAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAACCTTAAACCTAAAAACATT
Found at i:45906830 original size:16 final size:16
Alignment explanation
Indices: 45906803--45906852 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
45906793 ACTGCCGGGT
45906803 CGGGCC-GGTTCAGGC
1 CGGGCCGGGTTCAGGC
45906818 CGGGCCGGGTTCAGGC
1 CGGGCCGGGTTCAGGC
*
45906834 CGGGGCGGGTTCAGGC
1 CGGGCCGGGTTCAGGC
45906850 CGG
1 CGG
45906853 TACGAGCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 6 0.18
16 27 0.82
ACGTcount: A:0.06, C:0.30, G:0.52, T:0.12
Consensus pattern (16 bp):
CGGGCCGGGTTCAGGC
Found at i:45907016 original size:12 final size:12
Alignment explanation
Indices: 45906999--45907033 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45906989 CTAACCCGTC
45906999 TATATTAATTTT
1 TATATTAATTTT
*
45907011 TATATTATTTTT
1 TATATTAATTTT
45907023 TATA-TAATTTT
1 TATATTAATTTT
45907034 AAAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:45907057 original size:18 final size:18
Alignment explanation
Indices: 45907034--45907071 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45907024 ATATAATTTT
*
45907034 AAAATA-TATAAACCATCA
1 AAAATACTA-AAAACATCA
45907052 AAAATACTAAAAACATCA
1 AAAATACTAAAAACATCA
45907070 AA
1 AA
45907072 TAAATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATACTAAAAACATCA
Found at i:45907213 original size:19 final size:21
Alignment explanation
Indices: 45907170--45907214 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
45907160 TTTCTAAAAT
**
45907170 AATAACAAAATTAACAAATCT
1 AATAACAAAATTAACAAATAA
45907191 AATAA-AAAATTAAC-AATAA
1 AATAACAAAATTAACAAATAA
45907210 AATAA
1 AATAA
45907215 GTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AATAACAAAATTAACAAATAA
Found at i:45907283 original size:11 final size:11
Alignment explanation
Indices: 45907243--45907282 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
45907233 ATAATAACAA
45907243 CAAAATAATAG
1 CAAAATAATAG
*
45907254 CAACATAATAG
1 CAAAATAATAG
* *
45907265 TAAAATAGTAG
1 CAAAATAATAG
45907276 CAAAATA
1 CAAAATA
45907283 GGGAGAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:45911396 original size:21 final size:19
Alignment explanation
Indices: 45911370--45911412 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
45911360 AGTGATTACG
*
45911370 TGTGTAAATTTAATATACATA
1 TGTGTAAA-TTAATA-AAATA
*
45911391 TGTGTATATTAATAAAATA
1 TGTGTAAATTAATAAAATA
45911410 TGT
1 TGT
45911413 TTACGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (19 bp):
TGTGTAAATTAATAAAATA
Found at i:45920824 original size:21 final size:20
Alignment explanation
Indices: 45920758--45920824 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
45920748 AGTCAACTCA
*
45920758 TATGAGTTTCAGATTAACCCT
1 TATGAGTTTC-GTTTAACCCT
* * *
45920779 TATGGGTTTCCGTTCAGCTCC-
1 TATGAGTTT-CGTTTAAC-CCT
45920800 TATGAGCTTTCGTTTAACCCT
1 TATGAG-TTTCGTTTAACCCT
45920821 TATG
1 TATG
45920825 GGTTCCCGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
20 2 0.06
21 27 0.77
22 6 0.17
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (20 bp):
TATGAGTTTCGTTTAACCCT
Found at i:45920834 original size:21 final size:20
Alignment explanation
Indices: 45920771--45920836 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
45920761 GAGTTTCAGA
45920771 TTAACCCTTATGGGTTTCCGT
1 TTAACCCTTATGGG-TTCCGT
* * * *
45920792 TCAGCTCC-TATGAGCTTTCGT
1 TTAAC-CCTTATG-GGTTCCGT
45920813 TTAACCCTTATGGGTTCCCGT
1 TTAACCCTTATGGGTT-CCGT
45920834 TTA
1 TTA
45920837 GCACTTATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
20 5 0.15
21 25 0.76
22 3 0.09
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (20 bp):
TTAACCCTTATGGGTTCCGT
Found at i:45924503 original size:28 final size:26
Alignment explanation
Indices: 45924442--45924534 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
45924432 TAAATTGTAC
45924442 AGCACTAAGTGTGCGAGTT-A-T-AT
1 AGCACTAAGTGTGCGAGTTGATTAAT
45924465 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGAG-TTGATTA-AT
*
45924493 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTA-AT
*
45924520 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45924535 GACTTAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
23 17 0.28
24 2 0.03
25 1 0.02
26 1 0.02
27 22 0.36
28 18 0.30
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTGATTAAT
Found at i:45924521 original size:27 final size:28
Alignment explanation
Indices: 45924459--45924531 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
45924449 AGTGTGCGAG
*
45924459 TTATATAGCACTAAGTGTGCGAGTTTGA
1 TTATATAGCACTAAGTGTACGAGTTTGA
*
45924487 TTACATAGCACTAAGTGTACGAG-TTGA
1 TTATATAGCACTAAGTGTACGAGTTTGA
*
45924514 TTATATAGCACTGAGTGT
1 TTATATAGCACTAAGTGT
45924532 GCGGACTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.49
28 21 0.51
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (28 bp):
TTATATAGCACTAAGTGTACGAGTTTGA
Found at i:45926122 original size:25 final size:25
Alignment explanation
Indices: 45926094--45926145 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
45926084 AAGATTAATT
*
45926094 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
45926119 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
45926144 TG
1 TG
45926146 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:45926800 original size:18 final size:18
Alignment explanation
Indices: 45926774--45926816 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
45926764 AAAAGTTATT
*
45926774 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
45926792 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
45926810 TTTATAT
1 TTTATAT
45926817 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:45926824 original size:13 final size:13
Alignment explanation
Indices: 45926806--45926850 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
45926796 TATATATTAA
45926806 TAAATTTATATTT
1 TAAATTTATATTT
45926819 TAAATTT-T-TTT
1 TAAATTTATATTT
45926830 AATAAATTTATATTT
1 --TAAATTTATATTT
45926845 TAAATT
1 TAAATT
45926851 GTTTTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
12 1 0.04
13 20 0.71
14 1 0.04
15 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTATATTT
Found at i:45926831 original size:26 final size:27
Alignment explanation
Indices: 45926802--45926866 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
45926792 TTTATATATA
45926802 TTAATAAATTTATATTTTAAATT-TTT
1 TTAATAAATTTATATTTTAAATTGTTT
45926828 TTAATAAATTTATATTTTAAATTGTTT
1 TTAATAAATTTATATTTTAAATTGTTT
*
45926855 TTACATATATTT
1 TTA-ATAAATTT
45926867 CAATGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 23 0.64
27 6 0.17
28 7 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
TTAATAAATTTATATTTTAAATTGTTT
Found at i:45931791 original size:23 final size:23
Alignment explanation
Indices: 45931760--45931849 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
45931750 GGCTTTGCCG
*
45931760 ATCAAGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCATAT
*
45931783 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATAT
* * * **
45931806 TTTAGGCACCTCGTGTGTCAT-T
1 ATCAGGCACTTTATGTGTCATAT
* *
45931828 -TTAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATAT
45931849 A
1 A
45931850 CTAATCATGT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 8 0.15
21 9 0.17
22 1 0.02
23 36 0.67
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCATAT
Found at i:45935904 original size:25 final size:25
Alignment explanation
Indices: 45935875--45935925 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45935865 AAGAATAATT
* *
45935875 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTAATATTGCCTAATAAA
* *
45935900 TGAATATCTAATATTGCTTAGTAAA
1 TGAATATCTAATATTGCCTAATAAA
45935925 T
1 T
45935926 ATCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (25 bp):
TGAATATCTAATATTGCCTAATAAA
Found at i:45936571 original size:10 final size:10
Alignment explanation
Indices: 45936556--45936583 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
45936546 ATATTACATG
45936556 TTTACTTTGT
1 TTTACTTTGT
45936566 TTTACTTTGT
1 TTTACTTTGT
45936576 TTTACTTT
1 TTTACTTT
45936584 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:45939667 original size:43 final size:43
Alignment explanation
Indices: 45939619--45939902 Score: 496
Period size: 43 Copynumber: 6.6 Consensus size: 43
45939609 CCGGTATTAC
* *
45939619 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
45939662 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
45939705 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
45939748 GACTGCTAGGCACGAAGGCCCGAATTCACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
45939791 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
45939834 GACTGCTAGGCACGAAGGCCCGAATTCACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
45939877 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
45939903 TAATACCAGC
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 227 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:45939943 original size:38 final size:38
Alignment explanation
Indices: 45939895--45940018 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
45939885 GGCACGAAGG
* * * *
45939895 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
45939933 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
45939971 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
45940010 GCCCGGATA
1 -CCCGGATA
45940019 CACATCAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 64 0.83
39 5 0.06
40 8 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:45946011 original size:51 final size:51
Alignment explanation
Indices: 45945947--45946180 Score: 188
Period size: 50 Copynumber: 4.6 Consensus size: 51
45945937 ATATTTTTTG
* * *
45945947 GGTGTTGGGGCATTGATGGCCGGCACCCTTGTACTAGATTTAAAAAAAAAA
1 GGTGTTGGGACACTGATGGCCGGCACCCTTGTACCAGATTTAAAAAAAAAA
* * * ** * * **
45945998 GGTGTTGGGGCATTGAT-GTCGGCACCCCAGCA-CAGGTTTAAAAAAAATT
1 GGTGTTGGGACACTGATGGCCGGCACCCTTGTACCAGATTTAAAAAAAAAA
* * *
45946047 GGTGTTGGGACACTGATGGCTGGCACCCCAT-TACCA-AATTAAAAAAAAAA
1 GGTGTTGGGACACTGATGGCCGGCA-CCCTTGTACCAGATTTAAAAAAAAAA
* * * * *
45946097 GGTGTTGGAACACTGATGGTCTGCACCATTGTACCAAATTTAAAAAAAAAATTA
1 GGTGTTGGGACACTGATGGCCGGCACCCTTGTACCAGATTT-AAAAAAAAA--A
* * *
45946151 GGGTGTTGAGACACTAATGGCCGACACCCT
1 -GGTGTTGGGACACTGATGGCCGGCACCCT
45946181 AATATCAAAT
Statistics
Matches: 141, Mismatches: 33, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
49 31 0.22
50 53 0.38
51 25 0.18
52 9 0.06
54 1 0.01
55 22 0.16
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (51 bp):
GGTGTTGGGACACTGATGGCCGGCACCCTTGTACCAGATTTAAAAAAAAAA
Found at i:45948554 original size:41 final size:42
Alignment explanation
Indices: 45948495--45948574 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 42
45948485 ATGTAGGGGA
45948495 CACACGGTCTAACAACATGCCCGTGTG-CAAGCCGTGTGTCT
1 CACACGGTCTAACAACATGCCCGTGTGACAAGCCGTGTGTCT
*
45948536 CACACGGTCTAATC-ACATGCCCGTGTGACATGCCGTGTG
1 CACACGGTCTAA-CAACATGCCCGTGTGACAAGCCGTGTG
45948575 GACTCAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 25 0.69
42 11 0.31
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (42 bp):
CACACGGTCTAACAACATGCCCGTGTGACAAGCCGTGTGTCT
Found at i:45949332 original size:6 final size:6
Alignment explanation
Indices: 45949321--45949369 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
45949311 AATACACCAC
* *
45949321 AACAGT AACAGT AACAGT AACAAT AACAGT AACAGT AACAGT AGCAGT
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
45949369 A
1 A
45949370 TCGGTACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:45951781 original size:30 final size:30
Alignment explanation
Indices: 45951745--45951807 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
45951735 ACTTAACAAT
45951745 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAACAAAATTAA
*
45951775 CAAATGTCTTTAAAATAATAACAAAGTTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
45951805 CAA
1 CAA
45951808 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:45960608 original size:49 final size:48
Alignment explanation
Indices: 45960538--45960635 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 48
45960528 AAATTTTATT
45960538 ATTGTGTATTTTTTAAAATTATATATAAAAATATAAAAAGATATAAAC
1 ATTGTGTATTTTTTAAAATTATATATAAAAATATAAAAAGATATAAAC
45960586 ATTGTGTATTTTTTTAAAATTATATATAAAAATATAAAAAGATATAAAC
1 ATTGTGTA-TTTTTTAAAATTATATATAAAAATATAAAAAGATATAAAC
45960635 A
1 A
45960636 CCTTTATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 8 0.16
49 41 0.84
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (48 bp):
ATTGTGTATTTTTTAAAATTATATATAAAAATATAAAAAGATATAAAC
Found at i:45975760 original size:26 final size:26
Alignment explanation
Indices: 45975731--45975838 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
45975721 TGGTACAAAT
45975731 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45975757 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45975783 TGATAATGGGTCAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45975809 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45975835 TGAT
1 TGAT
45975839 GGGCATTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45978841 original size:24 final size:23
Alignment explanation
Indices: 45978814--45978908 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 23
45978804 AAGCTTTCCA
45978814 ATATGGTTCATTATGAACTTCCTG
1 ATATGGTTC-TTATGAACTTCCTG
*
45978838 ATATGGTTCTTCGTGAACTT-CTCG
1 ATATGGTTCTT-ATGAACTTCCT-G
* * *
45978862 ATAAGGTTCTTTGTGAACTTCCAG
1 ATATGGTTC-TTATGAACTTCCTG
*
45978886 ATTATGGCTT-TTATGAGCTTCCT
1 A-TATGG-TTCTTATGAACTTCCT
45978909 ATTATATAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
23 4 0.07
24 45 0.78
25 7 0.12
26 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (23 bp):
ATATGGTTCTTATGAACTTCCTG
Found at i:45980902 original size:136 final size:136
Alignment explanation
Indices: 45980658--45980902 Score: 337
Period size: 136 Copynumber: 1.8 Consensus size: 136
45980648 ATACTCTCGA
*
45980658 ATAACTTATTTTAATTATGGAAAGACATTTTCATAATTTTCATAACCGAGTTGATGCCCGATTGA
1 ATAACTTATTTTAATTATGGAAAGACATTTTCATAATTTTCATAACCGAGTTGATACCCGATTGA
* *
45980723 TTCATGACACCAACTTGGTCAAAGGCTTAAATAATAGTATAGATGAAAAAACTAAAACACTCTCG
66 CTCATGACACCAACTTAGTCAAAGGCTTAAATAATAGTATAGATGAAAAAACTAAAACACTCTCG
45980788 AATAAT
131 AATAAT
* * * * * * * * *
45980794 ATAACTTATTTTAATTATGGGAATATATTTTCGTAATTTTCCTAATCGAGTTGGTACTCGGTTGA
1 ATAACTTATTTTAATTATGGAAAGACATTTTCATAATTTTCATAACCGAGTTGATACCCGATTGA
* * ***
45980859 CTCATGATACTAACTTAGTCTGGGGCTTAAATAATAGTATAGAT
66 CTCATGACACCAACTTAGTCAAAGGCTTAAATAATAGTATAGAT
45980903 ACACAAATAT
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
136 92 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (136 bp):
ATAACTTATTTTAATTATGGAAAGACATTTTCATAATTTTCATAACCGAGTTGATACCCGATTGA
CTCATGACACCAACTTAGTCAAAGGCTTAAATAATAGTATAGATGAAAAAACTAAAACACTCTCG
AATAAT
Found at i:45981658 original size:27 final size:25
Alignment explanation
Indices: 45981624--45981681 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
45981614 AAATATTTTC
* *
45981624 AAATATATAATTT-AAAAATATATAA
1 AAATAAATATTTTCAAAAA-ATATAA
45981649 AAATAAATATTTTCAAAAAATATAA
1 AAATAAATATTTTCAAAAAATATAA
*
45981674 TAATAAAT
1 AAATAAAT
45981682 TAAAATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AAATAAATATTTTCAAAAAATATAA
Found at i:45981843 original size:25 final size:26
Alignment explanation
Indices: 45981804--45981865 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
45981794 AGAGGGGATT
*
45981804 TTTAT-TTTATCTAATATTAAT-ATA
1 TTTATATTTATTTAATATTAATGATA
*
45981828 TTTATATTTATTTAATATTAATGTTA
1 TTTATATTTATTTAATATTAATGATA
*
45981854 TTTAAATTTATT
1 TTTATATTTATT
45981866 ATTATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.15
25 15 0.45
26 13 0.39
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTATATTTATTTAATATTAATGATA
Found at i:45981879 original size:20 final size:21
Alignment explanation
Indices: 45981857--45981919 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 21
45981847 AATGTTATTT
45981857 AAATTTATTATTATATTTTTA
1 AAATTTATTATTATATTTTTA
45981878 AAATATGTATTA-TATATTTTTA
1 AAAT-T-TATTATTATATTTTTA
45981900 AAATTTATATATTATTATTT
1 AAATTTAT-TATTA-TATTT
45981920 CTTGTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.08
21 7 0.19
22 17 0.46
23 10 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAATTTATTATTATATTTTTA
Found at i:45981982 original size:21 final size:21
Alignment explanation
Indices: 45981942--45981982 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45981932 TTTTTTAATT
*
45981942 TTATATATTTTAAATTTATTA
1 TTATATATTTTAAATATATTA
45981963 TTATATATTTTGAAA-ATATT
1 TTATATATTTT-AAATATATT
45981983 TATGTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATATTTTAAATATATTA
Found at i:45981985 original size:19 final size:20
Alignment explanation
Indices: 45981939--45982002 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
45981929 AGTTTTTTTA
*
45981939 ATTTTATATATTTTAAATTT
1 ATTTTATATATTTTAAATAT
45981959 ATTATTATATATTTTGAAA-AT
1 ATT-TTATATATTTT-AAATAT
* **
45981980 A-TTTATGTATTTTTTATAT
1 ATTTTATATATTTTAAATAT
45981999 ATTT
1 ATTT
45982003 CTTTGAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.36
20 6 0.17
21 13 0.36
22 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTATATATTTTAAATAT
Found at i:45983144 original size:82 final size:82
Alignment explanation
Indices: 45982985--45983144 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
45982975 TTTTTAAACA
* *
45982985 AAATTTTATATTTTTAGATACCGAGAATCAAAATCGATCAACTCTCAATTTCACCACCATCTAAA
1 AAATTTTATATTTTTAGATACCGAGAATCAAAATCGACCAACTATCAATTTCACCACCATCTAAA
45983050 TTTTGTATGAACAAAAT
66 TTTTGTATGAACAAAAT
* * *
45983067 AAATTTTATATTTTTAGATATCGAGAATCAAAAT-GGCCAGCTAT-AAGTTTCACCACCATCTAA
1 AAATTTTATATTTTTAGATACCGAGAATCAAAATCGACCAACTATCAA-TTTCACCACCATCTAA
45983130 ATTTTGTATAGAACA
65 ATTTTGTAT-GAACA
45983145 TTTTGTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 2 0.03
81 31 0.44
82 38 0.54
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (82 bp):
AAATTTTATATTTTTAGATACCGAGAATCAAAATCGACCAACTATCAATTTCACCACCATCTAAA
TTTTGTATGAACAAAAT
Found at i:45983160 original size:6 final size:7
Alignment explanation
Indices: 45983145--45983169 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45983135 GTATAGAACA
45983145 TTTTGTT
1 TTTTGTT
45983152 TTTTGTT
1 TTTTGTT
45983159 TTTTGTT
1 TTTTGTT
45983166 TTTT
1 TTTT
45983170 TTATCTTTTT
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:45983456 original size:16 final size:16
Alignment explanation
Indices: 45983435--45983465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45983425 TAACTTAATA
45983435 TTTATTAGTATAATTT
1 TTTATTAGTATAATTT
*
45983451 TTTATTAGTTTAATT
1 TTTATTAGTATAATT
45983466 AACTTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTAGTATAATTT
Found at i:45989691 original size:45 final size:45
Alignment explanation
Indices: 45989506--45989847 Score: 199
Period size: 45 Copynumber: 7.6 Consensus size: 45
45989496 TATCATCAGC
*
45989506 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCATAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * * * *** **
45989549 CTTATCTTCACTGAGTAGGAGTGAAGCAGATCGAATTTTGATGA-AT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAAACAT-ACCAGAT
* * * * * *
45989595 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCTAATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAG--GCTAAACATACCAGAT
45989639 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* ** **
45989684 CTTATCTTCACTGAGCAGGAGTGAAGCAGG-TCAAATTTTGGCA-AGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-CATACCAGA-T
* * * ** * * * *
45989730 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTTCAGC-CACCAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG-GCTAAACATACCAGAT
45989774 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
*
45989819 CTTATCTTCACTGAGCAGGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
45989848 ATCAAATTTT
Statistics
Matches: 222, Mismatches: 52, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
42 7 0.03
43 30 0.14
44 52 0.23
45 80 0.36
46 43 0.19
47 9 0.04
48 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
Found at i:45989737 original size:135 final size:134
Alignment explanation
Indices: 45989502--45989989 Score: 745
Period size: 135 Copynumber: 3.6 Consensus size: 134
45989492 CAGATATCAT
* *
45989502 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCATATCTTATCTTCACTGAGT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
* * * *
45989565 AGGAGTGAAGCAGATCGAATTTTGATG-AA-TCTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 AGGAGTGAAGCAGATCAAATTTTG--GCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATT-
* *
45989628 TAATCAT
128 TAACCAC
45989635 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
*
45989700 AGGAGTGAAGCAGGTCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTT-A
*
45989765 GCCAC
130 ACCAC
45989770 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
45989835 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGA-TTTA
*
45989900 GCCAC
130 ACCAC
* * **
45989905 CAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATA-CAGATCTTATCTTCGCTGATT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
45989969 AGGAGT-AGAGCAGATCAAATT
66 AGGAGTGA-AGCAGATCAAATT
45989990 ACAGCAGACC
Statistics
Matches: 333, Mismatches: 15, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
133 41 0.12
134 41 0.12
135 248 0.74
136 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (134 bp):
CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTAA
CCAC
Found at i:45991610 original size:14 final size:14
Alignment explanation
Indices: 45991593--45991625 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
45991583 TTTATTATAC
45991593 TTATTATATTTTAT
1 TTATTATATTTTAT
45991607 TTATTATATTTTAT
1 TTATTATATTTTAT
45991621 TTATT
1 TTATT
45991626 TTTTTCCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTATATTTTAT
Found at i:45991610 original size:23 final size:23
Alignment explanation
Indices: 45991583--45991627 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45991573 TTAAATATAG
45991583 TTTATTATA-CTTATTATATTTTA
1 TTTATTATATCTTATT-TATTTTA
*
45991606 TTTATTATATTTTATTTATTTT
1 TTTATTATATCTTATTTATTTT
45991628 TTTCCTACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATATCTTATTTATTTTA
Found at i:46004413 original size:38 final size:38
Alignment explanation
Indices: 46004362--46004438 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
46004352 TAAAACTAGG
46004362 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
*
46004400 TCCCTATACATGCCACTCACTTGATGTTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
46004438 T
1 T
46004439 AAATACTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.40
Consensus pattern (38 bp):
TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
Found at i:46005522 original size:50 final size:50
Alignment explanation
Indices: 46005440--46005780 Score: 349
Period size: 50 Copynumber: 6.8 Consensus size: 50
46005430 CGAAGCTCTT
* * * * * *
46005440 TGGTACGCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* ** *
46005490 TAGTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * ** * * *
46005540 TGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* * *
46005591 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAAC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * * ** * * *
46005641 TGGTACACGTAGTAGCCTGTACTTAATACTACACACATGATCGAAGCTATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* * * * *
46005692 GGGTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* *
46005742 TGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTG
46005781 TTCTCACAAT
Statistics
Matches: 232, Mismatches: 57, Indels: 4
0.79 0.19 0.01
Matches are distributed among these distances:
50 155 0.67
51 77 0.33
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
Found at i:46005623 original size:101 final size:101
Alignment explanation
Indices: 46005492--46005776 Score: 471
Period size: 101 Copynumber: 2.8 Consensus size: 101
46005482 TAATAATCTA
* ** * *
46005492 GTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
*
46005557 TGCACTTAGTACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
*
46005593 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
*
46005658 TGTACTTAATACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
* * *
46005694 GTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
46005759 TGTACTTAGTACTACACA
66 TGTACTTAGTACTACACA
46005777 TGTGTTCTCA
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 171 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
TGTACTTAGTACTACACACATGATCGAAGCTATCGG
Found at i:46005677 original size:151 final size:151
Alignment explanation
Indices: 46005441--46005780 Score: 403
Period size: 151 Copynumber: 2.3 Consensus size: 151
46005431 GAAGCTCTTT
* * * * * * *
46005441 GGTACGCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATCTAGTACGCGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
* * * * *
46005506 CTGCACTTAGTACTACACACATGACCTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
* * *
46005570 ACACACATGATCGAAGCTATCG
131 ACACACACGACCGAA-CAATCG
*
46005592 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
* * * * **
46005657 CTGTACTTAATACTACACACATGATCGAAGCTATCGGGTATGCATAGTAGCCCGCACTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
** * *
46005722 ACACATGCGACCTAACAATCT
131 ACACACACGACCGAACAATCG
* * *
46005743 GGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTG
46005781 TTCTCACAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
151 121 0.76
152 38 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACGTAGTAGC
CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
ACACACACGACCGAACAATCG
Found at i:46007797 original size:27 final size:27
Alignment explanation
Indices: 46007756--46007857 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
46007746 AACACGCTAG
46007756 GAAAGGAATGCCTTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
46007783 GAAAGGAATGACTTTGTGACAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
46007810 GGAAGGAATGCCTTTGTGGCAATATAC
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
46007837 GAAATGAATGCCTTCGTGGCA
1 GAAAGGAATGCCTTTGTGGCA
46007858 GACTCTGAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAATATAT
Found at i:46015258 original size:42 final size:41
Alignment explanation
Indices: 46015211--46015331 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 41
46015201 AATACTGGAT
* *
46015211 ATCTCATACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCACACACTAAGTGCC-ATACATAGCTGAAGCTATTATA
* * **
46015253 ATCTCACACACTAAGTTCCTTACATAGCTGAAGCTATCT-CG
1 ATCTCACACACTAAGTGCCATACATAGCTGAAGCTAT-TATA
* **
46015294 ATCTCGCACACTAAGTGCCATGTATAG-TCGAAGCTATT
1 ATCTCACACACTAAGTGCCATACATAGCT-GAAGCTATT
46015332 CCGAATCGCA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.03
41 46 0.70
42 18 0.27
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (41 bp):
ATCTCACACACTAAGTGCCATACATAGCTGAAGCTATTATA
Found at i:46015350 original size:40 final size:40
Alignment explanation
Indices: 46015259--46015399 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
46015249 TATAATCTCA
* * * * * *
46015259 CACACTAAGTTCCTTACATAGCTGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGA-ATCG
*
46015300 CACACTAAGTGCCATGTATAGTC-GAAGCTATTC-CGAATCG
1 CACACTAAGTGCCATATATAG-CGGAAGCT-TTCTCGAATCG
* *
46015340 CACACTAAGTGCCAAATATAGCGGAAGCTTTCTTGAATCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
46015380 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
46015400 TATCCGAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
39 4 0.05
40 53 0.62
41 26 0.30
42 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
Found at i:46018354 original size:34 final size:34
Alignment explanation
Indices: 46018316--46018384 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
46018306 TTCCAGACCA
* *
46018316 TTTAATGACGCGTCATTATAAATCACAAACTCTT
1 TTTAATGACGCATCACTATAAATCACAAACTCTT
* *
46018350 TTTAATGATGCATCACTATAGATCACAAACTCTT
1 TTTAATGACGCATCACTATAAATCACAAACTCTT
46018384 T
1 T
46018385 CCCCGATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (34 bp):
TTTAATGACGCATCACTATAAATCACAAACTCTT
Found at i:46021436 original size:43 final size:43
Alignment explanation
Indices: 46021387--46021508 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
46021377 AATTACCGAG
* *
46021387 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* *
46021429 ATTGTGATTACGTGTAAGACCATGTCTGAGACATGGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * *
46021473 ATATGATTTCGTGTAAGACCATGTTTGGGACATTGG
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGG
46021509 TATCCATATG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 66 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:46023359 original size:162 final size:162
Alignment explanation
Indices: 46023092--46023414 Score: 592
Period size: 162 Copynumber: 2.0 Consensus size: 162
46023082 GAATGAGGTG
* * *
46023092 TATAATCTGGTAATGCCTCGTAACTCTATTCCAGCGTCAGATACGGGTTAGGGGTGTTACATCTT
1 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
* * *
46023157 TCACGTTGCCAACACTAGATATCGATGTATCTTGAGCTTTAGGAATGGTGTATTGCTTTCCACGA
66 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
46023222 TCTCTATTCGAATATCCCGTTGAAGTGATCTC
131 TCTCTATTCGAATATCCCGTTGAAGTGATCTC
46023254 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
1 TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
46023319 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
66 TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
46023384 TCTCTATTCGAATATCCCGTTGAAGTGATCT
131 TCTCTATTCGAATATCCCGTTGAAGTGATCT
46023415 GCCGGTTAAA
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (162 bp):
TATAATCCGGTAATGCCTCGTAACTCTATTCCAGCATCAGATACGAGTTAGGGGTGTTACATCTT
TCACGTTGCCAACACTAGATACCGATGTATCATGAGCTTTAGGAATGGTATATTGCTTTCCACGA
TCTCTATTCGAATATCCCGTTGAAGTGATCTC
Found at i:46027625 original size:24 final size:25
Alignment explanation
Indices: 46027577--46027625 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
46027567 AGACTTGATT
*
46027577 AAATAATAACATTTTTATTACAAAA
1 AAATAATAACATTTTTAATACAAAA
*
46027602 AAATAATAACA-TTTTAATAGAAAA
1 AAATAATAACATTTTTAATACAAAA
46027626 TACAACTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAATAACATTTTTAATACAAAA
Found at i:46029426 original size:36 final size:35
Alignment explanation
Indices: 46029374--46029445 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 35
46029364 AGCTACTAGG
*
46029374 GAAATAGAAAGTTTAATGGAAGAGCAATATCCTTA
1 GAAAGAGAAAGTTTAATGGAAGAGCAATATCCTTA
46029409 NGAAAGAGAAAGTTTAATGGAAGAGCAATATCCTTA
1 -GAAAGAGAAAGTTTAATGGAAGAGCAATATCCTTA
46029445 G
1 G
46029446 CTATTCACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.24
Consensus pattern (35 bp):
GAAAGAGAAAGTTTAATGGAAGAGCAATATCCTTA
Found at i:46035345 original size:40 final size:40
Alignment explanation
Indices: 46035301--46035484 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
46035291 GCTCCTCGTT
* *
46035301 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
46035341 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
*
46035381 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * *
46035420 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
46035461 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46035485 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 5 0.04
39 43 0.36
40 64 0.53
41 8 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:46035403 original size:79 final size:82
Alignment explanation
Indices: 46035301--46035484 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
46035291 GCTCCTCGTT
* **
46035301 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
46035363 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
**
46035381 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
46035444 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
46035461 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46035485 CATCATTCAA
Statistics
Matches: 90, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
78 16 0.18
79 51 0.57
80 23 0.26
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:46039300 original size:52 final size:52
Alignment explanation
Indices: 46039229--46039331 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
46039219 CAGAACTCAC
46039229 ACTTACTGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTAG
1 ACTTACTGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTAG
46039281 ACTTACTGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTA
1 ACTTACTGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTA
46039332 ATCTCAGGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (52 bp):
ACTTACTGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTAG
Found at i:46046450 original size:10 final size:11
Alignment explanation
Indices: 46046421--46046453 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
46046411 CATGATTATG
46046421 CAATGATTCGA
1 CAATGATTCGA
*
46046432 CAGTGATTCGA
1 CAATGATTCGA
46046443 -AATGATTCGA
1 CAATGATTCGA
46046453 C
1 C
46046454 TTGATTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (11 bp):
CAATGATTCGA
Found at i:46046686 original size:47 final size:47
Alignment explanation
Indices: 46046568--46046698 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 47
46046558 GTGCGAGTTA
***
46046568 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGGAAAGGAGT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTCCGGGAAA-GAGT
* *
46046616 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATA-AGT
1 TACCTTGATTTGGCTA-CGGCCATGGTATAGGTACTCCGGGAAAGAGT
46046663 TACCTTGATTTGGCTACGTGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACG-GCCATGGTATAGGTACT
46046699 TATCGATTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.01
47 36 0.49
48 32 0.43
49 5 0.07
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCCGGGAAAGAGT
Found at i:46054048 original size:43 final size:44
Alignment explanation
Indices: 46054001--46054101 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
46053991 TACATGTAAT
* **
46054001 CATATATCGAAGTCAC-TATTCCA-GACAGGGTCTTACTTGCACA
1 CATATATCGAAATCACATA-TCCATGACAGGGTCTTACTCACACA
* * * *
46054044 CATATATCAAAATCACATATCGATGCCATGGTCTTACTCACACA
1 CATATATCGAAATCACATATCCATGACAGGGTCTTACTCACACA
*
46054088 CATATATCGGAATC
1 CATATATCGAAATC
46054102 CTATGTCATG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 17 0.36
44 30 0.64
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (44 bp):
CATATATCGAAATCACATATCCATGACAGGGTCTTACTCACACA
Found at i:46057252 original size:15 final size:16
Alignment explanation
Indices: 46057223--46057252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46057213 GTTTTGTGTT
46057223 TTCTTTATGTTTTCTA
1 TTCTTTATGTTTTCTA
46057239 TTCTTTAT-TTTTCT
1 TTCTTTATGTTTTCT
46057253 GAGATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (16 bp):
TTCTTTATGTTTTCTA
Found at i:46059871 original size:12 final size:12
Alignment explanation
Indices: 46059854--46059882 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46059844 TGGACGACGC
46059854 TCATCCTTATCA
1 TCATCCTTATCA
46059866 TCATCCTTATCA
1 TCATCCTTATCA
46059878 TCATC
1 TCATC
46059883 AGTATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (12 bp):
TCATCCTTATCA
Found at i:46071135 original size:17 final size:15
Alignment explanation
Indices: 46071105--46071138 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
46071095 CTCCCAGAGT
46071105 TAATAAAATAATAAA
1 TAATAAAATAATAAA
46071120 TAATAAAACTTAATAAA
1 TAATAAAA--TAATAAA
46071137 TA
1 TA
46071139 CAATATTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:46074969 original size:55 final size:54
Alignment explanation
Indices: 46074881--46075138 Score: 230
Period size: 55 Copynumber: 4.9 Consensus size: 54
46074871 CTTTAGGGTT
*
46074881 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTCTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAAGGTCTCTAAGG
* * * * * * *
46074936 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAAG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT-CTCTAAGG
* * *
46074991 CAAAGG-TCCCATGTAAGACCATGCCAATG-CATGGCATTAGTGA-GT-TCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGGTAAGGTCTC-TAAGG
* * * *
46075044 CAAGGCTACCATGTAAGACCACT-TCAAGACATGGCAATGGTAA-GTTTC-AA--
1 CAAGGATACCATGTAAGACCA-TGCCAAGACATGGCATTGGTAAGGTCTCTAAGG
* * *
46075094 -AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
46075139 ACCCGTGTAT
Statistics
Matches: 167, Mismatches: 26, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
48 1 0.01
49 37 0.22
50 2 0.01
52 8 0.05
53 35 0.21
54 12 0.07
55 67 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGG
Found at i:46075088 original size:108 final size:110
Alignment explanation
Indices: 46074889--46075089 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
46074879 TTCAAGGATA
* *
46074889 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTAGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
*
46074954 CCATGTCAAGACATGGCATTGATAAGTTACTATAAAGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAAGCAAAGGTC
* * **
46074999 CCATGTAAGACCATGCCAATGCATGGCA-TTAGTGA-GT-TCATAAGGCAAGGCTACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTAGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
46075061 ACCACT-TCAAGACATGGCAATGGTAAGTT
65 ACCA-TGTCAAGACATGGCAATGATAAGTT
46075090 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 2 0.02
108 46 0.57
109 6 0.07
110 27 0.33
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAGTTAGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAAGCAAAGGTC
Found at i:46075348 original size:16 final size:16
Alignment explanation
Indices: 46075327--46075357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46075317 ATAAATTTGA
46075327 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
46075343 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
46075358 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:46079177 original size:21 final size:20
Alignment explanation
Indices: 46079149--46079188 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46079139 CAAAACTTGT
46079149 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
46079169 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
46079189 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:46082998 original size:22 final size:21
Alignment explanation
Indices: 46082970--46083010 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
46082960 GGGGTTCAAC
46082970 ACTTTAACCACAAACTGAGTAG
1 ACTTTAACCACAAA-TGAGTAG
*
46082992 ACTTTAACCATAAATGAGT
1 ACTTTAACCACAAATGAGT
46083011 CAACTCAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (21 bp):
ACTTTAACCACAAATGAGTAG
Found at i:46086792 original size:19 final size:20
Alignment explanation
Indices: 46086757--46086795 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
46086747 GTTGCAAATC
46086757 ATATATGATGTAAATGAAAA
1 ATATATGATGTAAATGAAAA
*
46086777 ATATATG-TGTATATGAAAA
1 ATATATGATGTAAATGAAAA
46086796 GTGCATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
ATATATGATGTAAATGAAAA
Found at i:46088825 original size:27 final size:27
Alignment explanation
Indices: 46088787--46088839 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
46088777 TCAAGCGATT
46088787 GATCCGTTGAGATTACATAATCCCCCA
1 GATCCGTTGAGATTACATAATCCCCCA
46088814 GATCCGTTGAGATTACATAATCCCCC
1 GATCCGTTGAGATTACATAATCCCCC
46088840 TGTTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
GATCCGTTGAGATTACATAATCCCCCA
Found at i:46093561 original size:14 final size:15
Alignment explanation
Indices: 46093524--46093565 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
46093514 AAATACGAAC
46093524 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
46093540 TATA-ATGTGATA-G
1 TATATATGTGAAATG
46093553 TATATATGTGAAA
1 TATATATGTGAAA
46093566 GCCAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:46095311 original size:27 final size:26
Alignment explanation
Indices: 46095263--46095314 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46095253 GCGAGGCTGC
*
46095263 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
46095289 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
46095315 TTGTAGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46110394 original size:45 final size:45
Alignment explanation
Indices: 46110294--46110420 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
46110284 TTTTCTCAAA
* *
46110294 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
46110336 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* * * *
46110380 CTCACCGGCATTATAGCTTGCTAAGCTCAAAGACCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
46110421 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:46110800 original size:43 final size:42
Alignment explanation
Indices: 46110737--46110860 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 42
46110727 ACATATCATT
* *
46110737 TCACCGGCATTAGCCTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCATAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
46110779 TCACCGGCATGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCAT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
46110822 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCA-TAAGCCTGCTAGGCACGAAGGCCCGAATA
46110861 TAATACCAGC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
42 10 0.13
43 65 0.86
44 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (42 bp):
TCACCGGCATAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:46110905 original size:38 final size:38
Alignment explanation
Indices: 46110853--46110936 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
46110843 GGCACGAAGG
* * *
46110853 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
46110891 CCTGAATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
46110929 CCCGAATA
1 CCCGAATA
46110937 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:46119884 original size:29 final size:31
Alignment explanation
Indices: 46119852--46119921 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 31
46119842 TGATTTCGTG
*
46119852 TTATTT-TATA-TAAATATTTTCTTTTTAAT
1 TTATTTATATAGTAAATATTTTCTTTTAAAT
*
46119881 TTATTATATATATGTATATATTTTCTTTTAAAT
1 TTATT-TATATA-GTAAATATTTTCTTTTAAAT
46119914 TTATTTAT
1 TTATTTAT
46119922 GTATAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 1 0.03
31 4 0.11
32 3 0.09
33 22 0.63
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (31 bp):
TTATTTATATAGTAAATATTTTCTTTTAAAT
Found at i:46120061 original size:20 final size:22
Alignment explanation
Indices: 46120038--46120077 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46120028 ATAACTAATT
*
46120038 AAATCA-G-TATATTTTATTTG
1 AAATCATGTTATATATTATTTG
46120058 AAATCATGTTATATATTATT
1 AAATCATGTTATATATTATT
46120078 CATTTCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
AAATCATGTTATATATTATTTG
Found at i:46124402 original size:40 final size:40
Alignment explanation
Indices: 46124345--46124525 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
46124335 CTAACGGGGT
* * * * *
46124345 TAAGTCCCGAAGACATTTGTGCTAATGATTAATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* *
46124385 TAAGTCTCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
*
46124425 TAAGTCCCGAAGGCATTTGTGAC-AGTTACTATTTCCGGGC
1 TAAGTCCCGAAGGCATTTGTG-CTAGTTACTAATTCCGGGC
* * *
46124465 TAAGTCCCAAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
* *
46124505 TAAGACCCGACGGC-TTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
46124526 GAGTGGTTAT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.07
40 112 0.92
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
Found at i:46124538 original size:39 final size:39
Alignment explanation
Indices: 46124345--46124550 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 39
46124335 CTAACGGGGT
* * * *
46124345 TAAGTCCCGAAGACATTTGTGCTAATGATTA-ATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGC-AGTGACTATA-TCCGGGC
* *
46124385 TAAGTCTCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGC-AGTGACTATA-TCCGGGC
* *
46124425 TAAGTCCCGAAGGCATTTGTGACAGTTACTATTTCCGGGC
1 TAAGTCCCGAAGGCATTTGTG-CAGTGACTATATCCGGGC
* *
46124465 TAAGTCCCAAAGGCATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGC-AGTGACTATATCCGGGC
* * **
46124505 TAAGACCCGACGGC-TTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGC-AGTGACTATATCCGGGC
*
46124543 TAAATCCC
1 TAAGTCCC
46124551 AAAGATAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 9 0.06
39 18 0.13
40 113 0.80
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCAGTGACTATATCCGGGC
Found at i:46137143 original size:64 final size:64
Alignment explanation
Indices: 46137042--46137169 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
46137032 GTATTCATAA
* *
46137042 CACATCTAGTTAGGAGCATTTGATTCATGTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCAT
* * *
46137106 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAACTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCAT
46137170 AGATACATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCAT
Found at i:46137636 original size:88 final size:88
Alignment explanation
Indices: 46137413--46138537 Score: 1625
Period size: 88 Copynumber: 12.8 Consensus size: 88
46137403 TCGAAGACGA
** * * * * * *** *
46137413 TGAGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAAATAACAGATCTTGTCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
* * ** * *
46137478 GTAGTGGAGTAGATC-GGGGCAA
66 GTAGTGGAATGGATCAAAGACAG
46137500 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46137565 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
* * * * *
46137588 TGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCCA-GAGATTGTAGATCTTGTCTCCCTAAGC
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGG-CAGGACATTTTAGATCTTATCTCCCTAAGC
*** ** * *
46137652 AGTAGTGGAGCAGATC-GGGGCAA
65 AGTAGTGGAATGGATCAAAGACAG
46137675 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46137740 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46137763 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46137828 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46137851 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46137916 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46137939 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46138004 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46138027 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46138092 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46138115 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46138180 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
46138203 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46138268 GTAGTGGAATGGATCAAAGACAG
66 GTAGTGGAATGGATCAAAGACAG
* * * * *
46138291 TGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCCA-GAGATTGTAGATCTTGTCTCCCTAAGC
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGG-CAGGACATTTTAGATCTTATCTCCCTAAGC
****
46138355 AGTAGTGGAGCAAATCAAAGACAG
65 AGTAGTGGAATGGATCAAAGACAG
* * ** * * * *
46138379 TAAGCCTTAACCCCCTAAGTAGTAGGGTAGCAGGCCA-AAGATTGTAGATCTTGTCTCCCTAAGC
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGG-CAGGACATTTTAGATCTTATCTCCCTAAGC
**** *
46138443 AGTAGTGGAGCAAATCAAAGACGG
65 AGTAGTGGAATGGATCAAAGACAG
* * ** * * * * * *
46138467 TGACCCTTAACCCCCTAAGCAGTAGCATAACAGGCTGGAAATTTCAGA--TTATCTCCTTAAGGA
1 TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
46138530 GTAGTGGA
66 GTAGTGGA
46138538 GCTGATCGAA
Statistics
Matches: 964, Mismatches: 68, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
86 22 0.02
87 140 0.15
88 798 0.83
89 4 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (88 bp):
TGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTAGATCTTATCTCCCTAAGCA
GTAGTGGAATGGATCAAAGACAG
Found at i:46138351 original size:44 final size:44
Alignment explanation
Indices: 46138303--46138447 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 44
46138293 AGCCTTAACC
* * *
46138303 CCCTAAGTAGTAGGGTAACAGGCCAGAGATTGTAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAGCAGGCCAAAGATTGTAGATCTTGTCT
*** ** * ** *
46138347 CCCTAAGCAGTAGTGG-AGCAAATCAAAGACAGTA-AGCCTTAACC
1 CCCTAAGCAGTAG-GGTAGCAGGCCAAAGATTGTAGA-TCTTGTCT
*
46138391 CCCTAAGTAGTAGGGTAGCAGGCCAAAGATTGTAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAGCAGGCCAAAGATTGTAGATCTTGTCT
46138435 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
46138448 TGGAGCAAAT
Statistics
Matches: 74, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 3 0.04
44 68 0.92
45 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAGCAGGCCAAAGATTGTAGATCTTGTCT
Found at i:46138462 original size:44 final size:44
Alignment explanation
Indices: 46138329--46138463 Score: 148
Period size: 44 Copynumber: 3.1 Consensus size: 44
46138319 AACAGGCCAG
46138329 AGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAA
1 AGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAA
** * ** * * ***
46138373 AGACAGTA-AGCCTTAACCCCCTAAGTAGTAG-GGTAGCAGGCCAA
1 AGATTGTAGA-TCTTGTCTCCCTAAGCAGTAGTGG-AGCAAATCAA
46138417 AGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAA
1 AGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAA
46138461 AGA
1 AGA
46138464 CGGTGACCCT
Statistics
Matches: 67, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 3 0.04
44 61 0.91
45 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (44 bp):
AGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAA
Found at i:46138483 original size:44 final size:43
Alignment explanation
Indices: 46138347--46138491 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 43
46138337 GATCTTGTCT
*
46138347 CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTAAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGA-CCTTAACC
* *** ** * ** *
46138391 CCCTAAGTAGTAG-GGTAGCAGGCCAAAGATTGTAGATCTTGTCT
1 CCCTAAGCAGTAGTGG-AGCAAATCAAAGACAGT-GACCTTAACC
*
46138435 CCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGACCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGA-CCTTAACC
46138479 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
46138492 CATAACAGGC
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 4 0.05
44 69 0.91
45 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGACCTTAACC
Found at i:46138992 original size:44 final size:43
Alignment explanation
Indices: 46138819--46138994 Score: 158
Period size: 44 Copynumber: 4.0 Consensus size: 43
46138809 GAAATGGTGT
*
46138819 TGGAGC-GACTCGAAGCCACAATCCTTATCTCTCTAAAGTTGCAG
1 TGGAGCAGA-TCGAAGTCACAAT-CTTATCTCTCTAAAGTTGCAG
* ** * * * * *
46138863 TAGAGTGGGTTGAAGTAACAAGTCTTATCTCTCTGAAGTTACAG
1 TGGAGCAGATCGAAGTCACAA-TCTTATCTCTCTAAAGTTGCAG
* * * *
46138907 TGGAGCAGA-CTAAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATC-GAAGTCA-CA-ATCTTATCTCTCTAAAGTTGCAG
46138952 TGGAGCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCA
1 TGGAGCAGATCGAAGTCACAAT-CTTATCTCTCTAAAGTTGCA
46138995 ATAAAGCAGG
Statistics
Matches: 104, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.02
44 62 0.60
45 38 0.37
46 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
TGGAGCAGATCGAAGTCACAATCTTATCTCTCTAAAGTTGCAG
Found at i:46139727 original size:22 final size:21
Alignment explanation
Indices: 46139701--46139747 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
46139691 ACAAGGTGAT
46139701 TTTAATCTCGT-TTTTCTTTCGA
1 TTTAATCTC-TATTTTCTTT-GA
*
46139723 TTTAATTTCTATTTTCTTTGA
1 TTTAATCTCTATTTTCTTTGA
46139744 TTTA
1 TTTA
46139748 TCTACTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTAATCTCTATTTTCTTTGA
Found at i:46146506 original size:19 final size:19
Alignment explanation
Indices: 46146482--46146521 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46146472 TGTGTCATCA
46146482 TAAATTCATAGACATAACT
1 TAAATTCATAGACATAACT
** *
46146501 TAAATTTGTAGATATAACT
1 TAAATTCATAGACATAACT
46146520 TA
1 TA
46146522 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:46151611 original size:24 final size:24
Alignment explanation
Indices: 46151538--46151612 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
46151528 CGGTTAGATA
* * *
46151538 ACAGAAGCAATTTTAGTTT-AGAT
1 ACAGAAGCAATTTCAATTTCAAAT
* *
46151561 ACAGAA-CGAA--TCAATTACATAT
1 ACAGAAGC-AATTTCAATTTCAAAT
*
46151583 GCAGAAGCAATTTCAATTTCAAAT
1 ACAGAAGCAATTTCAATTTCAAAT
46151607 ACAGAA
1 ACAGAA
46151613 CAAATCAGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 4 0.10
22 11 0.28
23 9 0.23
24 15 0.38
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (24 bp):
ACAGAAGCAATTTCAATTTCAAAT
Found at i:46152177 original size:42 final size:42
Alignment explanation
Indices: 46152130--46152313 Score: 224
Period size: 42 Copynumber: 4.4 Consensus size: 42
46152120 ACACAACCTG
* *
46152130 GACACATGTCCATGTACTTGCCCGTGTGGCTCACATGGCCTA
1 GACACATGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
*
46152172 GACACACGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
1 GACACATGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
* ** * *
46152214 GACACATGCCCATGTCCTTGCCCGTGTGACTCACACAGCTTG
1 GACACATGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
* * ** * *
46152256 GACACACGCCCATGTCCTTACCCGTGTAACTCACACGGCCTG
1 GACACATGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
* *
46152298 GACAAATGCTCATGTC
1 GACACATGCCCATGTC
46152314 TCTGGCTGTG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 125 1.00
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.23
Consensus pattern (42 bp):
GACACATGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTA
Found at i:46156120 original size:37 final size:37
Alignment explanation
Indices: 46156034--46156154 Score: 145
Period size: 37 Copynumber: 3.2 Consensus size: 37
46156024 TTCCAATCGA
* *
46156034 AACACGCCA-ATCGCTCATAAGAGCTAATCCACATGAAT
1 AACACGCCAGAT-GCTCATAAGAGCTAGTCCACCTG-AT
* * * *
46156072 AACATGCCAGATGCTCATAATAGTTAGTCCACCCGAT
1 AACACGCCAGATGCTCATAAGAGCTAGTCCACCTGAT
* *
46156109 AACACGCCAGATGCTCATAAGAGCTAGTCCAACTGAA
1 AACACGCCAGATGCTCATAAGAGCTAGTCCACCTGAT
46156146 AACACGCCA
1 AACACGCCA
46156155 AAACAAGGAG
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 42 0.60
38 26 0.37
39 2 0.03
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (37 bp):
AACACGCCAGATGCTCATAAGAGCTAGTCCACCTGAT
Found at i:46163970 original size:65 final size:66
Alignment explanation
Indices: 46163858--46163988 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 66
46163848 AATAAAATTG
46163858 TTGTTTTGAAAAATATGTTTATAAAATTGAGAATAAATTTTCTCTATTTTTTGTCAAAATAACAA
1 TTGTTTTGAAAAATATGTTTATAAAATTGAGAATAAATTTTCTCTATTTTTTGTCAAAATAACAA
46163923 T
66 T
46163924 TTGTTTTGAAAAATATGTTTAT-AAATTGAGAATAAATTTTCTCTATTTTTTGTCAAAATAACAA
1 TTGTTTTGAAAAATATGTTTATAAAATTGAGAATAAATTTTCTCTATTTTTTGTCAAAATAACAA
46163988 T
66 T
46163989 CTCTCAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 43 0.66
66 22 0.34
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (66 bp):
TTGTTTTGAAAAATATGTTTATAAAATTGAGAATAAATTTTCTCTATTTTTTGTCAAAATAACAA
T
Found at i:46164352 original size:25 final size:25
Alignment explanation
Indices: 46164323--46164372 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
46164313 TTTCTCACCC
46164323 AATTTTATCCC-AATAAAATTTTGAT
1 AATTTTA-CCCTAATAAAATTTTGAT
46164348 AATTTTACCCTTAATAAAATTTTGA
1 AATTTTACCC-TAATAAAATTTTGA
46164373 AAAAATTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.13
25 7 0.30
26 13 0.57
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTTTACCCTAATAAAATTTTGAT
Found at i:46164968 original size:23 final size:23
Alignment explanation
Indices: 46164942--46164987 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46164932 CATCCATCAC
* *
46164942 ACAAACGGATGACTAGTGGCCAT
1 ACAAACGGACGACCAGTGGCCAT
*
46164965 ACAAACGGACGACCCGTGGCCAT
1 ACAAACGGACGACCAGTGGCCAT
46164988 GTTTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.26, T:0.13
Consensus pattern (23 bp):
ACAAACGGACGACCAGTGGCCAT
Found at i:46169105 original size:19 final size:19
Alignment explanation
Indices: 46169073--46169109 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
46169063 ATTTCATACG
46169073 TTGGCCCAATTTCTTCGTTT
1 TTGGCCCAATTTC-TCGTTT
46169093 TTGGCCC-ATTTCTCGTT
1 TTGGCCCAATTTCTCGTT
46169110 ACTTTTACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.08, C:0.27, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGGCCCAATTTCTCGTTT
Found at i:46191597 original size:6 final size:6
Alignment explanation
Indices: 46191586--46191619 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
46191576 TCCTCTTATC
46191586 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTT
46191620 CAATTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:46196997 original size:29 final size:29
Alignment explanation
Indices: 46196965--46197022 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46196955 TATTATTCTG
46196965 GAATAATATATTTAATAGATGAGAATAAA
1 GAATAATATATTTAATAGATGAGAATAAA
46196994 GAATAATATATTTAATAGATGAGAATAAA
1 GAATAATATATTTAATAGATGAGAATAAA
46197023 TTCTATCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (29 bp):
GAATAATATATTTAATAGATGAGAATAAA
Found at i:46197634 original size:18 final size:19
Alignment explanation
Indices: 46197607--46197645 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46197597 TAATGTTTTC
*
46197607 CATTTCTTTC-TTTTTATT
1 CATTTCTTTCATTTTAATT
*
46197625 CATTTTTTTCATTTTAATT
1 CATTTCTTTCATTTTAATT
46197644 CA
1 CA
46197646 AACATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (19 bp):
CATTTCTTTCATTTTAATT
Found at i:46205616 original size:62 final size:59
Alignment explanation
Indices: 46205505--46205621 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
46205495 ATCACTTTAA
* * * *
46205505 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAAGATTAAATTAAAATTAATATTAAATCT
*
46205564 TATTAAAATAATAGAATATTTATCTACAAGATAAAGATTAAATTAAAATTAATTTTAA
1 TATTAAAATAATAGAATATTTA--T-CAAGATAAAGATTAAATTAAAATTAATATTAA
46205622 GATAATCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAAGATTAAATTAAAATTAATATTAAATCT
Found at i:46212294 original size:45 final size:45
Alignment explanation
Indices: 46212230--46212318 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
46212220 TTAATGCTTA
46212230 TTCCGTTTCTTTGATTCTCTATTTTATAGATTCTGGTTCGTCAGT
1 TTCCGTTTCTTTGATTCTCTATTTTATAGATTCTGGTTCGTCAGT
*
46212275 TTCCGTTTCTTTGATTCTCTGTTTTATAGATTCTGGTTCGTCAG
1 TTCCGTTTCTTTGATTCTCTATTTTATAGATTCTGGTTCGTCAG
46212319 CTATCGGACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.12, C:0.18, G:0.17, T:0.53
Consensus pattern (45 bp):
TTCCGTTTCTTTGATTCTCTATTTTATAGATTCTGGTTCGTCAGT
Found at i:46219826 original size:40 final size:40
Alignment explanation
Indices: 46219771--46219985 Score: 242
Period size: 40 Copynumber: 5.4 Consensus size: 40
46219761 ATGATAACCA
* *
46219771 GGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCG
* * *
46219811 GGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCG
* *
46219851 GGCTAAGTCTCGAAGGCATTTGAGCGAGT-AGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCG
* * * *
46219891 GGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAACTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCG
*
46219931 GGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCG
*
46219970 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
46219986 TACTTGGTTT
Statistics
Matches: 155, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.11
40 136 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCG
Found at i:46219904 original size:80 final size:80
Alignment explanation
Indices: 46219771--46219985 Score: 294
Period size: 80 Copynumber: 2.7 Consensus size: 80
46219761 ATGATAACCA
* * * *
46219771 GGCTAAGTCTCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCCGAAGGCATTTGT
1 GGCTAAGTCTCGAAGGCATTTGAGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCATTTGC
* *
46219834 GCTAGTGACTA-ATTCTG
64 GCGAGTGACTATA-ACTG
46219851 GGCTAAGTCTCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCATTTGCGC
1 GGCTAAGTCTCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCATTTGCGC
*
46219916 GAGTTACTATAACTG
66 GAGTGACTATAACTG
* *
46219931 GGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGCTAAATCCCGAAGG
1 GGCTAAGTCTCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
46219986 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
79 15 0.12
80 105 0.85
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCTCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCATTTGCGC
GAGTGACTATAACTG
Found at i:46225531 original size:15 final size:15
Alignment explanation
Indices: 46225508--46225549 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
46225498 GAAGCCCAGA
*
46225508 ATAAGGAAATCTAAG
1 ATAAGGAAATCCAAG
* *
46225523 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
46225538 ATAAGGAAATCC
1 ATAAGGAAATCC
46225550 CATTTACAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:46228557 original size:38 final size:38
Alignment explanation
Indices: 46228514--46228729 Score: 171
Period size: 38 Copynumber: 5.2 Consensus size: 38
46228504 TTTCAAATTA
46228514 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
46228552 ACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
46228593 GAATCAATATATGTAACCGTAGCATATCCACTTAGAACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
46228637 ACATGTTTAACCATGGTATATCCACTTAACACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
46228678 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
46228722 ACATGTAT
1 ACATGTAT
46228730 CAATATGTGT
Statistics
Matches: 138, Mismatches: 22, Indels: 36
0.70 0.11 0.18
Matches are distributed among these distances:
38 58 0.42
39 2 0.01
40 7 0.05
41 4 0.03
42 2 0.01
43 2 0.01
44 4 0.03
45 6 0.04
46 2 0.01
47 51 0.37
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:46228618 original size:85 final size:85
Alignment explanation
Indices: 46228521--46228822 Score: 451
Period size: 85 Copynumber: 3.4 Consensus size: 85
46228511 TTAACATGTA
*
46228521 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCA
*
46228586 TGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * *
46228606 TAACCGTAGCATATCCACTTAGAACCACGTTACATGTTTAACCATGGTATATCCACTTAACACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCA
46228671 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
**
46228691 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATG--------T-T-TAACCGTGGTATATCCA
46228756 CTTAACACCACGTTAATGAATCAATATATG
56 CTTAACACCACGTTAATGAATCAATATATG
46228786 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
46228823 ATCAATATGT
Statistics
Matches: 197, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
85 114 0.58
87 1 0.01
93 1 0.01
94 1 0.01
95 80 0.41
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCA
CGTTAATGAATCAATATATG
Found at i:46228753 original size:48 final size:48
Alignment explanation
Indices: 46228644--46228872 Score: 309
Period size: 48 Copynumber: 4.8 Consensus size: 48
46228634 GTTACATGTT
* * *
46228644 TAACCATGGTATATCCACTTAACACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
46228691 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
** * *
46228739 TAATTGTGGTATATCCACTTAACACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
46228786 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
** * *
46228834 TAATTGTGGTATATCCACTTAGCAACACTTTACATGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
46228873 AACCGTGGTA
Statistics
Matches: 158, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
47 70 0.44
48 88 0.56
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:46228813 original size:95 final size:95
Alignment explanation
Indices: 46228650--46228854 Score: 410
Period size: 95 Copynumber: 2.2 Consensus size: 95
46228640 TGTTTAACCA
46228650 TGGTATATCCACTTAACACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
1 TGGTATATCCACTTAACACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
46228715 CCACGTTACATGTATCAATATGTGTAATTG
66 CCACGTTACATGTATCAATATGTGTAATTG
46228745 TGGTATATCCACTTAACACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
1 TGGTATATCCACTTAACACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
46228810 CCACGTTACATGTATCAATATGTGTAATTG
66 CCACGTTACATGTATCAATATGTGTAATTG
46228840 TGGTATATCCACTTA
1 TGGTATATCCACTTA
46228855 GCAACACTTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 110 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (95 bp):
TGGTATATCCACTTAACACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
CCACGTTACATGTATCAATATGTGTAATTG
Found at i:46235327 original size:12 final size:13
Alignment explanation
Indices: 46235310--46235347 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
46235300 ATCCTGGAAT
46235310 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
46235322 ATTAAGAACACATA
1 ATTAAGAACA-AGA
46235336 ATTAAGAACAAG
1 ATTAAGAACAAG
46235348 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:46237745 original size:43 final size:43
Alignment explanation
Indices: 46237600--46237745 Score: 113
Period size: 43 Copynumber: 3.4 Consensus size: 43
46237590 TGTGTTTTCG
* *
46237600 TGTAAGACCACGTCTGGGAC-GTTGGCATCGA-GTTATGTTTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATGTT-TG-ATTACA
* * * * * * *
46237644 TCTAAGACCATGTCTAGGACA-TCGGCATC-CTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGATGTTTGATTACA
* *
46237686 TGTAAGACC-CTATCTGGGACAGTGGCATCGATGTTTGATGACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATGTTTGATTACA
46237729 TGTAAGACCACGTCTGG
1 TGTAAGACCACGTCTGG
46237746 AACTTTGGCA
Statistics
Matches: 76, Mismatches: 19, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
42 25 0.33
43 26 0.34
44 25 0.33
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATGTTTGATTACA
Done.