Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 141 of 199
Found at i:46931167 original size:29 final size:28
Alignment explanation
Indices: 46931009--46931169 Score: 114
Period size: 29 Copynumber: 5.6 Consensus size: 28
46930999 AACAGGTTCA
46931009 CCACAAAGGTT-TGCCTTTCCAGAA-TTTTG
1 CCACAAAGGTTGT-CCTTT-CA-AAGTTTTG
* * * * *
46931038 CCACAAAGGCTATCCTTTTATAGGTTTG
1 CCACAAAGGTTGTCCTTTCAAAGTTTTG
* * *
46931066 CCACAAAGGTTTTCCTTTTCAGAGTTTTA
1 CCACAAAGGTTGTCC-TTTCAAAGTTTTG
* * *
46931095 CCACAAACGTTGCCCTTT-AACA-TGTTCG
1 CCACAAAGGTTGTCCTTTCAA-AGT-TTTG
*
46931123 CCACAAAGGTTTTCCTTTCCAAAGTTTTG
1 CCACAAAGGTTGTCCTTT-CAAAGTTTTG
*
46931152 CTACAAAGGTTGTCCTTT
1 CCACAAAGGTTGTCCTTT
46931170 AACATGTTCG
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
27 3 0.03
28 39 0.38
29 56 0.55
30 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (28 bp):
CCACAAAGGTTGTCCTTTCAAAGTTTTG
Found at i:46931186 original size:114 final size:114
Alignment explanation
Indices: 46930924--46931213 Score: 280
Period size: 114 Copynumber: 2.6 Consensus size: 114
46930914 TCCAGATATA
* * * ** * * * *
46930924 GCCACAAAGG-TGTCCTTTAAAAGGTTCTCCATGAAGGCTTACACTTT-CGGAGTTCTGCCACAA
1 GCCACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTGC-CTTTCCAGAGTTTTACCACAA
***
46930987 ACGTCATCCTTAAACAGGTTCACCACAAAGGTTTGCCTTTCCAGAATTTT
65 ACGTTGCCCTTAAACAGGTTCACCACAAAGGTTTGCCTTTCCAGAATTTT
* * * * * *
46931037 GCCACAAAGGCTATCCTTTTATAGGTTTGCCACAAAGGTTTTCCTTTTCAGAGTTTTACCACAAA
1 GCCACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTGCCTTTCCAGAGTTTTACCACAAA
* * * *
46931102 CGTTGCCCTTTAACATGTTCGCCACAAAGGTTTTCCTTTCCA-AAGTTTT
66 CGTTGCCCTTAAACAGGTTCACCACAAAGGTTTGCCTTTCCAGAA-TTTT
* * * * ** *
46931151 GCTACAAAGGTTGTCCTTTAACATGTTCGTTACAAAGGCTTGCCTTTCCAGAGTTTTGCCACA
1 GCCACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTGCCTTTCCAGAGTTTTACCACA
46931214 GGTTCGCCAC
Statistics
Matches: 142, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
113 16 0.11
114 126 0.89
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (114 bp):
GCCACAAAGGCTATCCTTTAACAGGTTCGCCACAAAGGCTTGCCTTTCCAGAGTTTTACCACAAA
CGTTGCCCTTAAACAGGTTCACCACAAAGGTTTGCCTTTCCAGAATTTT
Found at i:46931281 original size:57 final size:57
Alignment explanation
Indices: 46931211--46931324 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
46931201 GAGTTTTGCC
*
46931211 ACAGGTTCGCCACAAAGGCTTGCCTTTCTAAATTTTTGCCACAAAGGCTGTCTTTTT
1 ACAGGTTCGCCACAAAGGCTTGCCTTTCTAAAGTTTTGCCACAAAGGCTGTCTTTTT
* * * *
46931268 ACAGGTTGGCCACAAAGGCTTGCCTTTCTAGAGTTTTGCTACAAAGGTTGTCTTTTT
1 ACAGGTTCGCCACAAAGGCTTGCCTTTCTAAAGTTTTGCCACAAAGGCTGTCTTTTT
46931325 TCTAATGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (57 bp):
ACAGGTTCGCCACAAAGGCTTGCCTTTCTAAAGTTTTGCCACAAAGGCTGTCTTTTT
Found at i:46931284 original size:97 final size:97
Alignment explanation
Indices: 46931118--46931306 Score: 261
Period size: 97 Copynumber: 1.9 Consensus size: 97
46931108 CCTTTAACAT
* * * * * **
46931118 GTTCGCCACAAAGGTTTTCCTTTCCAAAGTTTTGCTACAAAGGTTGTCCTTTAACATGTTCGTTA
1 GTTCGCCACAAAGGCTTGCCTTTCCAAAGTTTTGCCACAAAGGCTGTCCTTTAACAGGTTCGCCA
46931183 CAAAGGCTTGCCTTTCCAGAGTTTTGCCACAG
66 CAAAGGCTTGCCTTTCCAGAGTTTTGCCACAG
* * * * *
46931215 GTTCGCCACAAAGGCTTGCCTTTCTAAATTTTTGCCACAAAGGCTGTCTTTTTACAGGTTGGCCA
1 GTTCGCCACAAAGGCTTGCCTTTCCAAAGTTTTGCCACAAAGGCTGTCCTTTAACAGGTTCGCCA
*
46931280 CAAAGGCTTGCCTTTCTAGAGTTTTGC
66 CAAAGGCTTGCCTTTCCAGAGTTTTGC
46931307 TACAAAGGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 79 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (97 bp):
GTTCGCCACAAAGGCTTGCCTTTCCAAAGTTTTGCCACAAAGGCTGTCCTTTAACAGGTTCGCCA
CAAAGGCTTGCCTTTCCAGAGTTTTGCCACAG
Found at i:46931312 original size:29 final size:29
Alignment explanation
Indices: 46931219--46931322 Score: 113
Period size: 29 Copynumber: 3.7 Consensus size: 29
46931209 CCACAGGTTC
*
46931219 GCCACAAAGGCTTGCCTTTCTAAATTTTT
1 GCCACAAAGGCTTGCCTTTCTAAAGTTTT
* * * * *
46931248 GCCACAAAGGC-TGTCTTTTTACAGGTTG
1 GCCACAAAGGCTTGCCTTTCTAAAGTTTT
*
46931276 GCCACAAAGGCTTGCCTTTCTAGAGTTTT
1 GCCACAAAGGCTTGCCTTTCTAAAGTTTT
* *
46931305 GCTACAAAGG-TTGTCTTT
1 GCCACAAAGGCTTGCCTTT
46931323 TTTCTAATGT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 29 0.48
29 32 0.52
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (29 bp):
GCCACAAAGGCTTGCCTTTCTAAAGTTTT
Found at i:46934296 original size:19 final size:19
Alignment explanation
Indices: 46934272--46934363 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
46934262 AATCTTCAAG
46934272 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46934291 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46934310 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46934329 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46934348 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46934364 AGATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46934316 original size:38 final size:38
Alignment explanation
Indices: 46934272--46934386 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
46934262 AATCTTCAAG
46934272 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
46934310 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
46934348 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
46934387 GATTTAATTT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 51 0.71
41 8 0.11
42 13 0.18
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:46937444 original size:21 final size:21
Alignment explanation
Indices: 46937418--46937457 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
46937408 TGAATTGCCA
46937418 AAATGGCTCGAAGAAAAGTAT
1 AAATGGCTCGAAGAAAAGTAT
46937439 AAATGGCTCGAAGAAAAGT
1 AAATGGCTCGAAGAAAAGT
46937458 TTAAGGCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.17
Consensus pattern (21 bp):
AAATGGCTCGAAGAAAAGTAT
Found at i:46939583 original size:11 final size:11
Alignment explanation
Indices: 46939569--46939602 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
46939559 TCAAATTCAA
46939569 AAAAAATGATG
1 AAAAAATGATG
46939580 AAAAAATGATG
1 AAAAAATGATG
46939591 AAAAAATGATG
1 AAAAAATGATG
46939602 A
1 A
46939603 TGGAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (11 bp):
AAAAAATGATG
Found at i:46939632 original size:24 final size:23
Alignment explanation
Indices: 46939605--46939666 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
46939595 AATGATGATG
46939605 GAAAAAAGGAAAAGAAAAAGAAAA
1 GAAAAAAGGAAAAGAAAAAG-AAA
*
46939629 GAAAAAAGAAAAAGAAAAAGAAA
1 GAAAAAAGGAAAAGAAAAAGAAA
*
46939652 GAAGAAGAGGAAAAG
1 GAA-AAAAGGAAAAG
46939667 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 6 0.18
24 28 0.82
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
GAAAAAAGGAAAAGAAAAAGAAA
Found at i:46939665 original size:18 final size:17
Alignment explanation
Indices: 46939609--46939666 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
46939599 ATGATGGAAA
46939609 AAAGGAAAAGAAA-AAG
1 AAAGGAAAAGAAAGAAG
*
46939625 AAAAG-AAA-AAAGAA-
1 AAAGGAAAAGAAAGAAG
*
46939639 AAAGAAAAAGAAAGAAG
1 AAAGGAAAAGAAAGAAG
46939656 AAGAGGAAAAG
1 AA-AGGAAAAG
46939667 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 10 0.30
17 2 0.06
18 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGGAAAAGAAAGAAG
Found at i:46939665 original size:19 final size:19
Alignment explanation
Indices: 46939614--46939657 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
46939604 GGAAAAAAGG
46939614 AAAAGAAAAAG-AAAAGAA
1 AAAAGAAAAAGAAAAAGAA
46939632 AAAAGAAAAAGAAAAAGAA
1 AAAAGAAAAAGAAAAAGAA
*
46939651 AGAAGAA
1 AAAAGAA
46939658 GAGGAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAAGAA
Found at i:46939668 original size:6 final size:6
Alignment explanation
Indices: 46939607--46939657 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
46939597 TGATGATGGA
*
46939607 AAAAAG GAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAAAAG AAAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA-AAG
46939656 AA
1 AA
46939658 GAGGAAAAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 5 0.12
6 25 0.62
7 10 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46940958 original size:44 final size:44
Alignment explanation
Indices: 46940908--46941049 Score: 232
Period size: 44 Copynumber: 3.2 Consensus size: 44
46940898 CACAAAGCTT
* *
46940908 TATCTCCCTGGTCAGTAGTGGAATATGTTGAAAATTGTAAGTCC
1 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
*
46940952 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
*
46940996 TATTTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAA-TCC
1 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGT-AAGTCC
46941040 TATCTCCCTG
1 TATCTCCCTG
46941050 AGAAACAGTG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 89 0.98
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:46941060 original size:44 final size:44
Alignment explanation
Indices: 46940908--46941071 Score: 224
Period size: 44 Copynumber: 3.7 Consensus size: 44
46940898 CACAAAGCTT
* * *
46940908 TATCTCCCTGGTCAGTAGTGGAATATGTTGAAAATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
46940952 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
46940996 TATTTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAA-TCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
* * *
46941040 TATCTCCCTGAG-AAACAGTGGAGTAGGTTGAA
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
46941072 AATAGCAGAT
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 105 0.97
45 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:46941749 original size:44 final size:43
Alignment explanation
Indices: 46941436--46941907 Score: 259
Period size: 44 Copynumber: 10.9 Consensus size: 43
46941426 AAGATGGCGA
* ** *
46941436 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAA-G
* * * ** *
46941480 ATCCTATCTCCCTGAAGTCGTAGTGGAGTGGATGAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA-AG
* * ** *
46941524 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAAG
* *
46941565 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAAG
* * * * *
46941609 -CCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCGA-
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CAAG
* * * * ** *
46941653 ATCGTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAA-G
* **
46941697 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA-AG
** * * * * *
46941741 ATCTTATCTATCTGAAGTTGCAG-AGAGCA-AATCACATC-GG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAAG
* * * * *
46941781 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGACCTAAGAAAGCGA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA--TTA-AAATCAAG
*
46941826 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAATCAAG
* * *
46941872 -TCTTATC-CCCTTGAAATTGCAGTGGGGCAGACTAAA
1 ATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAA
46941908 TAAACAAATC
Statistics
Matches: 323, Mismatches: 80, Indels: 52
0.71 0.18 0.11
Matches are distributed among these distances:
40 42 0.13
41 14 0.04
42 14 0.04
43 14 0.04
44 144 0.45
45 92 0.28
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAAG
Found at i:46941795 original size:217 final size:218
Alignment explanation
Indices: 46941420--46941864 Score: 664
Period size: 217 Copynumber: 2.0 Consensus size: 218
46941410 TCAATTTAAA
* * **
46941420 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCGTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCT
* *
46941485 ATCTCCCTGAAGTCGTAGTGGAGTGGATGAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGTGGATGAAAATCACAGATCTTATCTATCTGAAGTTGCAGAGA
* ** * * *
46941550 GCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGC-AAGCCTT
131 GCAAATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACCTAAGAAAGCGAA-CCTT
*
46941613 ATC-CTCCTGAAGTTGTAGT-GAGGC
195 ATCTC-CCTGAAGTTGCAGTGGA-GC
*
46941637 AGACTGAAGATGGCGAATCGTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCGTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCT
* *
46941702 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTATCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGTGGATGAAAATCACAGATCTTATCTATCTGAAGTTGCAGAGA
* *
46941767 GCAAATCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACCTAAGAAAGCGAATCTTA
131 GCAAATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACCTAAGAAAGCGAACCTTA
46941832 TCTCCCTGAAGTTGCAGTGGAGC
196 TCTCCCTGAAGTTGCAGTGGAGC
*
46941855 AGACTCAAGA
1 AGACTGAAGA
46941865 AATCAAGTCT
Statistics
Matches: 205, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
217 161 0.79
218 39 0.19
219 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (218 bp):
AGACTGAAGATGGCGAATCGTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTCGCAGTGGAGTGGATGAAAATCACAGATCTTATCTATCTGAAGTTGCAGAGA
GCAAATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACCTAAGAAAGCGAACCTTA
TCTCCCTGAAGTTGCAGTGGAGC
Found at i:46941902 original size:45 final size:47
Alignment explanation
Indices: 46941781--46941904 Score: 168
Period size: 45 Copynumber: 2.7 Consensus size: 47
46941771 ATCACATCGG
*
46941781 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGAC-CTAAGAAAGCGAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCTAAGAAAGCGAA
*
46941827 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTC-AAGAAATC-AA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCTAAGAAAGCGAA
* *
46941871 GTCTTATC-CCCTTGAAATTGCAGTGGGGCAGACT
1 GTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACT
46941905 AAATAAACAA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
44 5 0.07
45 65 0.92
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (47 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCTAAGAAAGCGAA
Found at i:46942477 original size:19 final size:19
Alignment explanation
Indices: 46942453--46942525 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
46942443 AATATTCAAG
*
46942453 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
*
46942472 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46942491 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46942510 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46942526 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46942779 original size:23 final size:23
Alignment explanation
Indices: 46942748--46942793 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46942738 CTTGTTCTTA
* *
46942748 TTTTGTTGATTTGTGTATAATTT
1 TTTTATTGATTTGTATATAATTT
*
46942771 TTTTATTGATTTGTATATTATTT
1 TTTTATTGATTTGTATATAATTT
46942794 CTAATGAATA
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:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (23 bp):
TTTTATTGATTTGTATATAATTT
Found at i:46946509 original size:14 final size:15
Alignment explanation
Indices: 46946468--46946511 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
46946458 TCAAGATAAG
46946468 TATTAAATTTAATTTAA
1 TATTAAATTT-A-TTAA
46946485 TATTAAATTTATTAA
1 TATTAAATTTATTAA
*
46946500 -ATTAATTTTATT
1 TATTAAATTTATT
46946512 TTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.42
15 4 0.15
16 1 0.04
17 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTAAATTTATTAA
Found at i:46950484 original size:27 final size:26
Alignment explanation
Indices: 46950445--46950747 Score: 338
Period size: 27 Copynumber: 11.3 Consensus size: 26
46950435 TGAGGTCGAT
*
46950445 AAATGACCAAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCC-CGTAGGGTA
*
46950472 AAATGATCGAAATACCCCGTAGGGTA
1 AAATGACCGAAATACCCCGTAGGGTA
46950498 AAATGACCGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCC-CGTAGGGTA
** * *
46950525 AAATGATTGAAACACCCCCGTAAGGTA
1 AAATGACCGAAATA-CCCCGTAGGGTA
*
46950552 AAATGATCGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATA-CCCCGTAGGGTA
*
46950579 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-GTAGGGTA
* *
46950606 AAATAACC-AAGATACCCCTATAGGGTA
1 AAATGACCGAA-ATACCCC-GTAGGGTA
* * *
46950633 AAATGACCGAGATACCCCTATAGGATA
1 AAATGACCGAAATACCCC-GTAGGGTA
* *
46950660 AAATGATCAAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCC-CGTAGGGTA
46950687 AAATGACCGAAATATCCCCGTAGGGTA
1 AAATGACCGAAATA-CCCCGTAGGGTA
* **
46950714 AAATGATCGAAATACCCTCACAGGGTA
1 AAATGACCGAAATACCC-CGTAGGGTA
46950741 AAATGAC
1 AAATGAC
46950748 TATTATACCC
Statistics
Matches: 241, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
26 34 0.14
27 199 0.83
28 8 0.03
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (26 bp):
AAATGACCGAAATACCCCGTAGGGTA
Found at i:46950986 original size:26 final size:26
Alignment explanation
Indices: 46950911--46950988 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
46950901 TGGAGGAAGT
* *
46950911 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
46950937 ATACTATTACTGGTAGCTTCGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
46950963 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
46950989 TTATTGGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:46951202 original size:28 final size:28
Alignment explanation
Indices: 46951099--46951215 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
46951089 ACTATACCGA
* *
46951099 TACTGTATTGGGCTAAGGCTCGCATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* **
46951127 TACTGTATTAGGCTAAGGAACACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
46951155 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
46951183 TACTGTATTGGGCTAAGGCCTACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
46951210 TACTGT
1 TACTGT
46951216 TACTGAATAG
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 6 0.08
28 74 0.93
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:46952940 original size:50 final size:50
Alignment explanation
Indices: 46952795--46952940 Score: 213
Period size: 51 Copynumber: 2.9 Consensus size: 50
46952785 TTAAAGATAC
46952795 AAACTTTAACTAACA-GTAGAGTTACATAATGCATGTCATTATTTATGATGA
1 AAAC-TTAACTAACATG-AGAGTTACATAATGCATGTCATTATTTATGATGA
* *
46952846 AAACTTAACTAATCATAAGAGTTACATAATGCATGTCATTATTTATGATGC
1 AAACTTAACTAA-CATGAGAGTTACATAATGCATGTCATTATTTATGATGA
* * *
46952897 ATACTTAACTAACATGAGAGTCACATAATGCATGTCATAATTTA
1 AAACTTAACTAACATGAGAGTTACATAATGCATGTCATTATTTA
46952941 AAAGATGTAG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 37 0.43
51 50 0.57
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (50 bp):
AAACTTAACTAACATGAGAGTTACATAATGCATGTCATTATTTATGATGA
Found at i:46959709 original size:4 final size:4
Alignment explanation
Indices: 46959702--46959732 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
46959692 TTGTTATTTA
46959702 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
46959733 AATTTTTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:46965174 original size:39 final size:39
Alignment explanation
Indices: 46965079--46965174 Score: 129
Period size: 39 Copynumber: 2.5 Consensus size: 39
46965069 TCAATAGTAG
* * *
46965079 AATAATTCATTTCAGCATTATTTAAACTTTTACTTGTGT
1 AATAATTCATTTAAGTACTATTTAAACTTTTACTTGTGT
* *
46965118 AAAAATTCATTTAAGTACTATTTAAAGTTTTACTTGTGT
1 AATAATTCATTTAAGTACTATTTAAACTTTTACTTGTGT
* *
46965157 AATAATTCACTTGAGTAC
1 AATAATTCATTTAAGTAC
46965175 ACATTACTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (39 bp):
AATAATTCATTTAAGTACTATTTAAACTTTTACTTGTGT
Found at i:46971018 original size:76 final size:76
Alignment explanation
Indices: 46970905--46971134 Score: 309
Period size: 76 Copynumber: 3.0 Consensus size: 76
46970895 CGTTGGGTGC
* * * *
46970905 AACTCATTGTTGGTACATCCAACTAGCGCTAGGCACACATTTGATATCGTCGGTTTACCCGAATA
1 AACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTATCCGACTA
46970970 GCGCTAGGCGT
66 GCGCTAGGCGT
*
46970981 AACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCAGTTTATCCGACTA
1 AACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTATCCGACTA
**
46971046 GCGCTAGGCAC
66 GCGCTAGGCGT
* ** * * *
46971057 AACTCATTGTCGGTTTAT-TAGACTAGTGCTGAGCACACATTTGATATCGTTGGTTTATCCGACT
1 AACTCATTGTTGGTACATCCA-ACTAGTGCTGGGCACACATTTGATATCGTCGGTTTATCCGACT
* *
46971121 AGCACTAGGGGT
65 AGCGCTAGGCGT
46971133 AA
1 AA
46971135 AACTTTTTTA
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
75 1 0.01
76 134 0.99
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (76 bp):
AACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTATCCGACTA
GCGCTAGGCGT
Found at i:46971057 original size:40 final size:40
Alignment explanation
Indices: 46970921--46971129 Score: 157
Period size: 40 Copynumber: 5.4 Consensus size: 40
46970911 TTGTTGGTAC
*
46970921 ATCCAACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
1 ATCCGACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
* * ** * * * **
46970961 ACCCGAATAGCGCTAGGCGTA-A-CTCAT-T-GTTGGTAC
1 ATCCGACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
* * * *
46970997 ATCCAACTAGTGCTGGGCACACATTTGATATCGTCAGTTT
1 ATCCGACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
* *
46971037 ATCCGACTAGCGCTAGGCACA-A-CTCAT-T-GTCGGTTT
1 ATCCGACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
** * *
46971073 ATTAGACTAGTGCT-GAGCACACATTTGATATCGTTGGTTT
1 ATCCGACTAGCGCTAG-GCACACATTTGATATCGTCGGTTT
*
46971113 ATCCGACTAGCACTAGG
1 ATCCGACTAGCGCTAGG
46971130 GGTAAAACTT
Statistics
Matches: 120, Mismatches: 39, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
35 1 0.01
36 42 0.35
37 4 0.03
38 12 0.10
39 4 0.03
40 56 0.47
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (40 bp):
ATCCGACTAGCGCTAGGCACACATTTGATATCGTCGGTTT
Found at i:46974488 original size:33 final size:33
Alignment explanation
Indices: 46974400--46974522 Score: 124
Period size: 33 Copynumber: 3.7 Consensus size: 33
46974390 CGTATATATG
* ** *
46974400 TAAGGCCATAGCTGGGCTATATCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * * *
46974433 TAAGACCATGGTTGGACCATGGCAGTGT-TTAT-A
1 TAAGACCATAGCTGGGCTATGGCA-T-TCTAATGA
46974466 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
*
46974499 TAAGACCATAGCTGGGCTACGGCA
1 TAAGACCATAGCTGGGCTATGGCA
46974523 CTATGAACGT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
31 1 0.01
32 4 0.06
33 62 0.86
34 4 0.06
35 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTAATGA
Found at i:46974500 original size:66 final size:68
Alignment explanation
Indices: 46974365--46974507 Score: 209
Period size: 66 Copynumber: 2.1 Consensus size: 68
46974355 TATTCAAACG
* * * * *
46974365 TAAGACCATGGTTGGACCATGGTAGCGTATATATGTAAGGCCATAGCTGGGCTATATCATTCTGA
1 TAAGACCATGGTTGGACCATGGCAGCGTATATATATAAGACCATAGCTGGGCTATAGCATTCTAA
46974430 TGA
66 TGA
* *
46974433 TAAGACCATGGTTGGACCATGGCAGTGT-T-TATATAAGACCATAGCTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGCAGCGTATATATATAAGACCATAGCTGGGCTATAGCATTCTAA
46974496 TGA
66 TGA
46974499 TAAGACCAT
1 TAAGACCAT
46974508 AGCTGGGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 41 0.60
67 1 0.01
68 26 0.38
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (68 bp):
TAAGACCATGGTTGGACCATGGCAGCGTATATATATAAGACCATAGCTGGGCTATAGCATTCTAA
TGA
Found at i:46974536 original size:33 final size:33
Alignment explanation
Indices: 46974465--46974539 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
46974455 CAGTGTTTAT
* * * *
46974465 ATAAGACCATAGCTGGGCTATGGCATTCTAATG
1 ATAAGACCATAGCTGGGCTACGGCACTATAACG
46974498 ATAAGACCATAGCTGGGCTACGGCACTATGAACG
1 ATAAGACCATAGCTGGGCTACGGCACTAT-AACG
46974532 -TAAGACCA
1 ATAAGACCA
46974540 CGGCACTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 34 0.92
34 3 0.08
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (33 bp):
ATAAGACCATAGCTGGGCTACGGCACTATAACG
Found at i:46976714 original size:50 final size:50
Alignment explanation
Indices: 46976656--46976800 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
46976646 TATTAAGGTT
* * *
46976656 ATGAGAGGTCTCACGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGATATGGCATTGGCACCGAG
* * * *
46976706 ATGAGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGATATGGCATTGGCACCGAG
** * *
46976756 ATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
46976801 GTACAGGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGATATGGCATTGGCACCGAG
Found at i:46982656 original size:13 final size:14
Alignment explanation
Indices: 46982627--46982658 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
46982617 GTCCCAAAAT
46982627 TCGGGTTAGTAGAA
1 TCGGGTTAGTAGAA
46982641 TCGGGTTAGT-GAA
1 TCGGGTTAGTAGAA
46982654 TCGGG
1 TCGGG
46982659 AGTTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.41, T:0.28
Consensus pattern (14 bp):
TCGGGTTAGTAGAA
Found at i:46991687 original size:13 final size:15
Alignment explanation
Indices: 46991659--46991690 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
46991649 CAAACTGAAC
46991659 TGAACAGCCATGGTG
1 TGAACAGCCATGGTG
46991674 TGAACAG-C-TGGTG
1 TGAACAGCCATGGTG
46991687 TGAA
1 TGAA
46991691 AACAATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (15 bp):
TGAACAGCCATGGTG
Found at i:46992242 original size:10 final size:10
Alignment explanation
Indices: 46992227--46992275 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
46992217 ACGAGCTCAA
46992227 TGAGCTGAAT
1 TGAGCTGAAT
46992237 TGAGCTCGAA-
1 TGAGCT-GAAT
*
46992247 TGAGCTGACT
1 TGAGCTGAAT
* *
46992257 TGAGCTCAAG
1 TGAGCTGAAT
46992267 TGAGCTGAA
1 TGAGCTGAA
46992276 CCAAGGACGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:46992248 original size:20 final size:19
Alignment explanation
Indices: 46992219--46992275 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
46992209 AGCTAATAAC
46992219 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
*
46992238 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
46992258 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
46992276 CCAAGGACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:46995726 original size:19 final size:20
Alignment explanation
Indices: 46995694--46995738 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
46995684 AGCCTGTTGT
**
46995694 AATATTTTGTTTTATT-TTA
1 AATATTTTCCTTTATTCTTA
46995713 AATATTTTCCTTTATTCTTA
1 AATATTTTCCTTTATTCTTA
*
46995733 GATATT
1 AATATT
46995739 CAATCTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (20 bp):
AATATTTTCCTTTATTCTTA
Found at i:46998167 original size:14 final size:14
Alignment explanation
Indices: 46998148--46998187 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
46998138 AGGATTATTG
46998148 CATAAAAGGTTAAT
1 CATAAAAGGTTAAT
46998162 CATAAAAGGTTAAT
1 CATAAAAGGTTAAT
46998176 CATAAAAGGTTA
1 CATAAAAGGTTA
46998188 TGTCGAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (14 bp):
CATAAAAGGTTAAT
Found at i:47000821 original size:92 final size:90
Alignment explanation
Indices: 47000618--47000858 Score: 283
Period size: 89 Copynumber: 2.7 Consensus size: 90
47000608 TGTACCAACA
* * * * *
47000618 AGCTCTCAACATACATGCACAATCGGGTGCATGTTCTTCTTTAAAGTAGCTTCGTTG-ATCTAGA
1 AGCTCCCAACATTCATGCACAATTGGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAGA
* *
47000682 AGATACAGTATGTCCAGCTAAAAAC
66 AGATACAGAATGTCCAACTAAAAAC
* *
47000707 AGCTCCCAACATTCATGCACAATTAGATGCATGTTCTTCATTAAAGTAGCTTCATTGAATCT-GA
1 AGCTCCCAACATTCATGCACAATTGGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAG-
*
47000771 AAGATACATGAATGTCCAACTGAAAAAT
65 AAGATACA-GAATGTCCAACT-AAAAAC
* ** * *
47000799 AGCTCCCGAA-ATTCATGCACAATTGGGTGCATGCTCCACATTAATG-AGCTTCAATGAATC
1 AGCTCCC-AACATTCATGCACAATTGGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATC
47000859 AGCATGGTGC
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
89 51 0.39
90 12 0.09
91 23 0.18
92 42 0.32
93 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (90 bp):
AGCTCCCAACATTCATGCACAATTGGGTGCATGTTCTTCATTAAAGTAGCTTCATTGAATCTAGA
AGATACAGAATGTCCAACTAAAAAC
Found at i:47004079 original size:21 final size:21
Alignment explanation
Indices: 47004055--47004097 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47004045 GCTTTTATTC
*
47004055 AAAACATACAA-TTTAATGGCT
1 AAAA-ATACAATTTTAAAGGCT
*
47004076 AAAAATTCAATTTTAAAGGCT
1 AAAAATACAATTTTAAAGGCT
47004097 A
1 A
47004098 GATAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAAATACAATTTTAAAGGCT
Found at i:47006128 original size:18 final size:20
Alignment explanation
Indices: 47006105--47006141 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
47006095 AGGTTGTAAT
47006105 CTAAGTT-CAACC-TACTCA
1 CTAAGTTGCAACCTTACTCA
47006123 CTAAGTTGCAACCTTACTC
1 CTAAGTTGCAACCTTACTC
47006142 CTATGCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (20 bp):
CTAAGTTGCAACCTTACTCA
Found at i:47009842 original size:13 final size:13
Alignment explanation
Indices: 47009824--47009888 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
47009814 TAGATTTTTC
47009824 TTAAATATTATCA
1 TTAAATATTATCA
47009837 TTAAATA--ATC-
1 TTAAATATTATCA
47009847 TTAAATATTATCA
1 TTAAATATTATCA
* *
47009860 CTAAATAAT-TC-
1 TTAAATATTATCA
47009871 -TAAATATTATCA
1 TTAAATATTATCA
47009883 TTAAAT
1 TTAAAT
47009889 CAAATCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 14 0.33
11 5 0.12
12 5 0.12
13 19 0.44
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAATATTATCA
Found at i:47009849 original size:23 final size:23
Alignment explanation
Indices: 47009822--47009888 Score: 109
Period size: 23 Copynumber: 2.9 Consensus size: 23
47009812 GCTAGATTTT
47009822 TCTTAAATATTATCATTAAATAA
1 TCTTAAATATTATCATTAAATAA
*
47009845 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCATTAAATAA
47009868 T-TCTAAATATTATCATTAAAT
1 TCT-TAAATATTATCATTAAAT
47009889 CAAATCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.43
Consensus pattern (23 bp):
TCTTAAATATTATCATTAAATAA
Found at i:47009898 original size:23 final size:23
Alignment explanation
Indices: 47009825--47009898 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 23
47009815 AGATTTTTCT
47009825 TAAATATTATCATTAAAT-AATC
1 TAAATATTATCATTAAATAAATC
* *
47009847 TTAAATATTATCACTAAATAATTC
1 -TAAATATTATCATTAAATAAATC
47009871 TAAATATTATCATTAAATCAAATC
1 TAAATATTATCATTAAAT-AAATC
47009895 -AAAT
1 TAAAT
47009899 CAAACTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 38 0.84
24 7 0.16
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTATCATTAAATAAATC
Found at i:47013728 original size:14 final size:14
Alignment explanation
Indices: 47013709--47013737 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47013699 GAGGCATAAC
47013709 TGTTATGGAATTTG
1 TGTTATGGAATTTG
47013723 TGTTATGGAATTTG
1 TGTTATGGAATTTG
47013737 T
1 T
47013738 TTTTTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TGTTATGGAATTTG
Found at i:47016873 original size:45 final size:45
Alignment explanation
Indices: 47016809--47016898 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
47016799 GGGAAGATAG
47016809 TTATTACTTAGGCTTCCTTTGGATTCAAACACAACACAATGCGTT
1 TTATTACTTAGGCTTCCTTTGGATTCAAACACAACACAATGCGTT
* * *
47016854 TTATTATTTAGGCTTCCTTTGGATTTAAGCACAACACAATGCGTT
1 TTATTACTTAGGCTTCCTTTGGATTCAAACACAACACAATGCGTT
47016899 GAAAATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (45 bp):
TTATTACTTAGGCTTCCTTTGGATTCAAACACAACACAATGCGTT
Found at i:47030724 original size:2 final size:2
Alignment explanation
Indices: 47030712--47030748 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
47030702 ATGTTAGTGA
47030712 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47030749 GGTTTTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47045053 original size:6 final size:6
Alignment explanation
Indices: 47045023--47045091 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
47045013 ATAAGTCTAC
* * * * *
47045023 AAAAAT AACAAT -AAAA- ACAACT AAAAAT AAAAAT AAACAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
47045069 AAAATAA AAAAAT AAAAAG AAAA
1 AAAA-AT AAAAAT AAAAAT AAAA
47045092 CAAATAAACT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
5 5 0.10
6 39 0.80
7 5 0.10
ACGTcount: A:0.78, C:0.07, G:0.01, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:47046656 original size:12 final size:11
Alignment explanation
Indices: 47046635--47046682 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
47046625 CAAATGAAGC
47046635 ATAATAATAAA
1 ATAATAATAAA
47046646 ATAATTAATAAA
1 ATAA-TAATAAA
*
47046658 ATACTAA-ATAA
1 ATAATAATA-AA
47046669 ATAA-AATAAA
1 ATAATAATAAA
47046679 ATAA
1 ATAA
47046683 AGAAAGGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
12 10 0.31
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:47071200 original size:32 final size:31
Alignment explanation
Indices: 47071164--47071230 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
47071154 ATTAACATAT
* *
47071164 TAAATTTTAATTAATTTTATAATAAATTTTCA
1 TAAATTTTAATTAATTTT-CAATAAATTTACA
* * *
47071196 TAAATTTTGATTTATTTTCAATAGATTTACA
1 TAAATTTTAATTAATTTTCAATAAATTTACA
47071227 TAAA
1 TAAA
47071231 GGGTGAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (31 bp):
TAAATTTTAATTAATTTTCAATAAATTTACA
Found at i:47075088 original size:24 final size:24
Alignment explanation
Indices: 47075056--47075101 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47075046 AAAAATTAAC
47075056 TTAACATATTTATTTTCCATCATT
1 TTAACATATTTATTTTCCATCATT
47075080 TTAACATATTTATTTTCCATCA
1 TTAACATATTTATTTTCCATCA
47075102 ATCGTACGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAACATATTTATTTTCCATCATT
Found at i:47076393 original size:13 final size:13
Alignment explanation
Indices: 47076377--47076401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47076367 TAATTGGATA
47076377 AATTAATTAATTT
1 AATTAATTAATTT
47076390 AATTAATTAATT
1 AATTAATTAATT
47076402 AAACTATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:47085584 original size:46 final size:46
Alignment explanation
Indices: 47085517--47085655 Score: 179
Period size: 47 Copynumber: 3.0 Consensus size: 46
47085507 AATACATACT
* * *
47085517 GATGCCATAGCCCAGCTATGGTCTTACACGGATCGCATATCACACA
1 GATGCCATATCCCAGATATGGTCTTACACGGATCACATATCACACA
* * * *
47085563 GATGCCATATCCCAAATATGGTCTTACACAGTAGCACATATCACACT
1 GATGCCATATCCCAGATATGGTCTTACAC-GGATCACATATCACACA
*
47085610 GATGCCATATCCCAGATATGGTCTTATACGGAAATCACATATCACA
1 GATGCCATATCCCAGATATGGTCTTACACGG--ATCACATATCACA
47085656 TGTTGCCATG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 27 0.34
47 40 0.51
48 12 0.15
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTACACGGATCACATATCACACA
Found at i:47087095 original size:16 final size:16
Alignment explanation
Indices: 47087070--47087106 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47087060 ATCATGATAT
*
47087070 TTACTTTCTTCTTTAC
1 TTACTCTCTTCTTTAC
*
47087086 TTACTCTCTTGTTTAC
1 TTACTCTCTTCTTTAC
47087102 TTACT
1 TTACT
47087107 TGCTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.03, T:0.59
Consensus pattern (16 bp):
TTACTCTCTTCTTTAC
Found at i:47096383 original size:74 final size:74
Alignment explanation
Indices: 47096262--47096404 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
47096252 TGGACATTCG
* * *
47096262 AAATAGGGACACACGGTCGTGTTCTAGCCCGTGTCCATACCCGTGTGGGTATACTGACTTGTGAC
1 AAATAAGGACACACGGTCATGTTCTAGCCCGTGTCCATACCCGTGTGGGTATACTAACTTGTGAC
47096327 ACACGTTCA
66 ACACGTTCA
* *
47096336 AAATAAGGACACACGGTCATGTTCTAGCCCGTGTCCATGCCCTTGTGGGTATACTAACTTGTGAC
1 AAATAAGGACACACGGTCATGTTCTAGCCCGTGTCCATACCCGTGTGGGTATACTAACTTGTGAC
47096401 ACAC
66 ACAC
47096405 AGCCAAGCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (74 bp):
AAATAAGGACACACGGTCATGTTCTAGCCCGTGTCCATACCCGTGTGGGTATACTAACTTGTGAC
ACACGTTCA
Found at i:47102433 original size:20 final size:20
Alignment explanation
Indices: 47102408--47102445 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47102398 CGAAAAATGA
47102408 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47102428 TTTCTGGAAAATGATTTA
1 TTTCTGGAAAATGATTTA
47102446 TTGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47102570 original size:20 final size:20
Alignment explanation
Indices: 47102545--47102583 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47102535 GTTTTTACAT
47102545 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
47102565 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
47102584 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:47103210 original size:2 final size:2
Alignment explanation
Indices: 47103203--47103229 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47103193 AACATAAGAA
47103203 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
47103230 AGAAGTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47105507 original size:13 final size:13
Alignment explanation
Indices: 47105489--47105513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47105479 GGTTACTAAT
47105489 TTTATTTTATTTA
1 TTTATTTTATTTA
47105502 TTTATTTTATTT
1 TTTATTTTATTT
47105514 GATATTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:47105521 original size:20 final size:18
Alignment explanation
Indices: 47105487--47105525 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
47105477 ACGGTTACTA
47105487 ATTTTATTTTATTTATTT
1 ATTTTATTTTATTTATTT
47105505 ATTTTATTTGATATTTATTT
1 ATTTTATTT--TATTTATTT
47105525 A
1 A
47105526 ATTATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTATTTTATTTATTT
Found at i:47110694 original size:13 final size:12
Alignment explanation
Indices: 47110671--47110728 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 12
47110661 ATATTTCAAA
*
47110671 AAAAAAAGAAAG
1 AAAAGAAGAAAG
47110683 AAGAAGAAGAAAAG
1 AA-AAGAAG-AAAG
*
47110697 ATAAAGAAAAAAG
1 A-AAAGAAGAAAG
47110710 AAAAAGAAGAAA-
1 -AAAAGAAGAAAG
47110722 AAAAGAA
1 AAAAGAA
47110729 ATGAAAGGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.18
12 2 0.05
13 18 0.46
14 11 0.28
15 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (12 bp):
AAAAGAAGAAAG
Found at i:47110726 original size:24 final size:23
Alignment explanation
Indices: 47110669--47110729 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
47110659 GAATATTTCA
* *
47110669 AAAAAAAAAGAAAGAAGAAGAAG
1 AAAAAAAAAGAAAAAAGAAAAAG
*
47110692 AAAAGATAAAGAAAAAAGAAAAAG
1 AAAA-AAAAAGAAAAAAGAAAAAG
47110716 AAGAAAAAAAGAAA
1 AA-AAAAAAAGAAA
47110730 TGAAAGGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.81
25 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAAGAAAAAG
Found at i:47111724 original size:24 final size:24
Alignment explanation
Indices: 47111667--47111724 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
47111657 ATGTCCCAAA
*
47111667 ATTACAGTGAACTAAACCTTGAAG
1 ATTACAGTGGACTAAACCTTGAAG
* * *
47111691 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGACTAAACCTTGAAG
47111715 ATTACAGTGG
1 ATTACAGTGG
47111725 GGGCAATCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGACTAAACCTTGAAG
Found at i:47121110 original size:15 final size:16
Alignment explanation
Indices: 47121086--47121123 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
47121076 TTTCTGTCCA
47121086 TTTTCATTTTATTATT
1 TTTTCATTTTATTATT
* *
47121102 TTTTC-TTTTTTTCTT
1 TTTTCATTTTATTATT
47121117 TTTTCAT
1 TTTTCAT
47121124 AAACTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCATTTTATTATT
Found at i:47121941 original size:13 final size:13
Alignment explanation
Indices: 47121923--47121947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47121913 GGTTACTAAT
47121923 TTTATTTTATTTA
1 TTTATTTTATTTA
47121936 TTTATTTTATTT
1 TTTATTTTATTT
47121948 GATATTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:47121955 original size:20 final size:18
Alignment explanation
Indices: 47121921--47121959 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
47121911 ACGGTTACTA
47121921 ATTTTATTTTATTTATTT
1 ATTTTATTTTATTTATTT
47121939 ATTTTATTTGATATTTATTT
1 ATTTTATTT--TATTTATTT
47121959 A
1 A
47121960 ATTATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTATTTTATTTATTT
Found at i:47123191 original size:29 final size:30
Alignment explanation
Indices: 47123154--47123210 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47123144 TTCGAGCCTT
*
47123154 GGGGAAAAAT-GTAATTATGCAAAAGTTTA
1 GGGGAAAAATCGTAATTATGAAAAAGTTTA
* *
47123183 GGGGCAAAATCGTAATTTTGAAAAAGTT
1 GGGGAAAAATCGTAATTATGAAAAAGTT
47123211 AGATTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGGAAAAATCGTAATTATGAAAAAGTTTA
Found at i:47123622 original size:50 final size:50
Alignment explanation
Indices: 47123547--47123788 Score: 403
Period size: 50 Copynumber: 4.8 Consensus size: 50
47123537 ATTTGGGTAA
47123547 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*
47123597 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
47123647 ATAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*
47123697 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** *
47123747 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47123789 TTTTATGATC
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 179 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:47127127 original size:3 final size:3
Alignment explanation
Indices: 47127121--47127154 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
47127111 ATAGTAACGA
*
47127121 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47127155 GGAATAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:47128909 original size:44 final size:43
Alignment explanation
Indices: 47128859--47129143 Score: 213
Period size: 44 Copynumber: 6.6 Consensus size: 43
47128849 ATGTGATCTA
* * *
47128859 CTCTACTGTAACTTCAGAGAGATAAGATCTATCATTTTAATCCG
1 CTCTACTGCAACTTCAGGGAGATAAGATCTGTC-TTTTAATCCG
* * * *
47128903 CTCTACTGCAACTTCAGGGAGATAGGAT-TGGCTTATTCAGTCTG
1 CTCTACTGCAACTTCAGGGAGATAAGATCTGTCTT-TT-AATCCG
* * *
47128947 CTCCACTGTAACTTCAGGGAGATAAGA-CTTGTGGTTTTAATCCG
1 CTCTACTGCAACTTCAGGGAGATAAGATC-TGT-CTTTTAATCCG
* ** **
47128991 CTCTACTGCAACTTCAGGGAGATAGGAT-TGGT-TTCTTCTGTCTA
1 CTCTACTGCAACTTCAGGGAGATAAGATCT-GTCTT-TT-AATCCG
* * ** *** *
47129035 TTCCACTGCAACTTCAGGGAGATAAGAT-TG-GATGCGATCTG
1 CTCTACTGCAACTTCAGGGAGATAAGATCTGTCTTTTAATCCG
* *
47129076 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCG
1 CTCTACTGCAACTTCAGGGAGATAAGATCTGT-CTTTTAATCCG
*
47129120 CTCCACTGCAACTTCAGGGAGATA
1 CTCTACTGCAACTTCAGGGAGATA
47129144 GGATTGGTTT
Statistics
Matches: 187, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
41 28 0.15
42 6 0.03
43 9 0.05
44 138 0.74
45 4 0.02
46 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGGGAGATAAGATCTGTCTTTTAATCCG
Found at i:47129012 original size:88 final size:84
Alignment explanation
Indices: 47128863--47129153 Score: 307
Period size: 88 Copynumber: 3.4 Consensus size: 84
47128853 GATCTACTCT
* * **
47128863 ACTGTAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCTACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGAT-T-TGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAG
47128928 GATTGGCTTATTCAGTCTGCTCC
64 GATTGG-TT-TTCAGTCTGCTCC
*
47128951 ACTGTAACTTCAGGGAGATAAGACTTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGA-TT-TGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAG
* **
47129016 GATTGGTTTCTTCTGTCTATTCC
64 GATTGG-TT-TTCAGTCTGCTCC
* *** * * *
47129039 ACTGCAACTTCAGGGAGATAAGA-TTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGATTTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGA
* * *
47129103 TCTGTGTTTTTAATCCGCTCC
66 T-TG-GTTTTCAGTCTGCTCC
*
47129124 ACTGCAACTTCAGGGAGATAGGA-TTGGTTT
1 ACTGCAACTTCAGGGAGATAAGATTTGGTTT
47129154 CTTCTGTCTG
Statistics
Matches: 174, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
85 68 0.39
86 5 0.03
87 1 0.01
88 99 0.57
89 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (84 bp):
ACTGCAACTTCAGGGAGATAAGATTTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGA
TTGGTTTTCAGTCTGCTCC
Found at i:47129130 original size:129 final size:129
Alignment explanation
Indices: 47128907--47129272 Score: 502
Period size: 129 Copynumber: 2.8 Consensus size: 129
47128897 AATCCGCTCT
* * * *
47128907 ACTGCAACTTCAGGGAGATAGGATTGGCTTATTC-AGTCTGCTCCACTGTAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTGG---ATGCGA-TCTGCTCTACTGTAACTTCAGAGAGATA
*
47128971 AGA-CTTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTA
62 AGATC-TGTGTTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTA
*
47129035 TTCC
126 CTCC
*
47129039 ACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
* *
47129104 CTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
66 CTGTGTTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCC
* * * * * * *
47129168 ACTACAACTTCAGGGAGATAAAACTGGATGCGATCTGTTCTACTTTAACTTAAGAGAGACAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
* * *
47129233 CTGTGTTTTTAATCCGTTCTACTGCAACTTGAAGGAGATA
66 CTGTGTTTTTAATCCGCTCTACTGCAACTTCAGGGAGATA
47129273 AGACTTGTTG
Statistics
Matches: 211, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
129 183 0.87
130 2 0.01
132 26 0.12
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (129 bp):
ACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
CTGTGTTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCC
Found at i:47129167 original size:44 final size:43
Alignment explanation
Indices: 47128902--47129188 Score: 278
Period size: 44 Copynumber: 6.6 Consensus size: 43
47128892 ATTTTAATCC
* * *
47128902 GCTCTACTGCAACTTCAGGGAGATAGGATTGGCTTATTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTTTTCAGTCT
* * * *
47128946 GCTCCACTGTAACTTCAGGGAGATAAGACTTGTGGTTTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTG-GTTTTTCAGTCT
* * *
47128990 GCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCAGTCT
** * *
47129034 ATTCCACTGCAACTTCAGGGAGATAAGATTGG--ATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCAG-TCT
* * * *
47129075 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTTTCAGTCT
* *
47129119 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCAGTCT
*
47129163 GCTCCACTACAACTTCAGGGAGATAA
1 GCTCCACTGCAACTTCAGGGAGATAA
47129189 AACTGGATGC
Statistics
Matches: 195, Mismatches: 36, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 30 0.15
42 9 0.05
43 10 0.05
44 137 0.70
45 7 0.04
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCAGTCT
Found at i:47129294 original size:129 final size:129
Alignment explanation
Indices: 47128943--47129317 Score: 403
Period size: 129 Copynumber: 2.9 Consensus size: 129
47128933 GCTTATTCAG
* * * * * * *
47128943 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-CTTGTGGTTTTAATCCGCTCTACTGCAACTTCA
1 TCTGCTCTACTGCAACTTAAGAGAGACAAGATC-TGTGTTTTTAATCCGCTCCACTGCAACTTCA
* * * * *** ** * * *
47129007 GGGAGATAGGATTGGTTTCTTCTGTCTATTCCACTGCAACTTCAGGGAGATAAGATTGGATGCGA
65 AGGAGATAAGATTGGTTGCTGCAACCTGCTCCACTACAACTTCAGGGAGATAAAACTGGATGCGA
* * *
47129072 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCTACTGCAACTTAAGAGAGACAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAA
* * * ***
47129137 GGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAAACTGGATGCGA
66 GGAGATAAGATTGGTTGCTGCAACCTGCTCCACTACAACTTCAGGGAGATAAAACTGGATGCGA
* ** * * *
47129201 TCTGTTCTACTTTAACTTAAGAGAGACAAGATCTGTGTTTTTAATCCGTTCTACTGCAACTTGAA
1 TCTGCTCTACTGCAACTTAAGAGAGACAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAA
*
47129266 GGAGATAAGACTT-GTTGCTGCAACCTGCTCCACTACAGCTTCAGGGAGATAA
66 GGAGATAAGA-TTGGTTGCTGCAACCTGCTCCACTACAACTTCAGGGAGATAA
47129318 GGTTTGACAT
Statistics
Matches: 218, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
129 215 0.99
130 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
TCTGCTCTACTGCAACTTAAGAGAGACAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAA
GGAGATAAGATTGGTTGCTGCAACCTGCTCCACTACAACTTCAGGGAGATAAAACTGGATGCGA
Found at i:47129498 original size:44 final size:44
Alignment explanation
Indices: 47129445--47129584 Score: 165
Period size: 44 Copynumber: 3.2 Consensus size: 44
47129435 TCATCATTTT
* * *
47129445 AATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
47129489 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * *
47129533 AATCTGCCCCACTGCAACTTTAGGGGGATAAGACTAGTGGCTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
47129577 AATCTGCT
1 AATCTGCT
47129585 TCCCTACTAC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 77 0.96
45 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:47129609 original size:88 final size:88
Alignment explanation
Indices: 47129453--47129634 Score: 199
Period size: 88 Copynumber: 2.1 Consensus size: 88
47129443 TTAATCCGCT
* * *
47129453 CCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGGAGATAAGACTAGTAGCTTAAATCTGCTCCACTACAACTT-AGGGAGAT
47129518 AAGACTTGT-ATCTTCAATCTGCC
65 AAGACTTGTCATCTTCAATCTGCC
* * * * *
47129541 CCACTGCAACTTTAGGGGGATAAGACTAGTGGCTTAAATCTGCTTCC-CTACTACCTT-GGGAAG
1 CCACTGCAACTTCAAGGAGATAAGACTAGTAGCTTAAATCTGC-TCCACTAC-AACTTAGGG-AG
* * * *
47129604 ATAAGATTTGTCGTCTTCGATCTGCT
63 ATAAGACTTGTCATCTTCAATCTGCC
47129630 CCACT
1 CCACT
47129635 ACTGCCTAGG
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
87 3 0.04
88 52 0.67
89 23 0.29
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (88 bp):
CCACTGCAACTTCAAGGAGATAAGACTAGTAGCTTAAATCTGCTCCACTACAACTTAGGGAGATA
AGACTTGTCATCTTCAATCTGCC
Found at i:47129751 original size:45 final size:45
Alignment explanation
Indices: 47129670--47130252 Score: 431
Period size: 45 Copynumber: 13.0 Consensus size: 45
47129660 TTAGATCTGG
* * * * * **
47129670 TTCGCTGCCAGTATAGGAAGACAAGGTGTGCTATCTTTAATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
* * * * * *
47129715 TTCACTGCCGATATAGGAAGACAAGATCTACAATCTTTGACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
* * * *
47129760 TCCACTGTTCC--T-CAGGGAGACAAGATCTGCTATCTTC-AGTCTAC
1 TTCGCTG--CCAATACAGGAAGACAAGATCTACTATCTTCGA-TCTAC
* *
47129804 TTCGCTACCAATACAGGAAGACAAGA-CATTCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATC-TACTATCTTCGATCTAC
*
47129849 TTCGCTGCCAATACAGGAAGACAAGATCTA-TAATCTTCGACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACT-ATCTTCGATCTAC
* * * *** **
47129894 TCCACTACTGCT-CAGTG-AGACAAGATCTGTTATCTTC-AGTCTAC
1 TTCGCTGCCAATACAG-GAAGACAAGATCTACTATCTTCGA-TCTAC
* * * * * * **
47129938 TTCACTGTCAATATAGAAAGATAAGA-CTTGCTAAT-TTTAATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATC-TACT-ATCTTCGATCTAC
* *
47129983 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTTGATCCAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
* * * * *
47130028 TTCGCTACCAATACAGGAAAATAAGATCTACTACCTTCGACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
* * *
47130073 TTCGCTGCCAATATAGGAAGACAAGATCTACAATCTTCGACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
* ** **** * *
47130118 TCCATTGTTGCT-CAGGGAGACAAGATCTGCTATCTTC-AGTCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGA-TCTAC
*
47130162 TTCGCTACCAATACAGGAAGACAAGA-CTTACTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATC-TACTATCTTCGATCTAC
* *
47130207 TTTGCTGCCAATACAGGAAGACAAGATCTA-TAATCTTCGACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTACT-ATCTTCGATCTAC
47130252 T
1 T
47130253 CTACTACTAC
Statistics
Matches: 423, Mismatches: 89, Indels: 52
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.00
43 3 0.01
44 95 0.22
45 313 0.74
46 8 0.02
47 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
TTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCGATCTAC
Found at i:47129847 original size:134 final size:134
Alignment explanation
Indices: 47129698--47130022 Score: 447
Period size: 134 Copynumber: 2.4 Consensus size: 134
47129688 AGACAAGGTG
* * *
47129698 TGCTATCTTTAATCTACTTCACTGCCGATATAGGAAGACAAGATCTACAATCTTTGACCTACTCC
1 TGCTATCTTTAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGACCTACTCC
** * *
47129763 ACTGTTCCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAGACAA
66 ACTACTCCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAA
47129828 GACAT
131 GAC-T
** * *
47129833 T-CTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATAATCTTCGACCTACTCC
1 TGCTATCTTTAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGACCTACTCC
* * * ** * *
47129897 ACTACTGCTCAGTGAGACAAGATCTGTTATCTTCAGTCTACTTCACTGTCAATATAGAAAGATAA
66 ACTACTCCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAA
47129962 GACT
131 GACT
*
47129966 TGCTAAT-TTTAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTTGA
1 TGCT-ATCTTTAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGA
47130023 TCCACTTCGC
Statistics
Matches: 165, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
133 2 0.01
134 160 0.97
135 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (134 bp):
TGCTATCTTTAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGACCTACTCC
ACTACTCCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAA
GACT
Found at i:47130030 original size:90 final size:90
Alignment explanation
Indices: 47129711--47130252 Score: 241
Period size: 89 Copynumber: 6.1 Consensus size: 90
47129701 TATCTTTAAT
* * * * *
47129711 CTACTTCACTGCCGATATAGGAAGACAAGATCTACAATCTTTGA-CCTACTCCACTGTTCC--T-
1 CTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGATCC-ACTTCAC--TACCAATA
* * * * * **
47129772 CAGGGAGACAAGATCTGCTATCTTCAGT
63 CAGGAAAATAAGATCTACTAACTTCAAC
* * * * * * *
47129800 CTACTTCGCTACCAATACAGGAAGACAAGA-CATTCTATCTTCGATCTACTTCGCTGCCAATACA
1 CTACTTCGCTGCCAATACAGGAAGACAAGATC-TACAATCTTTGATCCACTTCACTACCAATACA
* * *
47129864 GGAAGACAAGATCTA-TAATCTTCGAC
65 GGAAAATAAGATCTACTAA-CTTCAAC
* * * *** *** * * ** *
47129890 CTACTCCACTACTGCT-CAGTG-AGACAAGATCTGTTATC-TTCAGTCTACTTCACTGTCAATAT
1 CTACTTCGCTGCCAATACAG-GAAGACAAGATCTACAATCTTTGA-TCCACTTCACTACCAATAC
* * * *
47129952 A-GAAAGATAAGA-CTTGCTAATTTTAAT
64 AGGAAA-ATAAGATC-TACTAACTTCAAC
* *
47129979 CTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTTGATCCACTTCGCTACCAATACAG
1 CTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGATCCACTTCACTACCAATACAG
* *
47130044 GAAAATAAGATCTACTACCTTCGAC
66 GAAAATAAGATCTACTAACTTCAAC
* * * * *****
47130069 CTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATCTTCGA-CCTACTCCATTGTTGCT-CA
1 CTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGATCC-ACTTCACTACCAATACA
* * * * * **
47130132 GGGAGACAAGATCTGCTATCTTCAGT
65 GGAAAATAAGATCTACTAACTTCAAC
* * * * ** *
47130158 CTACTTCGCTACCAATACAGGAAGACAAGA-CTTACTATCTTCGATCTACTTTGCTGCCAATACA
1 CTACTTCGCTGCCAATACAGGAAGACAAGATC-TACAATCTTTGATCCACTTCACTACCAATACA
* * *
47130222 GGAAGACAAGATCTA-TAATCTTCGAC
65 GGAAAATAAGATCTACTAA-CTTCAAC
47130248 CTACT
1 CTACT
47130253 CTACTACTAC
Statistics
Matches: 338, Mismatches: 93, Indels: 43
0.71 0.20 0.09
Matches are distributed among these distances:
87 3 0.01
88 8 0.02
89 165 0.49
90 154 0.46
91 8 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (90 bp):
CTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGATCCACTTCACTACCAATACAG
GAAAATAAGATCTACTAACTTCAAC
Found at i:47130077 original size:224 final size:224
Alignment explanation
Indices: 47129772--47130244 Score: 648
Period size: 224 Copynumber: 2.1 Consensus size: 224
47129762 CACTGTTCCT
* * * * *
47129772 CAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAGACAAGACATTCTA
1 CAGGAAGACAAGATCTACTATCTTCAGTCCACTTCGCTACCAATACAGGAAAACAAGACATACTA
* * *
47129837 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATAATCTTCGACCTACTCCACTAC
66 CCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACTAC
* * ** * *
47129902 TGCTCAGTGAGACAAGATCTGTTATCTTCAGTCTACTTCACTGTCAATATAGAAAGATAAGACTT
131 TGCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAAGACTT
* *
47129967 GCTAAT-TTTAATCTACTTCGCTGCCAATA
196 ACT-ATCTTCAATCTACTTCGCTGCCAATA
* *
47129996 CAGGAAGACAAGATCTACTATCTT-TGATCCACTTCGCTACCAATACAGGAAAATAAGATC-TAC
1 CAGGAAGACAAGATCTACTATCTTCAG-TCCACTTCGCTACCAATACAGGAAAACAAGA-CATAC
* *
47130059 TACCTTCGACCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATCTTCGACCTACTCCATT
64 TACCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACT
** * *
47130124 GTTGCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAGACAAGAC
129 ACTGCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAAGAC
* *
47130189 TTACTATCTTCGATCTACTTTGCTGCCAATA
194 TTACTATCTTCAATCTACTTCGCTGCCAATA
47130220 CAGGAAGACAAGATCTA-TAATCTTC
1 CAGGAAGACAAGATCTACT-ATCTTC
47130245 GACCTACTCT
Statistics
Matches: 218, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
223 4 0.02
224 213 0.98
225 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (224 bp):
CAGGAAGACAAGATCTACTATCTTCAGTCCACTTCGCTACCAATACAGGAAAACAAGACATACTA
CCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACTAC
TGCTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCACTACCAATACAGAAAGACAAGACTT
ACTATCTTCAATCTACTTCGCTGCCAATA
Found at i:47130293 original size:134 final size:134
Alignment explanation
Indices: 47129996--47130293 Score: 420
Period size: 134 Copynumber: 2.2 Consensus size: 134
47129986 GCTGCCAATA
* * * * *
47129996 CAGGAAGACAAGATCTACTATCTT-TGATCCACTTCGCTACCAATACAGGAAAATAAGATCTACT
1 CAGGGAGACAAGATCTGCTATCTTCAG-TCTACTTCGCTACCAATACAGGAAAACAAGATCTACT
* * *
47130060 ACCTTCGACCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATCTTCGACCTACTCCATTG
65 ACCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACTA
* *
47130125 TTGCT
130 CTACT
*
47130130 CAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAGACAAGA-CTTACT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAAACAAGATC-TACT
* * * * *
47130194 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTATAATCTTCGACCTACTCTACTA
65 ACCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACTA
47130259 CTACT
130 CTACT
47130264 CAGGGAGACAAGATCTGCTATCTTCAGTCT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCT
47130294 GCTCCACTGT
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
133 1 0.01
134 144 0.99
135 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (134 bp):
CAGGGAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGAAAACAAGATCTACTA
CCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTACTCCACTAC
TACT
Found at i:47131280 original size:14 final size:14
Alignment explanation
Indices: 47131242--47131280 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47131232 TGGCCTCTCC
*
47131242 TTTTTCTTTTTCTT
1 TTTTTCTTTTTATT
**
47131256 TTTTTAGTTTTATT
1 TTTTTCTTTTTATT
47131270 TTTTTCTTTTT
1 TTTTTCTTTTT
47131281 TTCTTTTCGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTATT
Found at i:47135787 original size:3 final size:3
Alignment explanation
Indices: 47135766--47135957 Score: 58
Period size: 3 Copynumber: 65.0 Consensus size: 3
47135756 TAGTTTAAAG
* * * *
47135766 ATA ATA A-A ATG ATA GTA ATA ATA AT- ACA ATG ATA ATA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
47135810 ATA ATA ATA CATTA TTA A-A CGA ATA ATA GTA GTAA ATAA ATAA ATA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA
* * * * * * * * *
47135856 AGA GTA ATA ATA GTA ATA ATA ATG GTA GTA A-A ATA AAA ACA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * **
47135902 ATA GTA ATA GTA ATA ACA GTA ATA ATA GTA ACG A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47135949 ATA ATA ATA
1 ATA ATA ATA
47135958 GGAATAAAGT
Statistics
Matches: 138, Mismatches: 41, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
2 13 0.09
3 112 0.81
4 11 0.08
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:47135788 original size:17 final size:17
Alignment explanation
Indices: 47135766--47135818 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 17
47135756 TAGTTTAAAG
47135766 ATAATAAAATGATAGTAATA
1 ATAATAAAATG--A-TAATA
*
47135786 ATAATACAATGATAATA
1 ATAATAAAATGATAATA
*
47135803 ATAA-AAAATAATAATA
1 ATAATAAAATGATAATA
47135819 CATTATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 10 0.33
17 9 0.30
18 1 0.03
20 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (17 bp):
ATAATAAAATGATAATA
Found at i:47135791 original size:20 final size:20
Alignment explanation
Indices: 47135766--47135806 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47135756 TAGTTTAAAG
*
47135766 ATAATAAAATGATAGTAATA
1 ATAATAAAATGATAATAATA
*
47135786 ATAATACAATGATAATAATA
1 ATAATAAAATGATAATAATA
47135806 A
1 A
47135807 AAAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAATAAAATGATAATAATA
Found at i:47139783 original size:10 final size:10
Alignment explanation
Indices: 47139768--47139792 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47139758 AAATTGAAAT
47139768 GAGCTCAAAC
1 GAGCTCAAAC
47139778 GAGCTCAAAC
1 GAGCTCAAAC
47139788 GAGCT
1 GAGCT
47139793 AATTTGAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.28, G:0.24, T:0.12
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:47141175 original size:25 final size:25
Alignment explanation
Indices: 47141144--47141201 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
47141134 GCTATAAATG
* *
47141144 GTAAGCTCCTTTGAGCTGAATAACA
1 GTAAGCTCCTCTGAGCTAAATAACA
**
47141169 GTAAGCTCCTCTGAGCTAAATAATG
1 GTAAGCTCCTCTGAGCTAAATAACA
47141194 GTAAGCTC
1 GTAAGCTC
47141202 ATACGAGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTAAGCTCCTCTGAGCTAAATAACA
Found at i:47141371 original size:20 final size:19
Alignment explanation
Indices: 47141346--47141383 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
47141336 TGGCAGCTAC
47141346 TCAATTCACAAACATATAAT
1 TCAATTCA-AAACATATAAT
*
47141366 TCAATTTAAAACATATAA
1 TCAATTCAAAACATATAA
47141384 ATGTACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
TCAATTCAAAACATATAAT
Found at i:47144144 original size:28 final size:27
Alignment explanation
Indices: 47144112--47144183 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
47144102 GGGTGAAATG
47144112 GGATAGCTTCAGCTATCAACTACAAAAA
1 GGATAGCTTC-GCTATCAACTACAAAAA
* *
47144140 GGATAACTTCGACTATCGACTACAAAAA
1 GGATAGCTTCG-CTATCAACTACAAAAA
47144168 GGATAGCTTCGGCTAT
1 GGATAGCTTC-GCTAT
47144184 TGATTATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
GGATAGCTTCGCTATCAACTACAAAAA
Found at i:47144218 original size:29 final size:30
Alignment explanation
Indices: 47144186--47144378 Score: 153
Period size: 30 Copynumber: 6.5 Consensus size: 30
47144176 TCGGCTATTG
* *
47144186 ATTATGAAAAGGGATGGAGACGACAATC-A
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* **
47144215 ATTATGGAAAGCAATGGTGACGACCATCAA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
* * * * *
47144245 ATTATAAAAAGGGATGGCT-TCGGCTATC-G
1 ATTATGAAAAGGGATGG-TGACGACCATCAA
* * * * *
47144274 ATCATGAAAAGGGCTGGCT-TCGGCTATCAA
1 ATTATGAAAAGGGATGG-TGACGACCATCAA
* *
47144304 ATTATGAAAAGGGATTGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAA
**
47144334 ACAATGTAAAA-GGATGGTGACGACCATCAA
1 ATTATG-AAAAGGGATGGTGACGACCATCAA
47144364 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
47144379 AGCCTTGGCT
Statistics
Matches: 128, Mismatches: 30, Indels: 11
0.76 0.18 0.07
Matches are distributed among these distances:
29 53 0.41
30 70 0.55
31 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGACGACCATCAA
Found at i:47144302 original size:25 final size:27
Alignment explanation
Indices: 47144251--47144318 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 27
47144241 TCAAATTATA
47144251 AAAAGGGATGGCTTCGGCTATCGATCATG
1 AAAAGGGATGGCTTCGGC-ATC-ATCATG
* *
47144280 AAAAGGGCTGGCTTCGGCTATCAAATTATG
1 AAAAGGGATGGCTTCGGC-ATC--ATCATG
47144310 AAAAGGGAT
1 AAAAGGGAT
47144319 TGTGACGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (27 bp):
AAAAGGGATGGCTTCGGCATCATCATG
Found at i:47144313 original size:30 final size:30
Alignment explanation
Indices: 47144240--47144409 Score: 116
Period size: 30 Copynumber: 5.7 Consensus size: 30
47144230 GGTGACGACC
*
47144240 ATCAAATTATAAAAAGGGATGGCTTCGGCT
1 ATCAAATTATGAAAAGGGATGGCTTCGGCT
* * *
47144270 ATC-GATCATGAAAAGGGCTGGCTTCGGCT
1 ATCAAATTATGAAAAGGGATGGCTTCGGCT
* * * *
47144299 ATCAAATTATGAAAAGGGATTG-TGACGACC
1 ATCAAATTATGAAAAGGGATGGCT-TCGGCT
* ** * * *
47144329 ATCGAACAATGTAAAA-GGATGG-TGACGACC
1 ATCAAATTATG-AAAAGGGATGGCT-TCGGCT
*
47144359 ATCAAATTATGAAAAGGGATAGCCTT-GGCT
1 ATCAAATTATGAAAAGGGAT-GGCTTCGGCT
* *
47144389 ATCAAATAAAGAAAAGGGATG
1 ATCAAATTATGAAAAGGGATG
47144410 TGTCAACCAT
Statistics
Matches: 110, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
29 31 0.28
30 73 0.66
31 5 0.05
32 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGCTTCGGCT
Found at i:47144409 original size:60 final size:58
Alignment explanation
Indices: 47144228--47144409 Score: 143
Period size: 60 Copynumber: 3.1 Consensus size: 58
47144218 ATGGAAAGCA
* * * *
47144228 ATGGTGACGACCATCAAATTATAAAAAGGGATGGCTTCGGCTATCGATCATGAAAAGGG
1 ATGGTGACGACCATCAAATTATGAAAAGGGATGCCTT-GGCTATCAATAATGAAAAGGG
* * * * **** * * *
47144287 CTGGCT-TCGGCTATCAAATTATGAAAAGGGATTGTGACGACCATCGAACAATGTAAAA-GG
1 ATGG-TGACGACCATCAAATTATGAAAAGGGA-TGCCTTGGCTATC-AATAATG-AAAAGGG
*
47144347 ATGGTGACGACCATCAAATTATGAAAAGGGATAGCCTTGGCTATCAAATAAAGAAAAGGG
1 ATGGTGACGACCATCAAATTATGAAAAGGGAT-GCCTTGGCTATC-AATAATGAAAAGGG
47144407 ATG
1 ATG
47144410 TGTCAACCAT
Statistics
Matches: 89, Mismatches: 27, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
59 35 0.39
60 50 0.56
61 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (58 bp):
ATGGTGACGACCATCAAATTATGAAAAGGGATGCCTTGGCTATCAATAATGAAAAGGG
Found at i:47145659 original size:21 final size:20
Alignment explanation
Indices: 47145618--47145662 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47145608 CCCCCTGCAG
* * *
47145618 TTTGAAAATTTTTATCTTTT
1 TTTGAAAAATTCTATATTTT
*
47145638 TTTGAAAAATTCTATATGTT
1 TTTGAAAAATTCTATATTTT
47145658 TTTGA
1 TTTGA
47145663 TTTAGCCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTGAAAAATTCTATATTTT
Found at i:47148717 original size:14 final size:14
Alignment explanation
Indices: 47148698--47148725 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47148688 CCAATTTATT
47148698 AATGAATTATTAAA
1 AATGAATTATTAAA
47148712 AATGAATTATTAAA
1 AATGAATTATTAAA
47148726 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:47150743 original size:35 final size:35
Alignment explanation
Indices: 47150493--47150748 Score: 323
Period size: 35 Copynumber: 7.3 Consensus size: 35
47150483 AGTCCAACTA
** * * *
47150493 TAACACGCTGATGCTTATAAGAGCTAACCCAACTG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
* * *
47150528 AAACACGCTAATGCTCATAAGAGTTAATCCAACCG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
* ** * *
47150563 TAACATGCCAAAACTCATAAGAGTTAATCCAATCG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
*
47150598 TAACACGGCAATGCTCATAAGAGCTAATCCAACCG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
* * *
47150633 TAACACGCCAATGCTCATAAGAGCTAATTCGACCA
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
**
47150668 TAACACGCCAATGCTCATAAGAGCTAATCTTACCG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
*
47150703 TAACACGCCAATGCTCATAAGAGTTAATCCAACCG
1 TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
*
47150738 AAACACGCCAA
1 TAACACGCCAA
47150749 ACAGGGAGTA
Statistics
Matches: 191, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 191 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.20
Consensus pattern (35 bp):
TAACACGCCAATGCTCATAAGAGCTAATCCAACCG
Found at i:47158268 original size:35 final size:35
Alignment explanation
Indices: 47158229--47158468 Score: 217
Period size: 35 Copynumber: 6.9 Consensus size: 35
47158219 CACACCGATG
* * * *
47158229 CTCATAAGATCTAACCCAATCGAAACACGCCAGTA
1 CTCATAAGAGCTAATCCAATCGTAACACGCCAATA
* *
47158264 CTCATAAGAGCAAATCCAACCGTAACACGCCAATA
1 CTCATAAGAGCTAATCCAATCGTAACACGCCAATA
* *
47158299 CTCATAAGAGCTAATCCAA-CTGTAACACGACAATT
1 CTCATAAGAGCTAATCCAATC-GTAACACGCCAATA
* * *
47158334 CTCATAAGATCTAATCCAATCGTTACACACC---A
1 CTCATAAGAGCTAATCCAATCGTAACACGCCAATA
** *
47158366 CTCATAAGAGCTAATTTAA-CAATAACACGCCAATGA
1 CTCATAAGAGCTAATCCAATC-GTAACACGCCAAT-A
* *
47158402 -TCATATGAGCTAATCCAA-C-TATAGCACGCCAATG
1 CTCATAAGAGCTAATCCAATCGTA-A-CACGCCAATA
* *
47158436 CTCATAAGAGCTAATCCAACCGAAACACGCCAA
1 CTCATAAGAGCTAATCCAATCGTAACACGCCAA
47158469 ACAAGGAGTA
Statistics
Matches: 167, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
31 1 0.01
32 23 0.14
33 2 0.01
34 2 0.01
35 134 0.80
36 4 0.02
37 1 0.01
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCTAATCCAATCGTAACACGCCAATA
Found at i:47158412 original size:102 final size:103
Alignment explanation
Indices: 47158208--47158468 Score: 303
Period size: 102 Copynumber: 2.5 Consensus size: 103
47158198 ACATCGTAAG
* * *
47158208 TCCAACTATAACAC-ACCGATGCTCATAAGATCTAACCCAATCGAAACACGCCAGTACTCATAAG
1 TCCAACTATAACACGA-CAATGCTCATAAGATCTAATCCAATCGAAACACACCA--ACTCATAAG
**
47158272 AGCAAATCCAACCGTAACACGCCAATACTCATAAGAGCTAA
63 AGCAAATCCAACAATAACACGCCAATACTCATAAGAGCTAA
* * **
47158313 TCCAACTGTAACACGACAATTCTCATAAGATCTAATCCAATCGTTACACACC-ACTCATAAGAGC
1 TCCAACTATAACACGACAATGCTCATAAGATCTAATCCAATCGAAACACACCAACTCATAAGAGC
* ** *
47158377 TAATTTAACAATAACACGCCAATGA-TCATATGAGCTAA
66 AAATCCAACAATAACACGCCAAT-ACTCATAAGAGCTAA
* * * * *
47158415 TCCAACTATAGCACGCCAATGCTCATAAGAGCTAATCCAACCGAAACACGCCAA
1 TCCAACTATAACACGACAATGCTCATAAGATCTAATCCAATCGAAACACACCAA
47158469 ACAAGGAGTA
Statistics
Matches: 131, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
102 85 0.65
103 2 0.02
105 43 0.33
106 1 0.01
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (103 bp):
TCCAACTATAACACGACAATGCTCATAAGATCTAATCCAATCGAAACACACCAACTCATAAGAGC
AAATCCAACAATAACACGCCAATACTCATAAGAGCTAA
Found at i:47159569 original size:33 final size:33
Alignment explanation
Indices: 47159532--47159634 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
47159522 TCAACTATTA
47159532 ACTAATCAATTTGATCTCCTAATTGTAATAATT
1 ACTAATCAATTTGATCTCCTAATTGTAATAATT
* * **
47159565 ACTAAT--TTTTG-TACT--TTATCCTCAACT-ATT
1 ACTAATCAATTTGAT-CTCCTAATTGT-AA-TAATT
*
47159595 AACTAATCAATTTGATTTCCTAATTGTAATAATT
1 -ACTAATCAATTTGATCTCCTAATTGTAATAATT
47159629 ACTAAT
1 ACTAAT
47159635 TTTTGTACTT
Statistics
Matches: 51, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
29 4 0.08
30 6 0.12
31 13 0.25
33 18 0.35
34 6 0.12
35 4 0.08
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.45
Consensus pattern (33 bp):
ACTAATCAATTTGATCTCCTAATTGTAATAATT
Found at i:47159586 original size:64 final size:64
Alignment explanation
Indices: 47159518--47159645 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
47159508 ACTTAAGTCC
47159518 ATCCTCAACTATTAACTAATCAATTTGATCTCCTAATTGTAATAATTACTAATTTTTGTACTTT
1 ATCCTCAACTATTAACTAATCAATTTGATCTCCTAATTGTAATAATTACTAATTTTTGTACTTT
*
47159582 ATCCTCAACTATTAACTAATCAATTTGATTTCCTAATTGTAATAATTACTAATTTTTGTACTTT
1 ATCCTCAACTATTAACTAATCAATTTGATCTCCTAATTGTAATAATTACTAATTTTTGTACTTT
47159646 CTTTTTACAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (64 bp):
ATCCTCAACTATTAACTAATCAATTTGATCTCCTAATTGTAATAATTACTAATTTTTGTACTTT
Found at i:47160777 original size:16 final size:16
Alignment explanation
Indices: 47160758--47160788 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47160748 GAATATAAAA
*
47160758 TGTTGAATCGATAACT
1 TGTTGAATCAATAACT
47160774 TGTTGAATCAATAAC
1 TGTTGAATCAATAAC
47160789 AATTATGTTG
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:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (16 bp):
TGTTGAATCAATAACT
Found at i:47165782 original size:484 final size:482
Alignment explanation
Indices: 47164817--47165783 Score: 1623
Period size: 482 Copynumber: 2.0 Consensus size: 482
47164807 TTTATGCTAC
* *
47164817 TAAGTCTTATGCTAACCGTTTAGTGTTGAAACAACATCTATTTACATTTCGCATAAACGAAGATA
1 TAAGTCTCAGGCTAACCGTTTAGTGTTGAAACAACATCTATTTACATTTCGCATAAACGAAGATA
* * *
47164882 AGCTTCTTAGAGATCACATCAGTCAATTCATTACTCTTTTAAATGATTTAAAGAATGTTGAAGTT
66 AGATTCTTAGAGATCACATCAGCCAATTCATTACTCTTTTAAATAATTTAAAGAATGTTGAAGTT
* * * *
47164947 TATATTGACGATGAAGATCAGGCTACGCTATTATTGTGCTCTTTACCCCCTTCATACAAGTCTTT
131 CATATTGACGATGAAGATCAGGCTACACTATTATTATACTCTTTACCCCCTTCATACAAGTCTTT
* * *
47165012 TAAGGAGACCTTGATTTATGGCAGAGACAAACTCTCGTTCGAAGATGTGAGGGTCATTTTTGAGT
196 CAAGGAGACCCTAATTTATGGCAGAGACAAACTCTCGTTCGAAGATGTGAGGGTCATTTTTGAGT
* * **
47165077 AGAGACAAACTGGACAATGAGTTTGGTTTGGATAGCAATGCAGGTAGGCAAGCTTTCGTTTTGGT
261 AGAGACAAACTGGACAATGAGTTTGGTTTGGATAGCAAGGCAGGTAGACAAGCTACCGTTTTGGT
* * *
47165142 AGCATCAAAGAAACGAGACAAAAGGTGTCGCTATTGTAAAAAGTTAGGTCATGTCAAAGTAGATT
326 AGCATCAAAGAAACGAGACAAAAGGTGTCGCTATTGTAAAAAGTTAGGTCACGTCAAAGCAAATT
*
47165207 GTTATAAACTGCAAAATAAAAGAGCTGCTGAGAGTAACGAGGAAGATGTAGCTGGTGCTAATTTG
391 GTTATAAACTGCAAAATAAAAGAGCTGCTGAGAGTAACGAGGAAGATGCAGCTGGTGCTAATTTG
*
47165272 GCCGATGAAAGTGGTGATGATTTCTTG
456 GCCGATGAAAGCGGTGATGATTTCTTG
* *
47165299 TAAGTCTCAGGCTAACCGTTTAGTGTTGAAACAACATCTATTTACGTTTCGCATGAACGAATG-T
1 TAAGTCTCAGGCTAACCGTTTAGTGTTGAAACAACATCTATTTACATTTCGCATAAACGAA-GAT
* *
47165363 GAGATTCTTAGAGATCACATCAGCCAATTCATTACTCTTTTAAATAATTTAAAGAATGTTGAGGT
65 AAGATTCTTAGAGATCACATCAGCCAATTCATTACTCTTTTAAATAATTTAAAGAATGTTGAAGT
47165428 TCATATTGACGATGAAGATCAGGCTACACTATTATTATACTCTTTACCCCCTTCATACAAGTCTT
130 TCATATTGACGATGAAGATCAGGCTACACTATTATTATACTCTTTACCCCCTTCATACAAGTCTT
* *
47165493 TCAAGGAGACCCTAATTTATGGTAGAGATAAACTCTCGTTCGAAGATGTGAAGGGTCATTTGTTG
195 TCAAGGAGACCCTAATTTATGGCAGAGACAAACTCTCGTTCGAAGATGTG-AGGGTCATTT-TTG
47165558 AGTAGAGACAAACTGGACAATGAGTTTGGTTTGGATAGCAAGGCAGGTAGACAAGCTACCGTTTT
258 AGTAGAGACAAACTGGACAATGAGTTTGGTTTGGATAGCAAGGCAGGTAGACAAGCTACCGTTTT
*
47165623 GGTAGCATCAAAGAAACGAGACAAAAGGTGTCTCTATTGTAAAAAGTTAGGTCACGTCAAAGCAA
323 GGTAGCATCAAAGAAACGAGACAAAAGGTGTCGCTATTGTAAAAAGTTAGGTCACGTCAAAGCAA
*
47165688 ATTGTTATAAACTGCGAAATAAAAGAGCTGCTGAGAGTAACGAGGAAGATGCAGCTGGTGCTAAT
388 ATTGTTATAAACTGCAAAATAAAAGAGCTGCTGAGAGTAACGAGGAAGATGCAGCTGGTGCTAAT
47165753 TTGGCCGAT-AAATGCGGTGATGATTTCTTG
453 TTGGCCGATGAAA-GCGGTGATGATTTCTTG
47165783 T
1 T
47165784 TAGTGTCAAT
Statistics
Matches: 452, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
482 224 0.50
483 14 0.03
484 214 0.47
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (482 bp):
TAAGTCTCAGGCTAACCGTTTAGTGTTGAAACAACATCTATTTACATTTCGCATAAACGAAGATA
AGATTCTTAGAGATCACATCAGCCAATTCATTACTCTTTTAAATAATTTAAAGAATGTTGAAGTT
CATATTGACGATGAAGATCAGGCTACACTATTATTATACTCTTTACCCCCTTCATACAAGTCTTT
CAAGGAGACCCTAATTTATGGCAGAGACAAACTCTCGTTCGAAGATGTGAGGGTCATTTTTGAGT
AGAGACAAACTGGACAATGAGTTTGGTTTGGATAGCAAGGCAGGTAGACAAGCTACCGTTTTGGT
AGCATCAAAGAAACGAGACAAAAGGTGTCGCTATTGTAAAAAGTTAGGTCACGTCAAAGCAAATT
GTTATAAACTGCAAAATAAAAGAGCTGCTGAGAGTAACGAGGAAGATGCAGCTGGTGCTAATTTG
GCCGATGAAAGCGGTGATGATTTCTTG
Found at i:47169879 original size:13 final size:13
Alignment explanation
Indices: 47169861--47169898 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47169851 AAATAATGAT
47169861 TTATTTATATATA
1 TTATTTATATATA
*
47169874 TTATTTAGATA-A
1 TTATTTATATATA
47169886 TTATTTGATATAT
1 TTATTT-ATATAT
47169899 TAACTGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (13 bp):
TTATTTATATATA
Found at i:47178104 original size:109 final size:109
Alignment explanation
Indices: 47177921--47178127 Score: 396
Period size: 109 Copynumber: 1.9 Consensus size: 109
47177911 TTAAAATATG
47177921 GAGGTAATTTTGTAAATTCATATTGATAAGGGTTATAAGTTTGAGTTAATTATTTTAAGTTATTT
1 GAGGTAATTTTGTAAATTCATATTGATAAGGGTTATAAGTTTGAGTTAATTATTTTAAGTTATTT
* *
47177986 GAATGGTTTAATTGAATGAAATTTATTATCTAGGTAAAAATGTA
66 GAATGGTTTAATTGAATGAAATGTATTACCTAGGTAAAAATGTA
47178030 GAGGTAATTTTGTAAATTCATATTGATAAGGGTTATAAGTTTGAGTTAATTATTTTAAGTTATTT
1 GAGGTAATTTTGTAAATTCATATTGATAAGGGTTATAAGTTTGAGTTAATTATTTTAAGTTATTT
47178095 GAATGGTTTAATTGAATGAAATGTATTACCTAG
66 GAATGGTTTAATTGAATGAAATGTATTACCTAG
47178128 ATCAAGAAAC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 96 1.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (109 bp):
GAGGTAATTTTGTAAATTCATATTGATAAGGGTTATAAGTTTGAGTTAATTATTTTAAGTTATTT
GAATGGTTTAATTGAATGAAATGTATTACCTAGGTAAAAATGTA
Found at i:47178424 original size:44 final size:45
Alignment explanation
Indices: 47178360--47178479 Score: 163
Period size: 44 Copynumber: 2.7 Consensus size: 45
47178350 CATTTTACCC
47178360 GAAATGAGA-AAGACTATAGTTGAAAGATACTATGGCACTAAACAA
1 GAAATGA-ATAAGACTATAGTTGAAAGATACTATGGCACTAAACAA
* * **
47178405 G-AATGAATAAGACCATAGTTGAAAGATACCATGGCACTAAACCG
1 GAAATGAATAAGACTATAGTTGAAAGATACTATGGCACTAAACAA
**
47178449 GAAATGCGTAAGACTATAGTTGAAAGATACT
1 GAAATGAATAAGACTATAGTTGAAAGATACT
47178480 TAACGATCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.58
45 26 0.40
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
GAAATGAATAAGACTATAGTTGAAAGATACTATGGCACTAAACAA
Found at i:47178476 original size:45 final size:45
Alignment explanation
Indices: 47178334--47178478 Score: 175
Period size: 45 Copynumber: 3.2 Consensus size: 45
47178324 AAGACCATGA
* * ** * *
47178334 TTGAAAGATATCATGGCATTTTACCCGAAATGAGAAAGACTATAG
1 TTGAAAGATACCATGGCACTAAACCAGAAATGAGTAAGACTATAG
* * * *
47178379 TTGAAAGATACTATGGCACTAAACAAG-AATGAATAAGACCATAG
1 TTGAAAGATACCATGGCACTAAACCAGAAATGAGTAAGACTATAG
* *
47178423 TTGAAAGATACCATGGCACTAAACCGGAAATGCGTAAGACTATAG
1 TTGAAAGATACCATGGCACTAAACCAGAAATGAGTAAGACTATAG
47178468 TTGAAAGATAC
1 TTGAAAGATAC
47178479 TTAACGATCA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 38 0.46
45 45 0.54
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (45 bp):
TTGAAAGATACCATGGCACTAAACCAGAAATGAGTAAGACTATAG
Found at i:47185161 original size:14 final size:14
Alignment explanation
Indices: 47185142--47185175 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
47185132 ATTTATAAAA
47185142 ATAAATATACATAT
1 ATAAATATACATAT
47185156 ATAAATATACATAT
1 ATAAATATACATAT
47185170 ATAAAT
1 ATAAAT
47185176 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATATACATAT
Found at i:47187083 original size:40 final size:43
Alignment explanation
Indices: 47187017--47187137 Score: 115
Period size: 44 Copynumber: 2.9 Consensus size: 43
47187007 ATTCGTCATT
* * * *
47187017 TTGAGTCTGCCCCACTGCAACCTCAGAGAGATAAGA-CT-AGA
1 TTGAATCTGCTCCATTGCAACTTCAGAGAGATAAGATCTGAGA
* * *
47187058 -TGAGATCTGCT-CTTTGCAACTTCAGAGAGCTAAGATCTGTGA
1 TTGA-ATCTGCTCCATTGCAACTTCAGAGAGATAAGATCTGAGA
* *
47187100 TTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGAT
1 -TTGAATCTGCTCCATTGCAACTTCAGAGAGATAAGAT
47187138 TATAGGCTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
40 23 0.37
41 7 0.11
42 2 0.03
43 7 0.11
44 24 0.38
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
TTGAATCTGCTCCATTGCAACTTCAGAGAGATAAGATCTGAGA
Found at i:47187312 original size:218 final size:218
Alignment explanation
Indices: 47187020--47187616 Score: 849
Period size: 218 Copynumber: 2.7 Consensus size: 218
47187010 CGTCATTTTG
* * * * * * * * *
47187020 AGTCTGCCCCACTGCAACCTCAGAGAGATAAGACTAGATGAGATCTGCTCT-TTGCAACTTCAGA
1 AGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGATGCGATTTACTCTACTGCCACTTCAGA
* * *
47187084 GAGCTAAGATCTGTGATTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTATAGGCTTAA
66 GAGATAAGATCTGTTATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTAA
*
47187149 ATCTACTTCACTACAACTTCAGGGAGATAAGATTCGTCATTTTGGGTCTGCCCCACTGCAACTTT
131 ATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATTTTGGGTCTGCCCCACTGCAACTTT
*
47187214 CGGGGGATAAAACCTGCTTATTC
196 CGGAGGATAAAACCTGCTTATTC
* *
47187237 AGTCTGCTCCACTATAACCTCAGGGAGATAAGACTTGATGCGATTTACTCTACTGCCACTTTAGA
1 AGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGATGCGATTTACTCTACTGCCACTTCAGA
*
47187302 GAGATAAGATCTGTTATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTAA
66 GAGATAAGATCTGTTATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTAA
* * *
47187367 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATTTTGGGTCTGCCCCACTGCAACTTT
131 ATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATTTTGGGTCTGCCCCACTGCAACTTT
47187432 CGGAGGATAAAACCTGCTTATTC
196 CGGAGGATAAAACCTGCTTATTC
* *
47187455 AGTCTGCTCCACTGTAACCTCAGGGAGACAAGACTTGATACGATTTACTCTACTGCCACTTCAGA
1 AGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGATGCGATTTACTCTACTGCCACTTCAGA
* * * * * * * * * *
47187520 GAGATAAGATCTGTTATTTTAATCCGCTTCGCTGTAACCTCAAGGAAATAGGATTATTGGCTTTA
66 GAGATAAGATCTGTTATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTAA
* * *
47187585 ATCT-GTGCCACTACTACTT-AGGGATATAAGAT
131 ATCTACT-CCACTACAACTTCAGGGAGATAAGAT
47187617 CTGTCATCTT
Statistics
Matches: 341, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
217 56 0.16
218 285 0.84
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
AGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGATGCGATTTACTCTACTGCCACTTCAGA
GAGATAAGATCTGTTATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTAA
ATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATTTTGGGTCTGCCCCACTGCAACTTT
CGGAGGATAAAACCTGCTTATTC
Found at i:47187350 original size:44 final size:44
Alignment explanation
Indices: 47187072--47187717 Score: 220
Period size: 44 Copynumber: 14.8 Consensus size: 44
47187062 ATCTGCTCTT
* * * * *
47187072 TGCAACTTCAGAGAGCTAAGATCTGTGATTTTAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
* * * * *
47187116 TGCAACTTCAGGGAGATAAGAT-T-ATAGGCTTAAATCTACTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGTTA--TTTCAATCTGCTCCAC
* * *** *
47187160 TACAACTTCAGGGAGATAAGAT-TCGTCATTTTGGGTCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATCT-GTTA-TTTCAATCTGCTCCAC
* * * *
47187205 TGCAACTTTC-GGGGGATAAAACCTGCTTA-TTCAGTCTGCTCCAC
1 TGCAAC-TTCAGGGAGATAAGATCTG-TTATTTCAATCTGCTCCAC
** * * * * * * *
47187249 TATAACCTCAGGGAGATAAGA-CT-TGA-TGCGATTTACTCTAC
1 TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
* * * *
47187290 TGCCACTTTAGAGAGATAAGATCTGTTATTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
* * * *
47187334 TGCAACTTCAGGGAGATAGGAT-T-ATAGGCTTAAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGTTA--TTTCAATCTGCTCCAC
* * *** *
47187378 TGCAACTTCAGGGAGATAAGATTTGTCATTTTGGGTCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATCTGTTA-TTTCAATCTGCTCCAC
* * *
47187423 TGCAACTTTC--GGAGGATAAAACCTGCTTA-TTCAGTCTGCTCCAC
1 TGCAAC-TTCAGGGA-GATAAGATCTG-TTATTTCAATCTGCTCCAC
* * * * * * * * *
47187467 TGTAACCTCAGGGAGACAAGA-CT-TGA-TACGATTTACTCTAC
1 TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
* * * * * *
47187508 TGCCACTTCAGAGAGATAAGATCTGTTATTTTAATCCGCTTCGC
1 TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
* * * * * * *
47187552 TGTAACCTCAAGGAAATAGGAT-TATTGGCTTT-AATCTG-TGCCAC
1 TGCAACTTCAGGGAGATAAGATCTGTT--ATTTCAATCTGCT-CCAC
* * * * *
47187596 TACTACTT-AGGGATATAAGATCTGTCATCTTCGATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGTTAT-TTCAATCTGCTCCAC
* ** ** * *
47187640 TACTGCTT-AGGGAGATAAGATCTGGGGACTTCGATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCT-GTTATTTCAATCTGCTCCAC
* ** *
47187684 TACTGCTT-AGGGAGATAAGATCTGTAATCTTCAA
1 TGCAACTTCAGGGAGATAAGATCTGTTAT-TTCAA
47187718 CCTACTTCAC
Statistics
Matches: 436, Mismatches: 134, Indels: 64
0.69 0.21 0.10
Matches are distributed among these distances:
41 53 0.12
42 8 0.02
43 32 0.07
44 271 0.62
45 59 0.14
46 13 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATCTGTTATTTCAATCTGCTCCAC
Found at i:47187729 original size:44 final size:44
Alignment explanation
Indices: 47187592--47187863 Score: 235
Period size: 44 Copynumber: 6.2 Consensus size: 44
47187582 TTAATCTGTG
* * * * * *
47187592 CCACTACTACTTAGGGATATAAGATCTGTCATCTTCGATCTGCT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
** * * *
47187636 CCACTACTGCTTAGGGAGATAAGATCTGGGGA-CTTCGATCTGCT
1 CCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCAACCTACT
47187680 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
* * * *** ** * *
47187724 TCACTACTGCTTAGGGAGACAAG-GCTGGGGTCTTTGATCTGCT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
* *
47187767 CCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAACCTATT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
* * ** * * *
47187811 CCTCTGCTGCACAGGGAGATAGGA-CTTGCAATCTTCAACCTATT
1 CCACTACTGCTTAGGGAGATAAGATC-TGTAATCTTCAACCTACT
47187855 CCACTACTG
1 CCACTACTG
47187864 ACCAAGGAGA
Statistics
Matches: 184, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
43 35 0.19
44 147 0.80
45 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACT
Found at i:47187788 original size:87 final size:88
Alignment explanation
Indices: 47187592--47187808 Score: 319
Period size: 88 Copynumber: 2.5 Consensus size: 88
47187582 TTAATCTGTG
* * * * * * *
47187592 CCACTACTACTTAGGGATATAAGATCTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTTAGGGAGACA
*
47187657 AGATCTGGGGACTTCGATCTGCT
66 AGAGCTGGGGACTTCGATCTGCT
*
47187680 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTTCACTACTGCTTAGGGAGACA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTTAGGGAGACA
* *
47187745 AG-GCTGGGGTCTTTGATCTGCT
66 AGAGCTGGGGACTTCGATCTGCT
*
47187767 CCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAACCTA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTA
47187809 TTCCTCTGCT
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 58 0.50
88 59 0.50
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (88 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTTAGGGAGACA
AGAGCTGGGGACTTCGATCTGCT
Found at i:47187828 original size:131 final size:131
Alignment explanation
Indices: 47187623--47187863 Score: 308
Period size: 131 Copynumber: 1.8 Consensus size: 131
47187613 AGATCTGTCA
* * * * *
47187623 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGGGACTTCGATCTGCTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGGGAACTTCAACCTACTCCACTACT
** *
47187688 GCTTAGGGAGATAAGA-TCTGTAATCTTCAACCTACTT-CACTACTGCTTAGGGAGACAAGGCTG
66 GCACAGGGAGATAAGACT-TGCAATCTTCAACCTA-TTCCACTACTGCTTAGGGAGACAAGGCTG
47187751 GGG
129 GGG
* * * * *
47187754 TCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCT-GTAATCTTCAACCTATTCCTCTGC
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGGGAA-CTTCAACCTACTCCACTAC
*
47187818 TGCACAGGGAGATAGGACTTGCAATCTTCAACCTATTCCACTACTG
65 TGCACAGGGAGATAAGACTTGCAATCTTCAACCTATTCCACTACTG
47187864 ACCAAGGAGA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
130 4 0.04
131 88 0.95
132 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGGGAACTTCAACCTACTCCACTACT
GCACAGGGAGATAAGACTTGCAATCTTCAACCTATTCCACTACTGCTTAGGGAGACAAGGCTGGG
G
Found at i:47187829 original size:87 final size:88
Alignment explanation
Indices: 47187592--47187812 Score: 311
Period size: 87 Copynumber: 2.5 Consensus size: 88
47187582 TTAATCTGTG
* * * * * ** *
47187592 CCACTACTACTTAGGGATATAAGATCTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACTGCTTAGGGAGACA
*
47187657 AGATCTGGGGACTTCGATCTGCT
66 AGAGCTGGGGACTTCGATCTGCT
47187680 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTT-CACTACTGCTTAGGGAGAC
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTA-TTCCACTACTGCTTAGGGAGAC
* *
47187744 AAG-GCTGGGGTCTTTGATCTGCT
65 AAGAGCTGGGGACTTCGATCTGCT
*
47187767 CCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAACCTATTCC
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCC
47187813 TCTGCTGCAC
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
86 2 0.02
87 59 0.50
88 57 0.48
89 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (88 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACTGCTTAGGGAGACA
AGAGCTGGGGACTTCGATCTGCT
Found at i:47187873 original size:44 final size:44
Alignment explanation
Indices: 47187766--47187925 Score: 182
Period size: 44 Copynumber: 3.6 Consensus size: 44
47187756 TTTGATCTGC
** * *
47187766 TCCACTACTGCTTAAGGAGATAAGA-TCTGTAATCTTCAACCTAT
1 TCCACTACTGCACAAGGAGATAGGACT-TGCAATCTTCAACCTAT
* * *
47187810 TCCTCTGCTGCACAGGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTACTGCACAAGGAGATAGGACTTGCAATCTTCAACCTAT
*
47187854 TCCACTACTG-ACCAAGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTACTGCA-CAAGGAGATAGGACTTGCAATCTTCAACCTAT
* *
47187898 TCCACTGCTG-ACCAGGGAGATAGGACTT
1 TCCACTACTGCA-CAAGGAGATAGGACTT
47187926 AAGTTTCACC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 99 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
TCCACTACTGCACAAGGAGATAGGACTTGCAATCTTCAACCTAT
Found at i:47187926 original size:44 final size:44
Alignment explanation
Indices: 47187796--47187926 Score: 210
Period size: 44 Copynumber: 3.0 Consensus size: 44
47187786 TAAGATCTGT
* *
47187796 AATCTTCAACCTATTCCTCTGCTG-CACAGGGAGATAGGACTTGC
1 AATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTTAC
* *
47187840 AATCTTCAACCTATTCCACTACTGACCAAGGAGATAGGACTTAC
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTAC
47187884 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTA
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTA
47187927 AGTTTCACCG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 79 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTAC
Found at i:47195589 original size:104 final size:104
Alignment explanation
Indices: 47195409--47195632 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
47195399 TGTATATAAA
** * *
47195409 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47195474 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47195513 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47195577 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
47195617 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47195633 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47195697 original size:26 final size:26
Alignment explanation
Indices: 47195662--47195713 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
47195652 AAATGAAAAG
* *
47195662 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
47195688 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
47195714 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:47195700 original size:70 final size:72
Alignment explanation
Indices: 47195551--47195701 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
47195541 TCATTGGTGG
* *
47195551 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47195616 GAGGGGT
66 GAGGGGT
***
47195623 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47195686 GAGGGGT
66 GAGGGGT
47195693 TGCTAAGTG
1 TGCTAAGTG
47195702 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Done.