Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 202 of 295
Found at i:64577936 original size:27 final size:26
Alignment explanation
Indices: 64577874--64577936 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
64577864 ATTTTATTTT
64577874 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
** * *
64577901 ATAAATATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
64577929 ATTTTATT
1 ATTTTATT
64577937 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:64577951 original size:10 final size:10
Alignment explanation
Indices: 64577932--64577963 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
64577922 TTTTAAGATT
64577932 TTAT-TTTAA
1 TTATCTTTAA
64577941 TTATCTTTAA
1 TTATCTTTAA
64577951 TTATCTTTAA
1 TTATCTTTAA
64577961 TTA
1 TTA
64577964 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:64581667 original size:7 final size:7
Alignment explanation
Indices: 64581651--64581730 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
64581641 CCAATCTTTC
64581651 TTTTTA-
1 TTTTTAT
64581657 TTTTTA-
1 TTTTTAT
64581663 TTTTTAT
1 TTTTTAT
64581670 TTTTT-T
1 TTTTTAT
64581676 TTTCCTT-T
1 TTT--TTAT
64581684 CTTTTTAT
1 -TTTTTAT
*
64581692 TTATTAT
1 TTTTTAT
*
64581699 TTATTAT
1 TTTTTAT
*
64581706 TTATTAT
1 TTTTTAT
64581713 TTTATT-T
1 TTT-TTAT
64581720 TATTTTAT
1 T-TTTTAT
64581728 TTT
1 TTT
64581731 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:64582884 original size:118 final size:118
Alignment explanation
Indices: 64582676--64582905 Score: 388
Period size: 118 Copynumber: 1.9 Consensus size: 118
64582666 GTTTTCCATT
* * *
64582676 GTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAATCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
*
64582741 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCGGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTAGCCGAG
*
64582794 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
* **
64582859 TACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTA
64582906 ATCAGAAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (118 bp):
GTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
TACTTCGCGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTAGCCGAG
Found at i:64583045 original size:9 final size:9
Alignment explanation
Indices: 64583031--64583064 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
64583021 AATAAATTTT
64583031 AAAAAAAAG
1 AAAAAAAAG
64583040 AAAAAAAAAAG
1 --AAAAAAAAG
64583051 AAAAAAAAG
1 AAAAAAAAG
64583060 AAAAA
1 AAAAA
64583065 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:64583047 original size:11 final size:11
Alignment explanation
Indices: 64583031--64583070 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
64583021 AATAAATTTT
64583031 AAAAAAAAGAA
1 AAAAAAAAGAA
64583042 AAAAAAAAG--
1 AAAAAAAAGAA
64583051 AAAAAAAAGAA
1 AAAAAAAAGAA
64583062 AAAGAAAAA
1 AAA-AAAAA
64583071 ATAAGTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:64583056 original size:20 final size:21
Alignment explanation
Indices: 64583031--64583070 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
64583021 AATAAATTTT
64583031 AAAAAAAAGAAAAA-AAAAAG
1 AAAAAAAAGAAAAAGAAAAAG
64583051 AAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAGAAAAAGAAAAA
64583071 ATAAGTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAAAGAAAAAG
Found at i:64583058 original size:15 final size:15
Alignment explanation
Indices: 64583031--64583071 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
64583021 AATAAATTTT
*
64583031 AAAAA-AAAGAAAAA
1 AAAAAGAAAAAAAAA
*
64583045 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAA
64583060 AAAAAGAAAAAA
1 AAAAAGAAAAAA
64583072 TAAGTACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAA
Found at i:64591309 original size:21 final size:21
Alignment explanation
Indices: 64591249--64591307 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
64591239 GTTAAGAAGA
64591249 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCGCCCTTC
64591270 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCGCCCTTC
*
64591291 CACACGGGCATGT-GCCC
1 CACACGGGCGTGTCGCCC
64591308 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:64591816 original size:153 final size:153
Alignment explanation
Indices: 64591538--64592767 Score: 1187
Period size: 153 Copynumber: 8.1 Consensus size: 153
64591528 GGGTGTTACA
* * *
64591538 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAG-AACTTATAGCTTAACTCGATCGATA
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATA
*
64591602 CATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATGTATTACCTCTTTT
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAAT-TATTACCTCTTTT
* *
64591666 ATTAAAAATATAAAACATCACCCAC
129 ATTAAAAATATAAACCATCACCGAC
* * * * * * * * *
64591691 AAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAACTATAGTTTAACTTGATCGATCC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
* **
64591756 ATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
*
64591821 TAAAAATATAAACCATTGA-CGAC
131 TAAAAATATAAACCA-TCACCGAC
* * * * * *
64591844 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAG-AACTTATAACTTAACTCGACCGAT
1 -AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGAT
* * * *
64591908 CCATGCATCTAGCTAATAAATATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTT
64 ACATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTT
* *
64591973 ATTAAAAAAATAAATCATCACCGAC
129 ATTAAAAATATAAACCATCACCGAC
* * * *
64591998 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
* * * ** * *
64592063 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* * *
64592128 TAAAAATATAAACCATCGCAGTC
131 TAAAAATATAAACCATCACCGAC
* ** * * *
64592151 AAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAATGTACAGCTTAACTCAATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
64592216 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* * *
64592281 TAAAAATATAAACCATCGTCGAGAA
131 TAAAAATATAAACCATC-AC-CGAC
* * * * ** * * *
64592306 AAAATCAAGACTAATATGCTGCTAAT-GGTCGTGTTTGAGAATTTAT-GTTTTAAATCGATCAAT
1 AAAATCAAGATTAATGTGCTGCTAATATG-CGTCTTTGAGAAACTATAG-CTTAACTCGATCGAT
* * * * * * * * *
64592369 TCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCTTTT
64 ACATGCAACTAGC-TAATAAATATA-GTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
* * * *
64592432 TTA-AAAAAATATAAACTATCGCCGTC
127 TTATTAAAAATATAAACCATCACCGAC
* * * *
64592458 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATAC
64592523 ATGCAACTAGCTAATAAATATAGCT-GTTGGACTT-CCCTTAATCTC--------ACCTCTTTTA
66 ATGCAACTAGCTAATAAATATAG-TAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTA
*
64592578 TTAAAAATATAAACCATCCCCGAC
130 TTAAAAATATAAACCATCACCGAC
* * * * * * ** * * *
64592602 AAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAG-AACTTATAGTTTAACTCGATCCAT-
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATA
** * * ** * * * ** *
64592665 --TGTGACTACCTAATAAGTATA-TCTTTTGAACCACTCCACTTAATCTCAAATTACGACTTC-T
65 CATGCAACTAGCTAATAAATATAGT-AGTTGGA-C-TTCCCCTTAATCTCAAATTATTACCTCTT
* *
64592726 TTATTAAAAATATAAACTATCACCGGC
127 TTATTAAAAATATAAACCATCACCGAC
64592753 AAAATCAAGATTAAT
1 AAAATCAAGATTAAT
64592768 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:64592093 original size:307 final size:304
Alignment explanation
Indices: 64591538--64592805 Score: 1314
Period size: 307 Copynumber: 4.2 Consensus size: 304
64591528 GGGTGTTACA
* * * *
64591538 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
*
64591603 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAT-TATTACCTCTTTTAT
* * * * * * * *
64591668 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAA
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * ** *
64591733 CTATAGTTTAACTTGATCGATCCATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
*
64591798 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGAC
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * * * *
64591844 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATC
1 -AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATT
* * *
64591909 CATGCATCTAGCTAATAAATATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * *
64591974 TTAAAAAAATAAATCATCACCGACAAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAA
129 TTAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAA
* * **
64592039 CCTATAGCTTAACTCGATCGATACATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTA
194 CCTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTA
* * *
64592104 ATCTTAAAGTATTACCTCTTTTATTAAAAATATAAACCATCGCAGTC
259 ATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGC-GAC
* * * * *
64592151 AAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAA-TGTACAGCTTAACTCAATCGATT
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACT-TATAACTTAACTCGATCGATT
64592215 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * * * * * *
64592280 TTAAAAATATAAACCATCGTCGAGAAAAAATCAAGACTAATATGCTGCTAAT-GGTCGTGTTTGA
129 TTAAAAATATAAACCATC-AC-CGACAAAATCAATATTAATGTGCTGCTAATATG-CGTCTTTGA
** * * * * ** * *
64592344 GAATTTAT-GTTTTAAATCGATCAATTCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTC
191 GAACCTATAG-TTTAACTCGATCGATACATGTAACTAGC-TAATAAATATA-GCAGTTGGACTTC
* * * * * *
64592406 CCCTTAATATGAAATTATTACCTTTTTTA-AAAAAATATAAACTATCGCCGTC
253 CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * *
64592458 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
64592523 ATGCAACTAGCTAATAAATATAGCT-GTTGGACTT-CCCTTAATCTC-------ACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAG-TAGTTGGACTTCCCCTTAATCTCAATTATTACCTCTTTTAT
* * * * * * ** *
64592579 TAAAAATATAAACCATCCCCGACAAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAGAAC
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * * * * * ** * * *
64592644 TTATAGTTTAACTCGATCCAT---TGTGACTACCTAATAAGTATATCTTTTGAACCACTCCACTT
195 CTATAGTTTAACTCGATCGATACATGTAACTAGCTAATAAATATAGCAGTTGGA-C-TTCCCCTT
** * * * *
64592706 AATCTCAAATTACGACTTC-TTTATTAAAAATATAAACTATCACCGGC
258 AATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-GCGAC
* ** * * * *
64592753 AAAATCAAGATTAATATGCAACTAATATTCATCTTTAAAAACTTATAATTTAA
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAA
64592806 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:64592483 original size:460 final size:459
Alignment explanation
Indices: 64591538--64592568 Score: 1309
Period size: 460 Copynumber: 2.2 Consensus size: 459
64591528 GGGTGTTACA
* * *
64591538 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * *
64591603 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTT-CCCTTAATCTCAAAGTATTACCTCTTTTAT
* * * * *
64591668 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAGTATGTGCCTTTGAGAAA
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCATTTGAGAAA
* * ** * **
64591733 CTATAGTTTAACTTGATCGATCCATGTATTTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCAATCGATCCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
* * * *
64591798 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGACAAAAATCAAAATTAATGTA
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGAAAAAAATCAAAACTAATATA
* * * *
64591863 CTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATCCATGCATCTAGCTAATAAA
325 CTGCTAATATGCATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGCTAATAAA
* * * * *
64591928 TATAGTAGTTGAACTTCCCCTTAATCTCAAATTGTTACCTCTTTTATTAAAAAAATAAATCATCA
390 TATAGCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAAATAAATCATCA
64591993 CCGAC
455 CCGAC
* * * *
64591998 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * * *
64592063 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCC-CTTAATCTCAAAGTATTACCTCTTTTAT
* * ** * * * *
64592128 TAAAAATATAAACCATCGCAGTCAAAATCAAGATTAATGTGCTGCTAATATGCGTATTTGAGAAT
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCATTTGAGAAA
* *
64592193 GTACAGCTTAACTCAATCGATTCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCAATCGATCCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
* *
64592258 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGTCGAGAAAAAATCAAGACTAATAT
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGA-AAAAAATCAAAACTAATAT
* * * * * * *** * * *
64592323 GCTGCTAAT-GGTCGTGTTTGAGAATTTATGTTTTAAATCGATCAATTCTTACAACTA-CTTAAT
324 ACTGCTAATATG-CATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGC-TAAT
*
64592386 AAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCT-TTTT-TAAAAAAATATAAA-
387 AAATATA-GCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAA-ATAAAT
* *
64592447 CTATCGCCGTC
450 C-ATCACCGAC
* * * *
64592458 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
*
64592523 ATGCAACTAGCTAATAAATATAGCTGTTGGACTTCCCTTAATCTCA
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCTTAATCTCA
64592569 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:64597726 original size:132 final size:129
Alignment explanation
Indices: 64597465--64597728 Score: 406
Period size: 132 Copynumber: 2.0 Consensus size: 129
64597455 GTTATTGAAT
64597465 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATATAACACTTAC
1 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATATAACACTTAC
64597530 ATGTGATTTTTTTATCTAAGTATTTTTGTCATTTATACCTTAATTTATTATAACATTTACATGTG
66 ATGTGATTTTTTTATCTAAGTATTTTTG--ATTTATACCTTAATTTATTATAACATTTACATGTG
64597595 A
129 A
64597596 TCATTGAGTC-ACATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTT
1 TCATTGAGTCGA-ATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTA-TATAACACTT
** * * *
64597660 ATGTGTGATTTTTTTATCTGAACATTATTTTTG-TTTATACCTTAATTTCTTATAACATTTATAT
64 ACATGTGATTTTTTTATCT--A-AGTATTTTTGATTTATACCTTAATTTATTATAACATTTACAT
64597724 GTGA
126 GTGA
64597728 T
1 T
64597729 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:64601113 original size:23 final size:23
Alignment explanation
Indices: 64601082--64601131 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
64601072 TCTAAACTCA
**
64601082 AAAACCTTAAACCTAAAAGTATT
1 AAAACCTTAAACCTAAAAACATT
*
64601105 AAAATCTTAAACCTAAAAACATT
1 AAAACCTTAAACCTAAAAACATT
64601128 AAAA
1 AAAA
64601132 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:64608653 original size:16 final size:16
Alignment explanation
Indices: 64608626--64608675 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
64608616 ACTGCCGGGT
64608626 CGGGCC-GGTTCAGGC
1 CGGGCCGGGTTCAGGC
64608641 CGGGCCGGGTTCAGGC
1 CGGGCCGGGTTCAGGC
*
64608657 CGGGGCGGGTTCAGGC
1 CGGGCCGGGTTCAGGC
64608673 CGG
1 CGG
64608676 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:64608839 original size:12 final size:12
Alignment explanation
Indices: 64608822--64608856 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
64608812 CTAACCCGTC
64608822 TATATTAATTTT
1 TATATTAATTTT
*
64608834 TATATTATTTTT
1 TATATTAATTTT
64608846 TATA-TAATTTT
1 TATATTAATTTT
64608857 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:64608880 original size:18 final size:18
Alignment explanation
Indices: 64608857--64608894 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
64608847 ATATAATTTT
*
64608857 AAAATA-TATAAACCATCA
1 AAAATACTA-AAAACATCA
64608875 AAAATACTAAAAACATCA
1 AAAATACTAAAAACATCA
64608893 AA
1 AA
64608895 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:64609036 original size:19 final size:21
Alignment explanation
Indices: 64608993--64609037 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
64608983 TTTCTAAAAT
**
64608993 AATAACAAAATTAACAAATCT
1 AATAACAAAATTAACAAATAA
64609014 AATAA-AAAATTAAC-AATAA
1 AATAACAAAATTAACAAATAA
64609033 AATAA
1 AATAA
64609038 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:64609106 original size:11 final size:11
Alignment explanation
Indices: 64609066--64609105 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
64609056 ATAATAACAA
64609066 CAAAATAATAG
1 CAAAATAATAG
*
64609077 CAACATAATAG
1 CAAAATAATAG
* *
64609088 TAAAATAGTAG
1 CAAAATAATAG
64609099 CAAAATA
1 CAAAATA
64609106 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:64613219 original size:21 final size:19
Alignment explanation
Indices: 64613193--64613235 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
64613183 AGTGATTACG
*
64613193 TGTGTAAATTTAATATACATA
1 TGTGTAAA-TTAATA-AAATA
*
64613214 TGTGTATATTAATAAAATA
1 TGTGTAAATTAATAAAATA
64613233 TGT
1 TGT
64613236 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:64622646 original size:21 final size:20
Alignment explanation
Indices: 64622580--64622646 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
64622570 AGTCAACTCA
*
64622580 TATGAGTTTCAGATTAACCCT
1 TATGAGTTTC-GTTTAACCCT
* * *
64622601 TATGGGTTTCCGTTCAGCTCC-
1 TATGAGTTT-CGTTTAAC-CCT
64622622 TATGAGCTTTCGTTTAACCCT
1 TATGAG-TTTCGTTTAACCCT
64622643 TATG
1 TATG
64622647 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:64622656 original size:21 final size:20
Alignment explanation
Indices: 64622593--64622658 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
64622583 GAGTTTCAGA
64622593 TTAACCCTTATGGGTTTCCGT
1 TTAACCCTTATGGG-TTCCGT
* * * *
64622614 TCAGCTCC-TATGAGCTTTCGT
1 TTAAC-CCTTATG-GGTTCCGT
64622635 TTAACCCTTATGGGTTCCCGT
1 TTAACCCTTATGGGTT-CCGT
64622656 TTA
1 TTA
64622659 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:64626268 original size:28 final size:26
Alignment explanation
Indices: 64626207--64626299 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
64626197 TAAATTGTAC
64626207 AGCACTAAGTGTGCGAGTT-A-T-AT
1 AGCACTAAGTGTGCGAGTTGATTAAT
64626230 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGAG-TTGATTA-AT
*
64626258 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTA-AT
*
64626285 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64626300 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:64626286 original size:27 final size:28
Alignment explanation
Indices: 64626224--64626296 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
64626214 AGTGTGCGAG
*
64626224 TTATATAGCACTAAGTGTGCGAGTTTGA
1 TTATATAGCACTAAGTGTACGAGTTTGA
*
64626252 TTACATAGCACTAAGTGTACGAG-TTGA
1 TTATATAGCACTAAGTGTACGAGTTTGA
*
64626279 TTATATAGCACTGAGTGT
1 TTATATAGCACTAAGTGT
64626297 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:64627887 original size:25 final size:25
Alignment explanation
Indices: 64627859--64627910 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
64627849 AAGATTAATT
*
64627859 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
64627884 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
64627909 TG
1 TG
64627911 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:64628565 original size:18 final size:18
Alignment explanation
Indices: 64628539--64628581 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
64628529 AAAAGTTATT
*
64628539 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
64628557 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
64628575 TTTATAT
1 TTTATAT
64628582 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:64628589 original size:13 final size:13
Alignment explanation
Indices: 64628571--64628615 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
64628561 TATATATTAA
64628571 TAAATTTATATTT
1 TAAATTTATATTT
64628584 TAAATTT-T-TTT
1 TAAATTTATATTT
64628595 AATAAATTTATATTT
1 --TAAATTTATATTT
64628610 TAAATT
1 TAAATT
64628616 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:64628596 original size:26 final size:27
Alignment explanation
Indices: 64628567--64628631 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
64628557 TTTATATATA
64628567 TTAATAAATTTATATTTTAAATT-TTT
1 TTAATAAATTTATATTTTAAATTGTTT
64628593 TTAATAAATTTATATTTTAAATTGTTT
1 TTAATAAATTTATATTTTAAATTGTTT
*
64628620 TTACATATATTT
1 TTA-ATAAATTT
64628632 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:64633556 original size:23 final size:23
Alignment explanation
Indices: 64633525--64633614 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
64633515 GGCTTTGCCG
*
64633525 ATCAAGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCATAT
*
64633548 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATAT
* * * **
64633571 TTTAGGCACCTCGTGTGTCAT-T
1 ATCAGGCACTTTATGTGTCATAT
* *
64633593 -TTAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATAT
64633614 A
1 A
64633615 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:64637669 original size:25 final size:25
Alignment explanation
Indices: 64637640--64637690 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
64637630 AAGAATAATT
* *
64637640 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTAATATTGCCTAATAAA
* *
64637665 TGAATATCTAATATTGCTTAGTAAA
1 TGAATATCTAATATTGCCTAATAAA
64637690 T
1 T
64637691 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:64638336 original size:10 final size:10
Alignment explanation
Indices: 64638321--64638348 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
64638311 ATATTACATG
64638321 TTTACTTTGT
1 TTTACTTTGT
64638331 TTTACTTTGT
1 TTTACTTTGT
64638341 TTTACTTT
1 TTTACTTT
64638349 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:64641432 original size:43 final size:43
Alignment explanation
Indices: 64641384--64641581 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
64641374 CCGGTATTAC
* *
64641384 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
64641427 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
64641470 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
64641513 GACTGCTAGGCACGAAGGCCCGAATTCACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
64641556 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
64641582 TAATACCAGC
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 147 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:64641622 original size:38 final size:38
Alignment explanation
Indices: 64641574--64641697 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
64641564 GGCACGAAGG
* * * *
64641574 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
64641612 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
64641650 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
64641689 GCCCGGATA
1 -CCCGGATA
64641698 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:64647921 original size:25 final size:25
Alignment explanation
Indices: 64647892--64647940 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
64647882 AAAAAAGTAT
*
64647892 TTTTTATAAATTTTATATTTTAAATA
1 TTTTAATAAATTTTA-ATTTTAAATA
*
64647918 TTTTAATAATTTTTAATTTTAAA
1 TTTTAATAAATTTTAATTTTAAA
64647941 AATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTAATAAATTTTAATTTTAAATA
Found at i:64647943 original size:27 final size:28
Alignment explanation
Indices: 64647883--64647958 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
64647873 TAAAATATTA
*
64647883 AAAAAGTATTTTTTATAAATTTTATATTTT
1 AAAAA-TA-TTTTTATAATTTTTATATTTT
*
64647913 --AAATATTTTAATAATTTTTA-ATTTT
1 AAAAATATTTTTATAATTTTTATATTTT
*
64647938 AAAAATATTTTTATATTTTTT
1 AAAAATATTTTTATAATTTTT
64647959 TTGAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 5 0.12
26 13 0.32
27 19 0.47
28 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
AAAAATATTTTTATAATTTTTATATTTT
Found at i:64648413 original size:32 final size:32
Alignment explanation
Indices: 64648377--64648440 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
64648367 CGGAACATGT
* *
64648377 TTTTTTTTCCATTATTTTCTATCAAAAATGAA
1 TTTTTTTCCCATTATTTTCTATAAAAAATGAA
64648409 TTTTTTTCCCATTATTTTCTATAAAAAATGAA
1 TTTTTTTCCCATTATTTTCTATAAAAAATGAA
64648441 AGTGAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTTTTTCCCATTATTTTCTATAAAAAATGAA
Found at i:64652135 original size:25 final size:27
Alignment explanation
Indices: 64652093--64652148 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
64652083 CAAGCGCGAT
* * *
64652093 TTTTTTATATTAGAATATT-TTTTTTG
1 TTTTTTAAATAAGAATATTATTTTTTA
64652119 TTTTTTAAATAAG-ATATTATTTTTTA
1 TTTTTTAAATAAGAATATTATTTTTTA
64652145 TTTT
1 TTTT
64652149 CAAATTAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (27 bp):
TTTTTTAAATAAGAATATTATTTTTTA
Found at i:64658762 original size:14 final size:14
Alignment explanation
Indices: 64658737--64658804 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
64658727 AATACATTAC
*
64658737 CTTTATTTCTTCTTT
1 CTTTCTTTCTTC-TT
64658752 CTTTC-TTCTTCTT
1 CTTTCTTTCTTCTT
* *
64658765 CTTTTTTTCTTCTC
1 CTTTCTTTCTTCTT
*
64658779 CTTTCTCTCTT-TT
1 CTTTCTTTCTTCTT
*
64658792 CTTTCTCTCTTCT
1 CTTTCTTTCTTCT
64658805 GATGGGTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 18 0.40
14 23 0.51
15 4 0.09
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTCTTTCTTCTT
Found at i:64658765 original size:17 final size:17
Alignment explanation
Indices: 64658743--64658777 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
64658733 TTACCTTTAT
64658743 TTCTTCTTTCTTTCTTC
1 TTCTTCTTTCTTTCTTC
*
64658760 TTCTTCTTTTTTTCTTC
1 TTCTTCTTTCTTTCTTC
64658777 T
1 T
64658778 CCTTTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTCTTTCTTTCTTC
Found at i:64658777 original size:20 final size:22
Alignment explanation
Indices: 64658746--64658804 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
64658736 CCTTTATTTC
64658746 TTCTTTCTTTCTTCTTCT-TCTT
1 TTCTTTC-TTCTTCTTCTCTCTT
*
64658768 TT-TTTCTTCTCCTTTCTCTCTT
1 TTCTTTCTTCTTC-TTCTCTCTT
64658790 TTCTTTCTCTCTTCT
1 TTCTTTCT-TCTTCT
64658805 GATGGGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 8 0.26
22 8 0.26
23 6 0.19
24 4 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTTCTTCTTCTTCTCTCTT
Found at i:64659143 original size:28 final size:28
Alignment explanation
Indices: 64659075--64659147 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
64659065 TATAAATTTA
*
64659075 AATATTTT-TA-ATAAAAATAAAAAAAT
1 AATATTTTATATAAAAAAATAAAAAAAT
*
64659101 AATATTTTATTTAAAAAAATAAAAAAA-
1 AATATTTTATATAAAAAAATAAAAAAAT
* *
64659128 CATGTTTTAATATAAAAAAA
1 AATATTTT-ATATAAAAAAA
64659148 AGAGTCCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 8 0.21
27 7 0.18
28 24 0.62
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (28 bp):
AATATTTTATATAAAAAAATAAAAAAAT
Found at i:64660232 original size:23 final size:21
Alignment explanation
Indices: 64660197--64660240 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
64660187 TAATAAAATT
*
64660197 AAATTTTATTTATTTATTTTTA
1 AAATTTTATTTATAT-TTTTTA
*
64660219 AAATATTTGTTTATATTTTTTA
1 AAAT-TTTATTTATATTTTTTA
64660241 TAGCTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
AAATTTTATTTATATTTTTTA
Found at i:64660439 original size:18 final size:16
Alignment explanation
Indices: 64660401--64660441 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
64660391 TTTTTTTATT
64660401 AATTTTAAAATTTTGA
1 AATTTTAAAATTTTGA
*
64660417 AATTTTAAAATATCTTTA
1 AATTTTAAAAT-T-TTGA
64660435 AATTTTA
1 AATTTTA
64660442 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTAAAATTTTGA
Found at i:64662544 original size:118 final size:118
Alignment explanation
Indices: 64662399--64662611 Score: 381
Period size: 118 Copynumber: 1.8 Consensus size: 118
64662389 TTTTACCCAA
*
64662399 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGAGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* *
64662464 TCAGTCACGATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
64662517 CACGTCACACAACCTTTTGACGAGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGAGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
**
64662582 TCAGTCACGATCTAAGCTGTACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
64662612 ATGGAAAACT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGAGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
Found at i:64663148 original size:17 final size:17
Alignment explanation
Indices: 64663126--64663159 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64663116 GGAGAAAAAA
64663126 AAGTTTAGAAAAACTCC
1 AAGTTTAGAAAAACTCC
64663143 AAGTTTAGAAAAACTCC
1 AAGTTTAGAAAAACTCC
64663160 CCATGTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAGTTTAGAAAAACTCC
Found at i:64670086 original size:27 final size:26
Alignment explanation
Indices: 64670056--64670117 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
64670046 AGATAATTAA
64670056 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
64670083 AATAATGATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
64670110 AATAAAAT
1 AATAAAAT
64670118 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:64671645 original size:5 final size:5
Alignment explanation
Indices: 64671635--64671662 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
64671625 CATTTTTGTG
64671635 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
64671663 GAACACACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:64675832 original size:5 final size:5
Alignment explanation
Indices: 64675822--64675849 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
64675812 CTAATTTGTG
64675822 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
64675850 TAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:64679194 original size:14 final size:12
Alignment explanation
Indices: 64679165--64679211 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
64679155 AATATACTAA
64679165 AAATATTAAAAT
1 AAATATTAAAAT
64679177 AAATATTTATAAAT
1 AAATA-TTA-AAAT
*
64679191 AAAT-TGAAAAT
1 AAATATTAAAAT
64679202 AAAT-TTAAAA
1 AAATATTAAAA
64679212 AATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 13 0.42
12 7 0.23
13 3 0.10
14 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:64679290 original size:12 final size:11
Alignment explanation
Indices: 64679268--64679301 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
64679258 CAAATACCTT
64679268 TAAAATAATAA
1 TAAAATAATAA
64679279 TAAAATTAATAA
1 TAAAA-TAATAA
64679291 TAAAATAATAA
1 TAAAATAATAA
64679302 CAATATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:64682975 original size:7 final size:7
Alignment explanation
Indices: 64682963--64683001 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
64682953 AGATTATGAT
64682963 GGGCATA
1 GGGCATA
64682970 GGGCATA
1 GGGCATA
*
64682977 GGGTATA
1 GGGCATA
64682984 GGGCATA
1 GGGCATA
64682991 GGGCATA
1 GGGCATA
64682998 GGGC
1 GGGC
64683002 TGACAGACGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.46, T:0.15
Consensus pattern (7 bp):
GGGCATA
Found at i:64683417 original size:11 final size:11
Alignment explanation
Indices: 64683401--64683499 Score: 50
Period size: 11 Copynumber: 9.2 Consensus size: 11
64683391 TTTTTTCCAT
64683401 AAAAATTATAA
1 AAAAATTATAA
*
64683412 AAAAATAATAA
1 AAAAATTATAA
*
64683423 AAGAA-TAT--
1 AAAAATTATAA
*
64683431 GAAAATTGAT-A
1 AAAAATT-ATAA
* *
64683442 TAAACTTA-AA
1 AAAAATTATAA
64683452 AAAAATTATAA
1 AAAAATTATAA
*
64683463 AAAACA-TAAAA
1 AAAA-ATTATAA
64683474 ATTATAAATTAT-A
1 A--A-AAATTATAA
64683487 AAAAATTATAA
1 AAAAATTATAA
64683498 AA
1 AA
64683500 TTAGTAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
8 3 0.05
9 1 0.02
10 19 0.29
11 34 0.52
12 1 0.02
13 4 0.06
14 4 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:64683466 original size:10 final size:10
Alignment explanation
Indices: 64683401--64683499 Score: 68
Period size: 10 Copynumber: 10.3 Consensus size: 10
64683391 TTTTTTCCAT
64683401 AAAAATTATAA
1 AAAAATTAT-A
*
64683412 AAAAATAATA
1 AAAAATTATA
64683422 AAAGAA-TAT-
1 AAA-AATTATA
*
64683431 GAAAATTGATA
1 AAAAATT-ATA
* * *
64683442 TAAACTTAAA
1 AAAAATTATA
64683452 AAAAATTATA
1 AAAAATTATA
*
64683462 AAAAA-CAT-
1 AAAAATTATA
64683470 AAAAATTAT-
1 AAAAATTATA
64683479 --AAATTATA
1 AAAAATTATA
64683487 AAAAATTATA
1 AAAAATTATA
64683497 AAA
1 AAA
64683500 TTAGTAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.10
8 7 0.10
9 7 0.10
10 33 0.48
11 15 0.22
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:64683499 original size:25 final size:26
Alignment explanation
Indices: 64683454--64683512 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
64683444 AACTTAAAAA
64683454 AAATTATAAAAAACATAAAAATTA-T
1 AAATTATAAAAAACATAAAAATTAGT
*
64683479 AAATTATAAAAAA-TTATAAAATTAGT
1 AAATTATAAAAAACATA-AAAATTAGT
*
64683505 AAAATATA
1 AAATTATA
64683513 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.67
26 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTATAAAAAACATAAAAATTAGT
Found at i:64683500 original size:18 final size:18
Alignment explanation
Indices: 64683402--64683508 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 18
64683392 TTTTTCCATA
*
64683402 AAAATTATAAAAAAATAAT
1 AAAATTAT-AAAAAATTAT
** *
64683421 AAAAGAATATGAAAATTGAT
1 AAAATTATA-AAAAATT-AT
*
64683441 ATAAACTTAAAAAAAATTAT
1 A-AAA-TTATAAAAAATTAT
* *
64683461 AAAA-AACATAAAAATTAT
1 AAAATTATA-AAAAATTAT
64683479 -AAATTATAAAAAATTAT
1 AAAATTATAAAAAATTAT
64683496 AAAATTAGTAAAA
1 AAAATTA-TAAAA
64683509 TATATTTAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
17 14 0.21
18 18 0.26
19 19 0.28
20 6 0.09
21 9 0.13
22 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:64683613 original size:19 final size:19
Alignment explanation
Indices: 64683591--64683633 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
64683581 TTTAAAGTAT
* * *
64683591 TAAAACTAATATAAATTTA
1 TAAAAATAATAAAAAATTA
*
64683610 TAAAAATTATAAAAAATTA
1 TAAAAATAATAAAAAATTA
64683629 TAAAA
1 TAAAA
64683634 TCTTAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATAAAAAATTA
Found at i:64683634 original size:8 final size:9
Alignment explanation
Indices: 64683399--64683633 Score: 68
Period size: 9 Copynumber: 24.7 Consensus size: 9
64683389 TATTTTTTCC
64683399 ATAAAAATT
1 ATAAAAATT
*
64683408 ATAAAAAAATA
1 AT--AAAAATT
*
64683419 ATAAAAGAAT
1 ATAAAA-ATT
*
64683429 ATGAAAATT
1 ATAAAAATT
*
64683438 GATATAAACTT
1 -ATA-AAAATT
*
64683449 AAAAAAAATT
1 -ATAAAAATT
**
64683459 ATAAAAAAC
1 ATAAAAATT
64683468 ATAAAAATT
1 ATAAAAATT
64683477 AT--AAATT
1 ATAAAAATT
64683484 ATAAAAAATT
1 AT-AAAAATT
64683494 AT-AAAATT
1 ATAAAAATT
64683502 AGTAAAATATAT
1 A-TAAAA-AT-T
* **
64683514 TTAAATTTTT
1 ATAAA-AATT
**
64683524 ATAAAAGCGT
1 ATAAAA-ATT
*
64683534 ATTAAAATTCT
1 A-TAAAAAT-T
* *
64683545 TTAAAAATC
1 ATAAAAATT
64683554 ATAAAAGATT
1 ATAAAA-ATT
*
64683564 ATAAAAAGT
1 ATAAAAATT
**
64683573 ATTTAAATT
1 ATAAAAATT
* *
64683582 TTAAAGTATT
1 ATAAA-AATT
64683592 A-AAACTAA-T
1 ATAAA--AATT
*
64683601 AT-AAATTT
1 ATAAAAATT
64683609 ATAAAAATT
1 ATAAAAATT
64683618 ATAAAAAATT
1 AT-AAAAATT
64683628 ATAAAA
1 ATAAAA
64683634 TCTTAAATTA
Statistics
Matches: 161, Mismatches: 42, Indels: 46
0.65 0.17 0.18
Matches are distributed among these distances:
7 8 0.05
8 10 0.06
9 57 0.35
10 57 0.35
11 28 0.17
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:64689319 original size:165 final size:165
Alignment explanation
Indices: 64689036--64689364 Score: 597
Period size: 165 Copynumber: 2.0 Consensus size: 165
64689026 GAAACTCAGT
64689036 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
64689101 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
64689166 AATGCAAACC-GATTCTTTCAGGCATGGAGATGATA
131 AATGCAAACCAG-TTCTTTCAGGCATGGAGATGATA
* * *
64689201 TTGATGTACCAATAGTCGTCTCCACTACATCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
64689266 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAATTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
64689331 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
131 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
64689365 GTTGGGCTTC
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
165 157 0.99
166 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (165 bp):
TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
AATGCAAACCAGTTCTTTCAGGCATGGAGATGATA
Found at i:64691961 original size:10 final size:10
Alignment explanation
Indices: 64691948--64692063 Score: 73
Period size: 10 Copynumber: 11.8 Consensus size: 10
64691938 TAAATCTAAG
64691948 TTATAAAAAA
1 TTATAAAAAA
*
64691958 TTAT--TAAA
1 TTATAAAAAA
*
64691966 TTTTAATAAAA
1 TTATAA-AAAA
* *
64691977 ATATTAAAAA
1 TTATAAAAAA
*
64691987 TTAGAAAAGAA
1 TTATAAAA-AA
64691998 TTAT-AAAAA
1 TTATAAAAAA
**
64692007 TCGTAAAAAA
1 TTATAAAAAA
64692017 -TATAAAAAA
1 TTATAAAAAA
64692026 TTAT--AAAA
1 TTATAAAAAA
*
64692034 TTGTATAAAAA
1 TTATA-AAAAA
*
64692045 TCATAAAAAAA
1 TTAT-AAAAAA
64692056 TTATAAAA
1 TTATAAAA
64692064 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
8 13 0.17
9 11 0.14
10 28 0.36
11 25 0.32
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:64692003 original size:29 final size:28
Alignment explanation
Indices: 64691953--64692063 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 28
64691943 CTAAGTTATA
* **
64691953 AAAAATTATTAAATTTTAATAAAAATATT
1 AAAAATTATAAAAAATT-ATAAAAATATT
* **
64691982 AAAAATTAGAAAAGAATTATAAAAATCGT
1 AAAAATTATAAAA-AATTATAAAAATATT
* * *
64692011 AAAAAATATAAAAAATTATAAAATTGTAT
1 AAAAATTATAAAAAATTATAAAAATAT-T
*
64692040 AAAAATCATAAAAAAATTATAAAA
1 AAAAATTAT-AAAAAATTATAAAA
64692064 TGCATCAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.17
29 39 0.59
30 16 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAAATTATAAAAATATT
Found at i:64692015 original size:38 final size:37
Alignment explanation
Indices: 64691971--64692064 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
64691961 TTAAATTTTA
64691971 ATAAAAATATTAAAAATTAGAAAAGAAT-TATAAAAATC
1 ATAAAAATATTAAAAATTA-AAAA-AATGTATAAAAATC
* * * *
64692009 GTAAAAAATATAAAAAATTATAAAATTGTATAAAAATC
1 AT-AAAAATATTAAAAATTAAAAAAATGTATAAAAATC
*
64692047 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
64692065 GCATCAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 10 0.22
38 20 0.43
39 16 0.35
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (37 bp):
ATAAAAATATTAAAAATTAAAAAAATGTATAAAAATC
Found at i:64692288 original size:18 final size:19
Alignment explanation
Indices: 64692244--64692288 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
64692234 TTTGGTACTA
*
64692244 TAATTATTATATTTTTTTAC
1 TAATT-TTATATTTCTTTAC
64692264 TAATTTTATATTTCTTTAC
1 TAATTTTATATTTCTTTAC
64692283 -AATTTT
1 TAATTTT
64692289 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTATATTTCTTTAC
Found at i:64692358 original size:21 final size:21
Alignment explanation
Indices: 64692334--64692379 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64692324 ATTTTTTTAA
*
64692334 TTTTTAATAATATTTTAAT-AT
1 TTTTTAATAA-AATTTAATCAT
*
64692355 TTTTTATTAAAATTTAATCAT
1 TTTTTAATAAAATTTAATCAT
64692376 TTTT
1 TTTT
64692380 ATAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATAAAATTTAATCAT
Found at i:64692381 original size:20 final size:20
Alignment explanation
Indices: 64692333--64692381 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
64692323 AATTTTTTTA
* *
64692333 ATTTTTAATAATATTTTAAT
1 ATTTTTATTAATAATTTAAT
64692353 ATTTTTTATTAA-AATTTAAT
1 A-TTTTTATTAATAATTTAAT
64692373 CATTTTTAT
1 -ATTTTTAT
64692382 AACTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATTAATAATTTAAT
Found at i:64692399 original size:29 final size:29
Alignment explanation
Indices: 64692288--64692399 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 29
64692278 TTTACAATTT
* * * *
64692288 TTTTATAATTTTCTTACAA-CTTGATAAAA
1 TTTTATAATTTTATTA-AATTTTAATAATA
* *
64692317 TTTTATAATTTTTTTAATTTTTAATAATA
1 TTTTATAATTTTATTAAATTTTAATAATA
* * *
64692346 TTTTAATATTTTTTATTAAAATTTAATCAT-
1 TTTT-ATA-ATTTTATTAAATTTTAATAATA
*
64692376 TTTTATAACTTTTATTGAATTTTA
1 TTTTATAA-TTTTATTAAATTTTA
64692400 TTTTTAGCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 1 0.02
29 42 0.64
30 7 0.11
31 16 0.24
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTATAATTTTATTAAATTTTAATAATA
Found at i:64692631 original size:98 final size:103
Alignment explanation
Indices: 64692513--64692717 Score: 271
Period size: 98 Copynumber: 2.0 Consensus size: 103
64692503 TAACAATCAA
*** *
64692513 AGGG-CCTTTTTGATGCATTTTGGCAGTTCAAGTACCCAATTGAGTGC-AAAAAA-AA-AA-AAA
1 AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAGAAGAAGAAA
* ** *
64692573 CAAAGCAGGGGTTTAATTTC-TTTTTTGAAAAAAGTTTG
66 AAAAGCAGGGACTTAATTGCTTTTTTTG-AAAAAGTTTG
64692611 AGGGCCCTTTTT-ATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAGAAGAAGAAA
1 AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAGAAGAAGAAA
*
64692675 AAAAGCAGTGACTTAATTGCTTTTTTTGAAAAAGTTTG
66 AAAAGCAGGGACTTAATTGCTTTTTTTGAAAAAGTTTG
64692713 AGGGC
1 AGGGC
64692718 TTTTTACACC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
98 35 0.38
99 13 0.14
100 2 0.02
101 2 0.02
102 33 0.36
103 7 0.08
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (103 bp):
AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAGAAGAAGAAA
AAAAGCAGGGACTTAATTGCTTTTTTTGAAAAAGTTTG
Found at i:64697968 original size:343 final size:342
Alignment explanation
Indices: 64697332--64698017 Score: 935
Period size: 343 Copynumber: 2.0 Consensus size: 342
64697322 GGTTTGTAGA
* *
64697332 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACGCCATGGTCTCGAGAGAATTATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
64697397 GTCAACTTCTTGATTTGATCATCTATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
66 GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
* * * * *
64697462 TTAAGAGCCTTCACAACATTGTCCCTAAGCTACTCTCTTATTGAGTCCAACTCATCGATGCGTCC
131 CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
* * * * ***
64697527 TTCAATTATCTCGAGTGTTTCCTTCACACCACCCATGGATTCCTCGAGATTGGTCACTTGGCCTT
196 CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
* **
64697592 CCAAAGCCAACAACATATCCTTCGATATGCTATTTTCCTGGTCTTCTTATGGGTCTCTATCGAGA
261 CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
*
64697657 CATTTTGTACGTTTACT
326 CATTTTGTACGTCTACT
* *
64697674 TATTGAGCTACTAAATTTGTTCCTTCAAGGCTGACACCATGGTCTTGAGAGAATCATTCTTCTTA
1 TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
64697739 GTCAAATTCTCAG-TCTGATCATCCATGGCA-ACATTGAGGGTCTCTCTCATTGCATCTTGATTG
66 GTCAAATTCT-AGATCTGATCATCCATAG-AGACATTAAAGGTCTCTCT-ATTGCACCTTGATTG
* * * * *
64697802 GAACTGATAGCCTTCACCACATAGTCCCTAAGCTGCTCTCTCATCGAGTCCAACTCATCGGTGCA
128 GAACTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCA
* *
64697867 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTTCTCAAGATTGGTCACCCATC
193 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGC
** * * * * **
64697932 CTTCCAAATTCGACAGCATATCTTTCAATTTGCTATTTTGTTGGTCTTCCCATGGGTCTCTATCG
258 CTTCCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCG
*
64697997 AGACATTTTGTTCGTCTACT
323 AGACATTTTGTACGTCTACT
64698017 T
1 T
64698018 CTTTTATCAT
Statistics
Matches: 297, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
342 97 0.33
343 200 0.67
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (342 bp):
TATTGAGCTACTAAATTTGTTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAAGGTCTCTCTATTGCACCTTGATTGGAA
CTAAGAGCCTTCACAACATAGTCCCTAAGCTACTCTCTCATCGAGTCCAACTCATCGATGCATCC
CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
CATTTTGTACGTCTACT
Found at i:64701288 original size:13 final size:13
Alignment explanation
Indices: 64701270--64701299 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
64701260 TTCTTGTAAA
64701270 CATTTCACATAAC
1 CATTTCACATAAC
*
64701283 CATTTCATATAAC
1 CATTTCACATAAC
64701296 CATT
1 CATT
64701300 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:64701494 original size:46 final size:46
Alignment explanation
Indices: 64701436--64701665 Score: 370
Period size: 46 Copynumber: 5.0 Consensus size: 46
64701426 TTTCTGTCAT
* * *
64701436 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
64701482 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
64701528 GTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
64701574 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
64701620 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
64701666 AGAGCACACT
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 177 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:64703798 original size:3 final size:3
Alignment explanation
Indices: 64703785--64703824 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
64703775 TTATATATAT
64703785 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
64703825 GACTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:64705915 original size:72 final size:73
Alignment explanation
Indices: 64705809--64705965 Score: 271
Period size: 72 Copynumber: 2.2 Consensus size: 73
64705799 TTCACAAATT
* *
64705809 TTATATGTACATATTTTTTTTTAAAATTTATTCCGAAATAAATTTTATATATTCATGATTTTACA
1 TTATATGTACATA-TTTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACA
64705874 TGTGTATTA
65 TGTGTATTA
64705883 TTATATGTACATA-TTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACAT
1 TTATATGTACATATTTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACAT
64705947 GTGTATTA
66 GTGTATTA
*
64705955 TTATATTTACA
1 TTATATGTACA
64705966 AAATATAAGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 67 0.84
74 13 0.16
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (73 bp):
TTATATGTACATATTTTTTTTAAAATTTATTCCGAAACAAATTTTATATATTCATAATTTTACAT
GTGTATTA
Found at i:64706351 original size:16 final size:15
Alignment explanation
Indices: 64706331--64706371 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
64706321 AAGAAAGATG
*
64706331 GAAAATTGAAAGGTA
1 GAAAAATGAAAGGTA
64706346 GAAAAATGAAAGGTA
1 GAAAAATGAAAGGTA
64706361 GAAAAATGAAA
1 GAAAAATGAAA
64706372 AGAATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAGGTA
Found at i:64706380 original size:16 final size:15
Alignment explanation
Indices: 64706331--64706383 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
64706321 AAGAAAGATG
* * *
64706331 GAAAATTGAAAGGTA
1 GAAAAATGAAAAGAA
* *
64706346 GAAAAATGAAAGGTA
1 GAAAAATGAAAAGAA
64706361 GAAAAATGAAAAGAA
1 GAAAAATGAAAAGAA
64706376 TGAAAAAT
1 -GAAAAAT
64706384 ATAATTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 27 0.79
16 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (15 bp):
GAAAAATGAAAAGAA
Found at i:64709942 original size:2 final size:2
Alignment explanation
Indices: 64709935--64709959 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64709925 GCGTCCCAAT
64709935 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
64709960 CATCGATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64710387 original size:26 final size:24
Alignment explanation
Indices: 64710356--64710404 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
64710346 AAATAAAAAT
*
64710356 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
64710382 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
64710405 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:64714733 original size:8 final size:8
Alignment explanation
Indices: 64714720--64714756 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
64714710 TGAATATTAG
64714720 TGTGCCAT
1 TGTGCCAT
64714728 TGTGCCAT
1 TGTGCCAT
64714736 TGTGCCAT
1 TGTGCCAT
64714744 TGTGCCAT
1 TGTGCCAT
64714752 TGTGC
1 TGTGC
64714757 TTTGACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.11, C:0.24, G:0.27, T:0.38
Consensus pattern (8 bp):
TGTGCCAT
Found at i:64716004 original size:45 final size:45
Alignment explanation
Indices: 64715954--64716063 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 45
64715944 ATTGAAAAGA
* *
64715954 TGTAAAATT-CATGGAAAAATTCTAAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAA-TCTAAATTTTATGAAATACATGGGC
*
64715999 TGTAAATTTACATGCAAAAA-CTGAATTTTATGAAATACATGGGC
1 TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
64716043 TGTAAATTTACATGCAAAAAT
1 TGTAAATTTACATGCAAAAAT
64716064 AGGCTAGGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
44 43 0.72
45 8 0.13
46 9 0.15
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (45 bp):
TGTAAATTTACATGCAAAAATCTAAATTTTATGAAATACATGGGC
Found at i:64722027 original size:11 final size:11
Alignment explanation
Indices: 64722013--64722041 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
64722003 ACTCCCTATT
64722013 CAAAGCCTAAC
1 CAAAGCCTAAC
64722024 CAAAGCCTAAC
1 CAAAGCCTAAC
64722035 CAAAGCC
1 CAAAGCC
64722042 CCATTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.38, G:0.10, T:0.07
Consensus pattern (11 bp):
CAAAGCCTAAC
Found at i:64722097 original size:20 final size:20
Alignment explanation
Indices: 64722068--64722112 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
64722058 AGCACATGTA
* *
64722068 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
64722088 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
64722108 TTCAT
1 TTCAT
64722113 TTTAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:64723979 original size:18 final size:19
Alignment explanation
Indices: 64723953--64723997 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
64723943 TACTTATACT
*
64723953 TTAAGTATAATATATT-TA
1 TTAATTATAATATATTATA
*
64723971 TTAATTATAATGTATTATA
1 TTAATTATAATATATTATA
64723990 TTAATTAT
1 TTAATTAT
64723998 TAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTAATTATAATATATTATA
Found at i:64724023 original size:9 final size:9
Alignment explanation
Indices: 64724009--64724034 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64723999 AATTAATTAA
64724009 AAATAAAAG
1 AAATAAAAG
64724018 AAATAAAAG
1 AAATAAAAG
64724027 AAATAAAA
1 AAATAAAA
64724035 ATAAAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:64724040 original size:23 final size:24
Alignment explanation
Indices: 64724006--64724052 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
64723996 ATTAATTAAT
*
64724006 TAAAAATAAAAGAAATAAAAGAAA
1 TAAAAATAAAAGAAACAAAAGAAA
64724030 TAAAAAT-AAAGAAACAAAAGAAA
1 TAAAAATAAAAGAAACAAAAGAAA
64724053 AAGAACAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (24 bp):
TAAAAATAAAAGAAACAAAAGAAA
Found at i:64725759 original size:37 final size:37
Alignment explanation
Indices: 64725700--64725772 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
64725690 ATTACGAAGT
* *
64725700 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGA
1 CTTACCCGGACAAAATCTCCACACGAAGTCATCGGGA
*
64725737 CTTACCCGGACAAAAT-TCCCACACGTAGTCATCGGG
1 CTTACCCGGACAAAATCT-CCACACGAAGTCATCGGG
64725773 TCTTTAGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (37 bp):
CTTACCCGGACAAAATCTCCACACGAAGTCATCGGGA
Found at i:64725973 original size:47 final size:47
Alignment explanation
Indices: 64725895--64726340 Score: 685
Period size: 47 Copynumber: 9.4 Consensus size: 47
64725885 CCCTTCGGGA
* * * * * * *
64725895 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64725942 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64725989 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64726036 CTTATGACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64726083 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64726130 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64726177 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
64726226 CTTATCACACATATACACTTTCACCTTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64726273 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64726322 CTTATCACATATATACACT
1 CTTATCACATATATACACT
64726341 GTCTTGGCTG
Statistics
Matches: 368, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 280 0.76
49 88 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64732782 original size:48 final size:48
Alignment explanation
Indices: 64732718--64732968 Score: 475
Period size: 48 Copynumber: 5.2 Consensus size: 48
64732708 AATATATATG
*
64732718 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
*
64732766 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
64732814 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
*
64732862 TATGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
64732910 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
64732958 TATGTGGTAAA
1 TATGTGGTAAA
64732969 TGTATATGTG
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 200 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTA
Found at i:64732973 original size:15 final size:15
Alignment explanation
Indices: 64732953--64732983 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
64732943 TGTATGAGAT
64732953 ATGTATATGTGGTAA
1 ATGTATATGTGGTAA
64732968 ATGTATATGTGGTAA
1 ATGTATATGTGGTAA
64732983 A
1 A
64732984 GCCGAATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
ATGTATATGTGGTAA
Found at i:64732987 original size:63 final size:63
Alignment explanation
Indices: 64732905--64733031 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
64732895 TGTATGAGAT
64732905 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
* * *
64732968 ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTGTGAGATATGTATATGTGGTAA
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
64733031 A
1 A
64733032 GCCGAATGGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (63 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
Found at i:64732990 original size:111 final size:111
Alignment explanation
Indices: 64732857--64733063 Score: 351
Period size: 111 Copynumber: 1.9 Consensus size: 111
64732847 TGTATGAGAT
*
64732857 ATGTATATGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
*
64732922 CCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
66 CCGAATGGCTAATGCGAAATATGTAGGAGATATGTATATGTGGTAA
* * *
64732968 ATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTGTGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
64733033 CCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 CCGAATGGCTAATGCGAAATATGTAGGAGAT
64733064 GTGTGTATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 89 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (111 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAATGCGAAATATGTAGGAGATATGTATATGTGGTAA
Found at i:64733258 original size:37 final size:37
Alignment explanation
Indices: 64733204--64733306 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
64733194 GGAAATATAT
*
64733204 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
64733241 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
64733278 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
64733307 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:64738057 original size:18 final size:18
Alignment explanation
Indices: 64738015--64738048 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64738005 TAAAGAAGAG
64738015 AAAAAT-AAAATAGAAAC
1 AAAAATAAAAATAGAAAC
64738032 AAAAATAAAAATAGAAA
1 AAAAATAAAAATAGAAA
64738049 TAGAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAATAGAAAC
Found at i:64744038 original size:43 final size:42
Alignment explanation
Indices: 64743988--64744111 Score: 151
Period size: 41 Copynumber: 2.9 Consensus size: 42
64743978 TCCCAGATGT
* *
64743988 GGTCTTACATGCAATCACATATAGATGCCACTGTCCCAGACAA
1 GGTCTTACACG-AATCACATATAGATGCCAATGTCCCAGACAA
* * * *
64744031 GGTCTTACACGAATCAAATACA-ATGCCAAAGTCCCAGACAT
1 GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
* *
64744072 GGTCTTACACATAATCACATATCGATGCCAATGTCCCAGA
1 GGTCTTACAC-GAATCACATATAGATGCCAATGTCCCAGA
64744112 TGTGGTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 26 0.38
42 17 0.25
43 25 0.37
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATAGATGCCAATGTCCCAGACAA
Found at i:64744069 original size:41 final size:41
Alignment explanation
Indices: 64743964--64744122 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 41
64743954 TCACATATAT
* ** *
64743964 CATACAAT-CCAACGTCCCAGATGTGGTCTTACATGCAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACG-AATCA
* * *
64744005 CATATAGATGCCACTGTCCCAGACAAGGTCTTACACGAATCA
1 CATACA-ATGCCAATGTCCCAGACATGGTCTTACACGAATCA
* * *
64744047 AATACAATGCCAAAGTCCCAGACATGGTCTTACACATAATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACAC-GAATCA
* **
64744089 CATATCGATGCCAATGTCCCAGATGTGGTCTTAC
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTAC
64744123 TCGAGAACAC
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.32
42 19 0.20
43 46 0.48
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGAATCA
Found at i:64752137 original size:43 final size:42
Alignment explanation
Indices: 64752082--64752252 Score: 213
Period size: 43 Copynumber: 4.0 Consensus size: 42
64752072 ATATCGTACA
*
64752082 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
* * *
64752125 ATGCC-ACTGTCCCAGATAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAATCACATATCG
* *
64752166 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACATATCG
*
64752209 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GA-ATCACATATCG
64752252 A
1 A
64752253 AAATCCTATG
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 27 0.25
42 19 0.17
43 64 0.58
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAATCACATATCG
Found at i:64752223 original size:84 final size:84
Alignment explanation
Indices: 64752082--64752235 Score: 247
Period size: 84 Copynumber: 1.8 Consensus size: 84
64752072 ATATCGTACA
* * *
64752082 ATGCCAACGTCCCAGACATGGTCTTACATGCAATTACATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
64752147 CTTACATGAATCAAATACG
66 CTTACATGAATCAAATACG
* *
64752166 ATGCCAAAGTCCCAGACATGGTCTTACATGTAATGACATATCGATGCCAAC-GTCCCAGACATGG
1 ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCC-ACTGTCCCAGACAGGG
64752230 TCTTAC
65 TCTTAC
64752236 TCGAGAACAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
84 62 0.97
85 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAAAGTCCCAGACATGGTCTTACATGCAATGACATATCGATGCCACTGTCCCAGACAGGGT
CTTACATGAATCAAATACG
Found at i:64757678 original size:16 final size:16
Alignment explanation
Indices: 64757634--64757669 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64757624 GCAGATCGGC
*
64757634 AAATCCCAAAAAGCTG
1 AAATACCAAAAAGCTG
*
64757650 AAATACCGAAAAGCTG
1 AAATACCAAAAAGCTG
64757666 AAAT
1 AAAT
64757670 GCTAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATACCAAAAAGCTG
Found at i:64757945 original size:29 final size:28
Alignment explanation
Indices: 64757904--64757982 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
64757894 GACTGTAAAA
64757904 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
64757932 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
64757961 GAGATTGGG-CTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
64757983 AGCATGTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.26
28 9 0.20
29 24 0.52
30 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:64768657 original size:26 final size:26
Alignment explanation
Indices: 64768619--64768676 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
64768609 CCGCAACTCT
* *
64768619 TTGTGAGCGTCCTGTTATATGATCTG
1 TTGTGAGCATCCTGTTATATGATCGG
64768645 TTGTGAGCATCCTGTTATATGATCGG
1 TTGTGAGCATCCTGTTATATGATCGG
64768671 TTGTGA
1 TTGTGA
64768677 TCCTGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (26 bp):
TTGTGAGCATCCTGTTATATGATCGG
Found at i:64770437 original size:21 final size:22
Alignment explanation
Indices: 64770392--64770446 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
64770382 TGTAGGGTTC
*
64770392 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
64770414 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
64770435 ACATGCCCGTGT
1 ACACGCCCGTGT
64770447 TGGAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:64772385 original size:13 final size:13
Alignment explanation
Indices: 64772367--64772393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64772357 AAAAGTTGTT
64772367 TATCTATCAATAA
1 TATCTATCAATAA
64772380 TATCTATCAATAA
1 TATCTATCAATAA
64772393 T
1 T
64772394 CTTTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TATCTATCAATAA
Found at i:64772453 original size:36 final size:36
Alignment explanation
Indices: 64772406--64772480 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
64772396 TTCATTTTCT
64772406 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
64772442 ACCATAAATTTATAATTTCCAGCATATACATCCATG
1 ACCATAAATTTATAATTTCCAGCATATACATCCATG
64772478 ACC
1 ACC
64772481 CATTTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (36 bp):
ACCATAAATTTATAATTTCCAGCATATACATCCATG
Found at i:64774042 original size:10 final size:11
Alignment explanation
Indices: 64774027--64774055 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
64774017 CAAGATCTAG
64774027 TTTATTTTA-T
1 TTTATTTTATT
64774037 TTTATTTTATT
1 TTTATTTTATT
64774048 TTTATTTT
1 TTTATTTT
64774056 GGAATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:64778306 original size:39 final size:39
Alignment explanation
Indices: 64778252--64778331 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
64778242 ATCATTCCTA
64778252 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
* * *
64778291 TCATAATGTAGACCATGCAATAATATTCAAATAAAATTT
1 TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
64778330 TC
1 TC
64778332 TTTTTGGCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (39 bp):
TCATAATGCAGACCATACAATAATATTAAAATAAAATTT
Found at i:64783822 original size:12 final size:12
Alignment explanation
Indices: 64783805--64783834 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
64783795 CAGTATTAGC
*
64783805 TTTTTATATTAT
1 TTTTTATATAAT
64783817 TTTTTATATAAT
1 TTTTTATATAAT
64783829 TTTTTA
1 TTTTTA
64783835 AAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:64784623 original size:28 final size:28
Alignment explanation
Indices: 64784591--64784657 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
64784581 GTACAGTCTA
*
64784591 GGCCTTAGCCCTATACAGAAACAGTGTG
1 GGCCTAAGCCCTATACAGAAACAGTGTG
*
64784619 GGCCTAAGCCCTATACAGTAACAGTGTG
1 GGCCTAAGCCCTATACAGAAACAGTGTG
64784647 GGCCTAAGCCC
1 GGCCTAAGCCC
64784658 AATTCGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.19
Consensus pattern (28 bp):
GGCCTAAGCCCTATACAGAAACAGTGTG
Found at i:64792121 original size:28 final size:28
Alignment explanation
Indices: 64792089--64792188 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
64792079 AAACAGCATG
*
64792089 CAGTAACAGTATGCGCCTTAGCCCTATA
1 CAGTAACAGTATGGGCCTTAGCCCTATA
64792117 CAGTATTAGTACAG-ACTGGGCCTTAGCCCTATA
1 CAG---TA--ACAGTA-TGGGCCTTAGCCCTATA
* * *
64792150 CAGTAACAGTATGGGCCTAAGCCCAATT
1 CAGTAACAGTATGGGCCTTAGCCCTATA
*
64792178 CAGTATCAGTA
1 CAGTAACAGTA
64792189 CAGTGCAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
28 31 0.52
29 1 0.02
30 2 0.03
31 2 0.03
32 1 0.02
33 23 0.38
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTATGGGCCTTAGCCCTATA
Found at i:64796025 original size:6 final size:6
Alignment explanation
Indices: 64796014--64796177 Score: 328
Period size: 6 Copynumber: 27.3 Consensus size: 6
64796004 TTACCGAAAC
64796014 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
64796062 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
64796110 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
64796158 ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT AT
64796178 GGGCATTAAC
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 158 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:64796725 original size:20 final size:22
Alignment explanation
Indices: 64796685--64796727 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
64796675 AAGACTATAG
*
64796685 TGCTCACACAAGCTGACATATT
1 TGCTCACACAAGATGACATATT
64796707 TGCTCACACAAGAT-A-ATATT
1 TGCTCACACAAGATGACATATT
64796727 T
1 T
64796728 ATGAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (22 bp):
TGCTCACACAAGATGACATATT
Found at i:64798175 original size:20 final size:20
Alignment explanation
Indices: 64798147--64798195 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
64798137 TATCGATCTA
* * *
64798147 GTATTGATACCTTTCTTAAG
1 GTATCGATACATTTCCTAAG
*
64798167 GTATCGATATATTTCCTAAG
1 GTATCGATACATTTCCTAAG
*
64798187 ATATCGATA
1 GTATCGATA
64798196 TTCTTGCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTCCTAAG
Found at i:64798196 original size:20 final size:20
Alignment explanation
Indices: 64798158--64798196 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64798148 TATTGATACC
* *
64798158 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGATATCGATATA
64798178 TTTCCTAAGATATCGATAT
1 TTTCCTAAGATATCGATAT
64798197 TCTTGCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGATATCGATATA
Found at i:64799614 original size:27 final size:26
Alignment explanation
Indices: 64799567--64799618 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64799557 GCGAGGCTGC
64799567 CAGATATTGTGACGAAATCACCAGAA
1 CAGATATTGTGACGAAATCACCAGAA
* **
64799593 CAGATATATGTGGCGAGGTCACCAGA
1 CAGATAT-TGTGACGAAATCACCAGA
64799619 TTGCAGCGAG
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:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAATCACCAGAA
Found at i:64811136 original size:40 final size:40
Alignment explanation
Indices: 64810986--64811149 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
64810976 TGGATGATAA
* * *
64810986 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
64811026 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64811066 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
64811106 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
64811146 CCGG
1 CCGG
64811150 TTAAATCCTG
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
39 3 0.03
40 111 0.97
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64815564 original size:17 final size:17
Alignment explanation
Indices: 64815544--64815580 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
64815534 ATGAAAAATA
*
64815544 AAAATAAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
*
64815561 AAAAGGAAAAGAAAAAC
1 AAAAGAAAAAGAAAAAC
64815578 AAA
1 AAA
64815581 GTGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAC
Found at i:64819370 original size:40 final size:40
Alignment explanation
Indices: 64819270--64819614 Score: 462
Period size: 40 Copynumber: 8.7 Consensus size: 40
64819260 GCTCCTCGTT
* * * * *
64819270 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
64819310 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
64819349 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
64819389 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
64819429 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
64819469 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
64819509 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * * *
64819549 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
64819590 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
64819615 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.13
40 231 0.83
41 11 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:64828422 original size:17 final size:18
Alignment explanation
Indices: 64828397--64828430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
64828387 TATAATCTTG
64828397 CTTAAGTTTT-TGCTTAA
1 CTTAAGTTTTGTGCTTAA
*
64828414 CTTATGTTTTGTGCTTA
1 CTTAAGTTTTGTGCTTA
64828431 GTGCGTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (18 bp):
CTTAAGTTTTGTGCTTAA
Found at i:64832752 original size:39 final size:38
Alignment explanation
Indices: 64832644--64832757 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
64832634 TAATTTAGTT
*
64832644 TAAGTCTTTAATTATATCATAATTTGAACATCATTAATA
1 TAAGT-TTTAATTATGTCATAATTTGAACATCATTAATA
*
64832683 TAAGTTTTAATTATGTCATAATCTGAACATCATTAATA
1 TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
* * *
64832721 -AGAGTTTTCAATTATGTCATAGTTTGGACATCTTTAA
1 TA-AGTTTT-AATTATGTCATAATTTGAACATCATTAA
64832758 AACATGTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 37 0.55
39 29 0.43
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (38 bp):
TAAGTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:64832767 original size:39 final size:37
Alignment explanation
Indices: 64832650--64832776 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 37
64832640 AGTTTAAGTC
*
64832650 TTTAATTATATCATAATTTGAACATCATTAATATA-AGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-A-ACAGT
* *
64832688 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGT
1 TTTAATTATGTCATAATTTGAACATCATTAA-AACAGT
* * *
64832726 TTTCAATTATGTCATAGTTTGGACATCTTTAAAACATGTT
1 TTT-AATTATGTCATAATTTGAACATCATTAAAACA-G-T
*
64832766 TTTAAGTATGT
1 TTTAATTATGT
64832777 TTAAATTTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 40 0.52
39 32 0.42
40 4 0.05
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCATTAAAACAGT
Found at i:64835286 original size:40 final size:40
Alignment explanation
Indices: 64835238--64835443 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
64835228 GGACTAAGAT
*
64835238 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
64835278 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
64835318 CCGGAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
64835358 CCGAAGGCATCTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
64835398 CTGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
64835437 CCGAAGG
1 CCGAAGG
64835444 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 14 0.09
40 140 0.91
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:64849485 original size:40 final size:40
Alignment explanation
Indices: 64849244--64849478 Score: 355
Period size: 40 Copynumber: 5.9 Consensus size: 40
64849234 ATTCGGATTG
* *
64849244 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64849283 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64849323 ATAACCAGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64849363 ATAACCGGGCCAAGTCCCAAAGGCAATTGTGCGAGTTTCT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64849403 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64849443 ATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGT
64849479 AGCTATATCC
Statistics
Matches: 178, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 13 0.07
40 165 0.93
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64853131 original size:40 final size:40
Alignment explanation
Indices: 64853077--64853183 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
64853067 CGACGAAAAA
* *
64853077 TCGGTTATTTATGGCACTTAGTGTGCGATATGATATAGCT
1 TCGGTTATATATGGCACTTAGTGTGCGATATGAGATAGCT
* * *
64853117 TCGGCTATATATGGCACTTAGTGTGTGATTTGAGATAGCT
1 TCGGTTATATATGGCACTTAGTGTGCGATATGAGATAGCT
* *
64853157 TCGGTTATGTATGGCACATAGTGTGCG
1 TCGGTTATATATGGCACTTAGTGTGCG
64853184 GGATATTGAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.37
Consensus pattern (40 bp):
TCGGTTATATATGGCACTTAGTGTGCGATATGAGATAGCT
Found at i:64853209 original size:28 final size:28
Alignment explanation
Indices: 64853165--64853223 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
64853155 CTTCGGTTAT
* * *
64853165 GTATGGCACATAGTGTGCGGGATATTGA
1 GTATGGCACATAATGTGCGAGATAGTGA
*
64853193 GTATGGCACTTAATGTGCGAGATAGTGA
1 GTATGGCACATAATGTGCGAGATAGTGA
64853221 GTA
1 GTA
64853224 CTCAACGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (28 bp):
GTATGGCACATAATGTGCGAGATAGTGA
Done.